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| | ramA | 30S ribosomal protein S4; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit. (206 aa) |
| | rpoA | DNA-directed RNA polymerase alpha chain; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (329 aa) |
| | rplQ | Similar to Escherichia coli 50S ribosomal protein L17 RplQ SW:RL17_ECOLI (P02416) (127 aa) fasta scores: E(): 0, 94.5% id in 127 aa. (129 aa) |
| | YPO0236 | MerR-family transcriptional regulator; Similar to Escherichia coli zinc responsive regulator of the zinc/cadmium expoter, ZntR SW:ZNTR_ECOLI (P36676) (141 aa) fasta scores: E(): 0, 69.6% id in 135 aa. (141 aa) |
| | YPO0237 | Similar to Escherichia coli hypothetical protein YhdL SW:YHDL_ECOLI (P36675) (72 aa) fasta scores: E(): 5.5e-17, 69.4% id in 62 aa. (66 aa) |
| | spoU | tRNA (guanosine-2'-O-)-methyltransferase; Catalyzes the 2'-O methylation of guanosine at position 18 in tRNA; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (230 aa) |
| | rpoZ | DNA-directed RNA polymerase, omega chain; Promotes RNA polymerase assembly. Latches the N- and C- terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits. (91 aa) |
| | rph | Ribonuclease PH; Phosphorolytic 3'-5' exoribonuclease that plays an important role in tRNA 3'-end maturation. Removes nucleotide residues following the 3'-CCA terminus of tRNAs; can also add nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates, but this may not be physiologically important. Probably plays a role in initiation of 16S rRNA degradation (leading to ribosome degradation) during starvation. (238 aa) |
| | rpmB | Similar to Escherichia coli 50S ribosomal protein L28 RpmB SW:RL28_ECOLI (P02428) (77 aa) fasta scores: E(): 1.1e-32, 92.2% id in 77 aa; Belongs to the bacterial ribosomal protein bL28 family. (78 aa) |
| | rpmG | 50S ribosomal protein L33; Similar to Escherichia coli and Salmonella typhimurium 50S ribosomal protein L33 SW:RL33_ECOLI (P02436) (54 aa) fasta scores: E(): 1.7e-21, 96.3% id in 54 aa; Belongs to the bacterial ribosomal protein bL33 family. (55 aa) |
| | trmL | Putative methyltransferase; Methylates the ribose at the nucleotide 34 wobble position in the two leucyl isoacceptors tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA). Catalyzes the methyl transfer from S-adenosyl-L-methionine to the 2'-OH of the wobble nucleotide. (162 aa) |
| | rpmE | 50S ribosomal protein L31; Binds the 23S rRNA. (71 aa) |
| | nfuA | Conserved hypothetical protein; Involved in iron-sulfur cluster biogenesis. Binds a 4Fe-4S cluster, can transfer this cluster to apoproteins, and thereby intervenes in the maturation of Fe/S proteins. Could also act as a scaffold/chaperone for damaged Fe/S proteins. (191 aa) |
| | greB | Transcription elongation factor; Necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus. GreB releases sequences of up to 9 nucleotides in length. (171 aa) |
| | trpS | tryptophanyl-tRNA synthetase; Catalyzes the attachment of tryptophan to tRNA(Trp). Belongs to the class-I aminoacyl-tRNA synthetase family. (346 aa) |
| | tusD | Conserved hypothetical protein; Part of a sulfur-relay system required for 2-thiolation of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at tRNA wobble positions. Accepts sulfur from TusA and transfers it in turn to TusE. (131 aa) |
| | tusC | Conserved hypothetical protein; Part of a sulfur-relay system required for 2-thiolation of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at tRNA wobble positions. (121 aa) |
| | tusB | Conserved hypothetical protein; Part of a sulfur-relay system required for 2-thiolation of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at tRNA wobble positions. (95 aa) |
| | rpsl | 30S ribosomal protein S12; With S4 and S5 plays an important role in translational accuracy. (124 aa) |
| | rpsG | 30S ribosomal protein S7; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit. Is located at the subunit interface close to the decoding center, probably blocks exit of the E-site tRNA; Belongs to the universal ribosomal protein uS7 family. (156 aa) |
| | far | Elongation factor G; Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post-translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 subfamily. (702 aa) |
| | tufA | Elongation factor Tu; This protein promotes the GTP-dependent binding of aminoacyl- tRNA to the A-site of ribosomes during protein biosynthesis. (394 aa) |
| | nusE | 30S ribosomal protein S10; Involved in the binding of tRNA to the ribosomes. Belongs to the universal ribosomal protein uS10 family. (103 aa) |
| | rplC | 50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. (209 aa) |
| | eryA | 50S ribosomal protein L4; One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome. (201 aa) |
| | rplW | 50S ribosomal protein L23; One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome; Belongs to the universal ribosomal protein uL23 family. (100 aa) |
| | rplB | 50S ribosomal protein l2; One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 family. (274 aa) |
| | rpsS | 30S ribosomal protein S19; Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA. (92 aa) |
| | eryB | 50S ribosomal protein L22; This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). (110 aa) |
| | rpsC | 30S ribosomal protein S3; Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation; Belongs to the universal ribosomal protein uS3 family. (232 aa) |
| | rplP | 50S ribosomal protein L16; Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs; Belongs to the universal ribosomal protein uL16 family. (136 aa) |
| | rpmC | Similar to Escherichia coli 50S ribosomal protein L29 RpmC SW:RL29_ECOLI (P02429) (63 aa) fasta scores: E(): 1.3e-20, 93.7% id in 63 aa; Belongs to the universal ribosomal protein uL29 family. (63 aa) |
| | neaA | 30S ribosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (84 aa) |
| | rplN | 50S ribosomal protein L14; Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome; Belongs to the universal ribosomal protein uL14 family. (123 aa) |
| | rplX | 50S ribosomal protein L24; One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit. (104 aa) |
| | rplE | 50S ribosomal protein L5; This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs. (179 aa) |
| | rpsN | 30S ribosomal protein S14; Binds 16S rRNA, required for the assembly of 30S particles and may also be responsible for determining the conformation of the 16S rRNA at the A site; Belongs to the universal ribosomal protein uS14 family. (101 aa) |
| | rpsH | 30S ribosomal protein S8; One of the primary rRNA binding proteins, it binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit; Belongs to the universal ribosomal protein uS8 family. (130 aa) |
| | rplF | 50S ribosomal protein L6; This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center; Belongs to the universal ribosomal protein uL6 family. (177 aa) |
| | rplR | 50S ribosomal protein L18; This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. (117 aa) |
| | rpsE | 30S ribosomal protein S5; With S4 and S12 plays an important role in translational accuracy; Belongs to the universal ribosomal protein uS5 family. (167 aa) |
| | rpmD | Similar to Escherichia coli 50S ribosomal protein L30 RpmD SW:RL30_ECOLI (P02430) (58 aa) fasta scores: E(): 1.5e-22, 86.2% id in 58 aa. (59 aa) |
| | rplO | 50S ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (144 aa) |
| | gidA | Glucose inhibited division protein A; NAD-binding protein involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA-cmnm(5)s(2)U34; Belongs to the MnmG family. (629 aa) |
| | gidB | Glucose inhibited division protein B; Specifically methylates the N7 position of guanine in position 527 of 16S rRNA. (206 aa) |
| | thdF | Putative thiophene and furan oxidation protein; Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. TrmE GTPase family. (454 aa) |
| | rnpA | Ribonuclease P protein; RNaseP catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus. It can also cleave other RNA substrates such as 4.5S RNA. The protein component plays an auxiliary but essential role in vivo by binding to the 5'-leader sequence and broadening the substrate specificity of the ribozyme. (119 aa) |
| | rimA | Similar to Escherichia coli 50S ribosomal protein L34 RpmH SW:RL34_ECOLI (P02437) (46 aa) fasta scores: E(): 4.8e-19, 95.7% id in 46 aa, and to Proteus mirabilis 50S ribosomal protein L34 RpmH SW:RL34_PROMI (P22836) (47 aa) fasta scores: E(): 3.8e-18, 93.3% id in 45 aa; Belongs to the bacterial ribosomal protein bL34 family. (46 aa) |
| | glyQ | Similar to Escherichia coli glycyl-tRNA synthetase alpha subunit GlyQ SW:SYGA_ECOLI (P00960) (303 aa) fasta scores: E(): 0, 93.7% id in 303 aa, and to Vibrio cholerae glycyl-tRNA synthetase alpha subunit GlyQ TR:Q9KVW7 (EMBL:AE004094) (330 aa) fasta scores: E(): 0, 88.8% id in 303 aa. (304 aa) |
| | glyS | Similar to Escherichia coli glycyl-tRNA synthetase beta chain subunit GlyS SW:SYGB_ECOLI (P00961) (688 aa) fasta scores: E(): 0, 85.6% id in 688 aa, and to Haemophilus influenzae glycyl-tRNA synthetase beta chain subunit GlyS SW:SYGB_HAEIN (P43822) (688 aa) fasta scores: E(): 0, 68.9% id in 689 aa. (689 aa) |
| | fdhE | Putative formate dehydrogenase formation protein; Necessary for formate dehydrogenase activity. Belongs to the FdhE family. (309 aa) |
| | fdhA | Selenocysteine-specific elongation factor (pseudogene); Converts seryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec) required for selenoprotein biosynthesis; Belongs to the SelA family. (462 aa) |
| | rlmJ | Conserved hypothetical protein; Specifically methylates the adenine in position 2030 of 23S rRNA. (280 aa) |
| | rsmJ | Conserved hypothetical protein; Specifically methylates the guanosine in position 1516 of 16S rRNA. (256 aa) |
| | trmA | tRNA (uracil-5)-methyltransferase; Dual-specificity methyltransferase that catalyzes the formation of 5-methyluridine at position 54 (m5U54) in all tRNAs, and that of position 341 (m5U341) in tmRNA (transfer-mRNA). (367 aa) |
| | nitA | Transcription termination factor; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template. (419 aa) |
| | tusA | Conserved hypothetical protein; Sulfur carrier protein involved in sulfur trafficking in the cell. Part of a sulfur-relay system required for 2-thiolation during synthesis of 2-thiouridine of the modified wobble base 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) in tRNA. Interacts with IscS and stimulates its cysteine desulfurase activity. Accepts an activated sulfur from IscS, which is then transferred to TusD, and thus determines the direction of sulfur flow from IscS to 2-thiouridine formation. Also appears to be involved in sulfur transfer for the biosynthesis of molybdopterin. (84 aa) |
| | YPO3816 | Conserved hypothetical protein; Specifically methylates the guanine in position 966 of 16S rRNA in the assembled 30S particle; Belongs to the methyltransferase superfamily. RsmD family. (220 aa) |
| | fam | RNA polymerase sigma-32 factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is involved in regulation of expression of heat shock genes. (285 aa) |
| | yhhK | Putative acetyltransferase; Controls both the activation and catalytic activity of PanD in a coenzyme A (CoA)-dependent fashion; Belongs to the PanZ/PanM family. (130 aa) |
| | tufA-2 | Elongation factor Tu; This protein promotes the GTP-dependent binding of aminoacyl- tRNA to the A-site of ribosomes during protein biosynthesis. (394 aa) |
| | nusG | Transcription antitermination protein; Participates in transcription elongation, termination and antitermination. In the absence of Rho, increases the rate of transcription elongation by the RNA polymerase (RNAP), probably by partially suppressing pausing. In the presence of Rho, modulates most Rho-dependent termination events by interacting with the RNAP to render the complex more susceptible to the termination activity of Rho. May be required to overcome a kinetic limitation of Rho to function at certain terminators. Also involved in ribosomal RNA transcriptional antitermination; Bel [...] (181 aa) |
| | relC | 50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. (142 aa) |
| | rplA | 50S ribosomal protein L1; Binds directly to 23S rRNA. The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release. (234 aa) |
| | rplJ | 50S ribosomal protein L10; Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors. Belongs to the universal ribosomal protein uL10 family. (165 aa) |
| | rplL | 50S ribosomal protein L7/L12; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. Is thus essential for accurate translation; Belongs to the bacterial ribosomal protein bL12 family. (122 aa) |
| | groN | DNA-directed RNA polymerase beta chain; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1342 aa) |
| | rpoC | DNA-directed RNA polymerase beta' chain; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1406 aa) |
| | cafA | Ribonuclease G; Similar to Escherichia coli ribonuclease G CafA or Rng SW:RNG_ECOLI (P25537) (488 aa) fasta scores: E(): 0,90.2% id in 488 aa, and to Vibrio cholerae cytoplasmic axial filament protein Vc0419 TR:Q9KUU6 (EMBL:AE004129) (489 aa) fasta scores: E(): 0, 79.8% id in 489 aa. (489 aa) |
| | dusB | Conserved hypothetical protein; Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines; Belongs to the Dus family. DusB subfamily. (321 aa) |
| | glnF | RNA polymerase sigma-54 factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (477 aa) |
| | rplM | 50S ribosomal protein L13; This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly. (142 aa) |
| | rpsI | Similar to Escherichia coli 30S ribosomal protein S9 RpsI SW:RS9_ECOLI (P02363) (129 aa) fasta scores: E(): 0,92.2% id in 129 aa, and to Vibrio cholerae ribosomal protein S9 Vc0571 TR:Q9KUF0 (EMBL:AE004142) (130 aa) fasta scores: E(): 0, 86.9% id in 130 aa; Belongs to the universal ribosomal protein uS9 family. (130 aa) |
| | rsmI | Putative tetrapyrrole methylase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA. (299 aa) |
| | rpsF | 30S ribosomal protein S6; Binds together with S18 to 16S ribosomal RNA. (130 aa) |
| | rpsR | 30S ribosomal protein S18; Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit; Belongs to the bacterial ribosomal protein bS18 family. (75 aa) |
| | rplI | 50S ribosomal protein L9; Binds to the 23S rRNA. (150 aa) |
| | rplU | 50S ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family. (103 aa) |
| | rpmA | Similar to Escherichia coli 50S ribosomal protein L27 RpmA SW:RL27_ECOLI (P02427) (84 aa) fasta scores: E(): 5e-31, 94.0% id in 84 aa, and to Vibrio cholerae ribosomal protein L27 Vc0436 TR:Q9KUS9 (EMBL:AE004131) (86 aa) fasta scores: E(): 1.2e-29, 91.6% id in 83 aa; Belongs to the bacterial ribosomal protein bL27 family. (85 aa) |
| | greA | Transcription elongation factor; Necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus. GreA releases sequences of 2 to 3 nucleotides. (158 aa) |
| | ftsJ | Ribosomal RNA large subunit methyltransferase J; Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit. (209 aa) |
| | rimP | Conserved hypothetical protein; Required for maturation of 30S ribosomal subunits. Belongs to the RimP family. (152 aa) |
| | nusA | N utilization substance protein A; Participates in both transcription termination and antitermination. (495 aa) |
| | infB | Translation initiation factor IF2-2; One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. IF-2 subfamily. (884 aa) |
| | p15B | Ribosome-binding factor A; One of several proteins that assist in the late maturation steps of the functional core of the 30S ribosomal subunit. Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Required for efficient processing of 16S rRNA. May interact with the 5'-terminal helix region of 16S rRNA. (136 aa) |
| | p35 | tRNA pseudouridine synthase B; Responsible for synthesis of pseudouridine from uracil-55 in the psi GC loop of transfer RNAs; Belongs to the pseudouridine synthase TruB family. Type 1 subfamily. (324 aa) |
| | rpsO | 30S ribosomal protein S15; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it helps nucleate assembly of the platform of the 30S subunit by binding and bridging several RNA helices of the 16S rRNA. (89 aa) |
| | pnp | Polyribonucleotide nucleotidyltransferase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (705 aa) |
| | valS | valyl-tRNA synthetase; Catalyzes the attachment of valine to tRNA(Val). As ValRS can inadvertently accommodate and process structurally similar amino acids such as threonine, to avoid such errors, it has a 'posttransfer' editing activity that hydrolyzes mischarged Thr-tRNA(Val) in a tRNA- dependent manner; Belongs to the class-I aminoacyl-tRNA synthetase family. ValS type 1 subfamily. (965 aa) |
| | pcnB | poly(A) polymerase; Adds poly(A) tail to the 3' end of many RNAs, which usually targets these RNAs for decay. Plays a significant role in the global control of gene expression, through influencing the rate of transcript degradation, and in the general RNA quality control. Belongs to the tRNA nucleotidyltransferase/poly(A) polymerase family. (440 aa) |
| | yadB | Putative glutamyl-tRNA synthetase; Catalyzes the tRNA-independent activation of glutamate in presence of ATP and the subsequent transfer of glutamate onto a tRNA(Asp). Glutamate is transferred on the 2-amino-5-(4,5-dihydroxy-2- cyclopenten-1-yl) moiety of the queuosine in the wobble position of the QUC anticodon; Belongs to the class-I aminoacyl-tRNA synthetase family. GluQ subfamily. (321 aa) |
| | erpA | Conserved hypothetical protein; Required for insertion of 4Fe-4S clusters for at least IspG. (114 aa) |
| | truD | Conserved hypothetical protein; Responsible for synthesis of pseudouridine from uracil-13 in transfer RNAs; Belongs to the pseudouridine synthase TruD family. (349 aa) |
| | appR | RNA polymerase sigma factor RpoS; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the master transcriptional regulator of the stationary phase and the general stress response. (332 aa) |
| | alaS | alanyl-tRNA synthetase; Catalyzes the attachment of alanine to tRNA(Ala) in a two- step reaction: alanine is first activated by ATP to form Ala-AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain; Belongs to the class-II aminoacyl-tRNA synthetase family. (875 aa) |
| | rpsP | Similar to Escherichia coli 30S ribosomal protein S16 RpsP SW:RS16_ECOLI (P02372) (82 aa) fasta scores: E(): 5.4e-26, 79.3% id in 82 aa, and to Salmonella typhimurium 30S ribosomal protein S16 RpsP SW:RS16_SALTY (P36242) (82 aa) fasta scores: E(): 8e-27, 81.7% id in 82 aa; Belongs to the bacterial ribosomal protein bS16 family. (82 aa) |
| | rimM | 16S rRNA processing protein; An accessory protein needed during the final step in the assembly of 30S ribosomal subunit, possibly for assembly of the head region. Probably interacts with S19. Essential for efficient processing of 16S rRNA. May be needed both before and after RbfA during the maturation of 16S rRNA. It has affinity for free ribosomal 30S subunits but not for 70S ribosomes; Belongs to the RimM family. (182 aa) |
| | trmD | tRNA (guanine-N1)-methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family. (246 aa) |
| | rplS | 50S ribosomal protein L19; This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. (115 aa) |
| | rluD | Ribosomal large subunit pseudouridine synthase D; Responsible for synthesis of pseudouridine from uracil at positions 1911, 1915 and 1917 in 23S ribosomal RNA; Belongs to the pseudouridine synthase RluA family. (325 aa) |
| | YPO3271 | Similar to Escherichia coli hypothetical protein YfiP SW:YFIP_ECOLI (Q47319) (232 aa) fasta scores: E(): 0,61.6% id in 232 aa, and to Pseudomonas putida hypothetical protein TR:Q9KHT4 (EMBL:AF249735) (236 aa) fasta scores: E(): 0, 50.2% id in 229 aa. (249 aa) |
| | yfiF | Similar to Escherichia coli hypothetical tRNA/rRNA methyltransferase YfiF SW:YFIF_ECOLI (P33635) (345 aa) fasta scores: E(): 0, 60.1% id in 388 aa, and to Haemophilus influenzae hypothetical tRNA/rRNA methyltransferase Hi0424 SW:YFIF_HAEIN (P44703) (351 aa) fasta scores: E(): 6.8e-33, 34.8% id in 359 aa. This CDS contains a large insertion at its N-terminal end relative to E. coli; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (388 aa) |
| | queA | S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA). (356 aa) |
| | tgt | Queuine tRNA-ribosyltransferase; Catalyzes the base-exchange of a guanine (G) residue with the queuine precursor 7-aminomethyl-7-deazaguanine (PreQ1) at position 34 (anticodon wobble position) in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr). Catalysis occurs through a double-displacement mechanism. The nucleophile active site attacks the C1' of nucleotide 34 to detach the guanine base from the RNA, forming a covalent enzyme-RNA intermediate. The proton acceptor active site deprotonates the incoming PreQ1, allowing a nucleophilic attack on the C1' of the ribose to form th [...] (374 aa) |
| | nusB | N utilization substance protein B; Involved in transcription antitermination. Required for transcription of ribosomal RNA (rRNA) genes. Binds specifically to the boxA antiterminator sequence of the ribosomal RNA (rrn) operons. (138 aa) |
| | thiI | Thiamine biosynthesis protein; Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS. (483 aa) |
| | rpmJ2 | Similar to Vibrio cholerae ribosomal putative protein L36 Vc0879 TR:Q9KTM3 (EMBL:AE004172) (41 aa) fasta scores: E(): 8.8e-16, 87.5% id in 40 aa, and to Neisseria meningitidis (serogroup A) putative 50S ribosomal protein L36 Rpmj2 or Nma1137 or Nmb0941 TR:Q9JQV0 (EMBL:AL162755) (41 aa) fasta scores: E(): 7.6e-14, 82.5% id in 40 aa; Belongs to the bacterial ribosomal protein bL36 family. (47 aa) |
| | ykgM | Putative ribosomal protein; Similar to Escherichia coli O157:H7 putative ribosomal protein YkgM TR:AAG54622 (EMBL:AE005206) (87 aa) fasta scores: E(): 4.1e-24, 69.0% id in 84 aa, and to Vibrio cholerae ribosomal protein L31P family Vc0878 TR:Q9KTM4 (EMBL:AE004172) (85 aa) fasta scores: E(): 1.4e-20, 62.5% id in 80 aa; Belongs to the bacterial ribosomal protein bL31 family. Type B subfamily. (86 aa) |
| | YPO3088 | Conserved hypothetical protein; Similar to Escherichia coli protein YbaK SW:YBAK_ECOLI (P37175) (159 aa) fasta scores: E(): 0, 77.4% id in 159 aa, and to Salmonella typhimurium protein YbaK SW:YBAK_SALTY (P37174) (159 aa) fasta scores: E(): 0, 76.1% id in 159 aa; Belongs to the prolyl-tRNA editing family. YbaK/EbsC subfamily. (159 aa) |
| | cysS | Similar to Escherichia coli cysteinyl-tRNA synthetase CysS SW:SYC_ECOLI (P21888) (461 aa) fasta scores: E(): 0, 83.9% id in 461 aa, and to Vibrio cholerae cysteinyl-tRNA synthetase CysS or Vc1848 SW:SYC_VIBCH (Q9KQZ9) (459 aa) fasta scores: E(): 0, 75.5% id in 461 aa; Belongs to the class-I aminoacyl-tRNA synthetase family. (461 aa) |
| | tmcA | Putative acetyltransferase; Catalyzes the formation of N(4)-acetylcytidine (ac(4)C) at the wobble position of tRNA(Met), by using acetyl-CoA as an acetyl donor and ATP (or GTP). (699 aa) |
| | gltX | glutamyl-tRNA synthetase; Catalyzes the attachment of glutamate to tRNA(Glu) in a two- step reaction: glutamate is first activated by ATP to form Glu-AMP and then transferred to the acceptor end of tRNA(Glu). (471 aa) |
| | tadA | Putative zinc-binding protein; Catalyzes the deamination of adenosine to inosine at the wobble position 34 of tRNA(Arg2); Belongs to the cytidine and deoxycytidylate deaminase family. (159 aa) |
| | trmJ | Putative SpoU-family rRNA methylase; Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA. (257 aa) |
| | iscA | Conserved hypothetical protein; Is able to transfer iron-sulfur clusters to apo-ferredoxin. Multiple cycles of [2Fe2S] cluster formation and transfer are observed, suggesting that IscA acts catalytically. Recruits intracellular free iron so as to provide iron for the assembly of transient iron-sulfur cluster in IscU in the presence of IscS, L-cysteine and the thioredoxin reductase system TrxA/TrxB. (107 aa) |
| | hscB | Chaperone protein HscB; Co-chaperone involved in the maturation of iron-sulfur cluster-containing proteins. Seems to help targeting proteins to be folded toward HscA; Belongs to the HscB family. (174 aa) |
| | rlmN | Conserved hypothetical protein; Specifically methylates position 2 of adenine 2503 in 23S rRNA and position 2 of adenine 37 in tRNAs. m2A2503 modification seems to play a crucial role in the proofreading step occurring at the peptidyl transferase center and thus would serve to optimize ribosomal fidelity; Belongs to the radical SAM superfamily. RlmN family. (398 aa) |
| | hisS | Similar to Escherichia coli histidyl-tRNA synthetase HisS SW:SYH_ECOLI (P04804) (423 aa) fasta scores: E(): 0,82.0% id in 423 aa, and to Salmonella typhimurium histidyl-tRNA synthetase HisS SW:SYH_SALTY (O52765) (423 aa) fasta scores: E(): 0, 82.0% id in 423 aa. (424 aa) |
| | asuC | tRNA pseudouridine synthase A; Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs. (264 aa) |
| | mnmC | Conserved hypothetical protein; Catalyzes the last two steps in the biosynthesis of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA. Catalyzes the FAD-dependent demodification of cmnm(5)s(2)U34 to nm(5)s(2)U34, followed by the transfer of a methyl group from S-adenosyl-L-methionine to nm(5)s(2)U34, to form mnm(5)s(2)U34; In the N-terminal section; belongs to the methyltransferase superfamily. tRNA (mnm(5)s(2)U34)-methyltransferase family. (689 aa) |
| | YPO2754 | Similar to Escherichia coli hypothetical protein YfcM SW:YFCM_ECOLI (P76938) (182 aa) fasta scores: E(): 0,70.1% id in 177 aa, and to Vibrio cholerae hypothetical protein VC2113 TR:Q9KQ88 (EMBL:AE004285) (176 aa) fasta scores: E(): 0, 60.1% id in 173 aa. (180 aa) |
| | rnc | Ribonuclease III; Digests double-stranded RNA. Involved in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Processes some mRNAs, and tRNAs when they are encoded in the rRNA operon. Processes pre-crRNA and tracrRNA of type II CRISPR loci if present in the organism. (226 aa) |
| | lepB | Signal peptidase I; Similar to Salmonella typhimurium signal peptidase I LepB SW:LEP_SALTY (P23697) (324 aa) fasta scores: E(): 0,69.9% id in 332 aa, and to Escherichia coli signal peptidase I LepB SW:LEP_ECOLI (P00803) (324 aa) fasta scores: E(): 0, 68.1% id in 332 aa; Belongs to the peptidase S26 family. (332 aa) |
| | lepA | Similar to Escherichia coli probable GTP-binding elongation factor protein LepA SW:LEPA_ECOLI (P07682) (599 aa) fasta scores: E(): 0, 92.3% id in 599 aa, and to Haemophilus influenzae GTP-binding protein LepA SW:LEPA_HAEIN (P43729) (598 aa) fasta scores: E(): 0, 87.6% id in 597 aa; YPO2716; one of 2 probable transmembrane helices predicted. (284 aa) |
| | rpoE | Probable alternative sigma factor. Similar to Escherichia coli RNA polymerase sigma E factor RpoE SW:RPOE_ECOLI (P34086) (191 aa) fasta scores: E(): 0, 92.7% id in 191 aa, and to Salmonella typhimurium RNA polymerase sigma E factor RpoE SW:RPOE_SALTY (P37401) (191 aa) fasta scores: E(): 0, 93.2% id in 191 aa; Belongs to the sigma-70 factor family. ECF subfamily. (191 aa) |
| | YPO2709 | Conserved hypothetical protein; Specifically methylates the adenine in position 37 of tRNA(1)(Val) (anticodon cmo5UAC). (252 aa) |
| | glnS | Similar to Escherichia coli glutaminyl-tRNA synthetase GlnS SW:SYQ_ECOLI (P00962) (553 aa) fasta scores: E(): 0, 87.2% id in 549 aa, and to Vibrio cholerae glutaminyl-tRNA synthetase GlnS TR:Q9KTA6 (EMBL:AE004181) (556 aa) fasta scores: E(): 0, 81.1% id in 551 aa. (555 aa) |
| | miaB | Putative tRNA-thiotransferase; Catalyzes the methylthiolation of N6-(dimethylallyl)adenosine (i(6)A), leading to the formation of 2-methylthio-N6- (dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine. (474 aa) |
| | ybeY | Conserved hypothetical protein; Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA. (157 aa) |
| | leuS | Similar to Escherichia coli leucyl-tRNA synthetase LeuS SW:SYL_ECOLI (P07813) (860 aa) fasta scores: E(): 0,84.8% id in 860 aa, and to Vibrio cholerae leucyl-tRNA synthetase VC0956 TR:Q9KTE6 (EMBL:AE004177) (894 aa) fasta scores: E(): 0, 74.5% id in 858 aa; Belongs to the class-I aminoacyl-tRNA synthetase family. (860 aa) |
| | rlmH | Conserved hypothetical protein; Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA; Belongs to the RNA methyltransferase RlmH family. (156 aa) |
| | lipB | Lipoate-protein ligase B; Catalyzes the transfer of endogenously produced octanoic acid from octanoyl-acyl-carrier-protein onto the lipoyl domains of lipoate- dependent enzymes. Lipoyl-ACP can also act as a substrate although octanoyl-ACP is likely to be the physiological substrate. (233 aa) |
| | lip | Lipoic acid synthetase; Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives. (321 aa) |
| | rlmF | Conserved hypothetical protein; Specifically methylates the adenine in position 1618 of 23S rRNA. (336 aa) |
| | YPO2451 | Similar to Escherichia coli hypothetical protein YceA SW:YCEA_ECOLI (P24188) (350 aa) fasta scores: E(): 0,73.9% id in 348 aa, and to Chlamydia trachomatis hypothetical protein YceA TR:O84632 (EMBL:AE001333) (327 aa) fasta scores: E(): 6.3e-29, 36.6% id in 317 aa; Belongs to the UPF0176 family. (355 aa) |
| | thrS | threonyl-tRNA synthetase; Catalyzes the attachment of threonine to tRNA(Thr) in a two- step reaction: L-threonine is first activated by ATP to form Thr-AMP and then transferred to the acceptor end of tRNA(Thr). Also edits incorrectly charged L-seryl-tRNA(Thr). (642 aa) |
| | fit | Translation initiation factor IF-3; IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins. (183 aa) |
| | rpmI | Similar to Escherichia coli 50S ribosomal protein L35 RpmI SW:RL35_ECOLI (P07085) (64 aa) fasta scores: E(): 1.8e-25, 89.1% id in 64 aa, and to Haemophilus influenzae 50S ribosomal protein L35 RpmI SW:RL35_HAEIN (P45519) (64 aa) fasta scores: E(): 1.2e-21, 81.3% id in 64 aa; Belongs to the bacterial ribosomal protein bL35 family. (65 aa) |
| | pdzA | 50S ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit. (118 aa) |
| | pheS | Similar to Escherichia coli phenylalanyl-tRNA synthetase alpha chain PheS SW:SYFA_ECOLI (P08312) (327 aa) fasta scores: E(): 0, 90.2% id in 327 aa, and to Vibrio cholerae phenylalanyl-tRNA synthetase alpha chain PheS TR:Q9KSN7 (EMBL:AE004202) (327 aa) fasta scores: E(): 0,76.1% id in 327 aa; Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily. (327 aa) |
| | pheT | Similar to Escherichia coli phenylalanyl-tRNA synthetase beta chain PheT SW:SYFB_ECOLI (P07395) (795 aa) fasta scores: E(): 0, 83.4% id in 795 aa, and to Haemophilus influenzae phenylalanyl-tRNA synthetase beta chain PheT SW:SYFB_HAEIN (P43820) (795 aa) fasta scores: E(): 0, 64.7% id in 795 aa; Belongs to the phenylalanyl-tRNA synthetase beta subunit family. Type 1 subfamily. (795 aa) |
| | lplA | Conserved hypothetical protein (pseudogene); Catalyzes both the ATP-dependent activation of exogenously supplied lipoate to lipoyl-AMP and the transfer of the activated lipoyl onto the lipoyl domains of lipoate-dependent enzymes. (338 aa) |
| | rnt | Ribonuclease T; Trims short 3' overhangs of a variety of RNA species, leaving a one or two nucleotide 3' overhang. Responsible for the end-turnover of tRNA: specifically removes the terminal AMP residue from uncharged tRNA (tRNA-C-C-A). Also appears to be involved in tRNA biosynthesis. (215 aa) |
| | tyrS | tyrosyl-tRNA synthetase; Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two- step reaction: tyrosine is first activated by ATP to form Tyr-AMP and then transferred to the acceptor end of tRNA(Tyr); Belongs to the class-I aminoacyl-tRNA synthetase family. TyrS type 1 subfamily. (424 aa) |
| | ttcA | Conserved hypothetical protein; Catalyzes the ATP-dependent 2-thiolation of cytidine in position 32 of tRNA, to form 2-thiocytidine (s(2)C32). The sulfur atoms are provided by the cysteine/cysteine desulfurase (IscS) system. (313 aa) |
| | hrpA | Similar to Escherichia coli ATP-dependent helicase HrpA SW:HRPA_ECOLI (P43329) (1281 aa) fasta scores: E(): 0,81.9% id in 1280 aa, and to Vibrio cholerae ATP-dependent helicase HrpA TR:Q9KS77 (EMBL:AE004217) (1309 aa) fasta scores: E(): 0, 70.7% id in 1278 aa. (1280 aa) |
| | YPO2228 | Translation initiation factor SUI1 family protein; Similar to Escherichia coli hypothetical protein YciH SW:YCIH_ECOLI (P08245) (108 aa) fasta scores: E(): 1.3e-30, 80.6% id in 108 aa, and to Salmonella typhimurium hypothetical protein YciH SW:YCIH_SALTY (P20770) (108 aa) fasta scores: E(): 1e-29, 78.7% id in 108 aa; Similar to Escherichia coli protein YciH SW:YCIH_ECOLI (P08245) (108 aa) fasta scores: E(): 1.3e-30,80.6% id in 108 aa. (108 aa) |
| | rluB | Putative RNA pseudouridylate synthase-family protein; Responsible for synthesis of pseudouridine from uracil-2605 in 23S ribosomal RNA; Belongs to the pseudouridine synthase RsuA family. (318 aa) |
| | sppA | Protease IV; Similar to Escherichia coli protease IV SppA SW:SPPA_ECOLI (P08395) (618 aa) fasta scores: E(): 0, 67.7% id in 619 aa, and to Vibrio cholerae protease IV VC1994 TR:Q9KQK4 (EMBL:AE004274) (616 aa) fasta scores: E(): 0,47.5% id in 617 aa. (616 aa) |
| | rnd | Ribonuclease D; Exonuclease involved in the 3' processing of various precursor tRNAs. Initiates hydrolysis at the 3'-terminus of an RNA molecule and releases 5'-mononucleotides; Belongs to the RNase D family. (373 aa) |
| | YPO2072 | Similar to Escherichia coli hypothetical protein YeaZ SW:YEAZ_ECOLI (P76256) (231 aa) fasta scores: E(): 0,71.2% id in 229 aa, and to Vibrio cholerae hypothetical protein VC1989 vc1989 TR:Q9KQK9 (EMBL:AE004273) (237 aa) fasta scores: E(): 0, 55.7% id in 237 aa. (232 aa) |
| | aspS | aspartyl-tRNA synthetase; Catalyzes the attachment of L-aspartate to tRNA(Asp) in a two-step reaction: L-aspartate is first activated by ATP to form Asp- AMP and then transferred to the acceptor end of tRNA(Asp). Belongs to the class-II aminoacyl-tRNA synthetase family. Type 1 subfamily. (598 aa) |
| | cmoA | Conserved hypothetical protein; Catalyzes the conversion of S-adenosyl-L-methionine (SAM) to carboxy-S-adenosyl-L-methionine (Cx-SAM). (267 aa) |
| | cmoB | Conserved hypothetical protein; Catalyzes carboxymethyl transfer from carboxy-S-adenosyl-L- methionine (Cx-SAM) to 5-hydroxyuridine (ho5U) to form 5- carboxymethoxyuridine (cmo5U) at position 34 in tRNAs. (323 aa) |
| | argS | Similar to Escherichia coli arginyl-tRNA synthetase ArgS SW:SYR_ECOLI (P11875) (577 aa) fasta scores: E(): 0,82.8% id in 577 aa, and to Vibrio cholerae arginyl-tRNA synthetase VC2074 TR:Q9KQC6 (EMBL:AE004281) (599 aa) fasta scores: E(): 0, 71.4% id in 577 aa. (576 aa) |
| | prfA | Peptide chain release factor 1; Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA. (360 aa) |
| | pth | peptidyl-tRNA hydrolase; The natural substrate for this enzyme may be peptidyl-tRNAs which drop off the ribosome during protein synthesis. Belongs to the PTH family. (196 aa) |
| | YPO1955 | Putative acetyltransferase; Previously sequenced as Yersinia pestis hypothetical protein TR:Q9ZC61 (EMBL:AL031866) (299 aa) fasta scores: E(): 0, 100.0% id in 299 aa. Similar to Saccharomyces cerevisiae hypothetical protein Yir042C SW:YIW2_YEAST (P40586) (236 aa) fasta scores: E(): 0, 42.6% id in 230 aa. (299 aa) |
| | flaD | RNA polymerase sigma factor for flagellar operon; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor controls the expression of flagella-related genes; Belongs to the sigma-70 factor family. FliA subfamily. (240 aa) |
| | ymfC | Putative pseudouridine synthase; Responsible for synthesis of pseudouridine from uracil-2457 in 23S ribosomal RNA; Belongs to the pseudouridine synthase RsuA family. (208 aa) |
| | asuE | tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA(Lys), tRNA(Glu) and tRNA(Gln), leading to the formation of s(2)U34, the first step of tRNA-mnm(5)s(2)U34 synthesis. Sulfur is provided by IscS, via a sulfur-relay system. Binds ATP and its substrate tRNAs; Belongs to the MnmA/TRMU family. (371 aa) |
| | rpmF | 50S ribosomal protein L32; Similar to Escherichia coli, and Salmonella typhimurium 50S ribosomal protein L32 SW:RL32_ECOLI (P02435) (56 aa) fasta scores: E(): 3.4e-20, 90.7% id in 54 aa, and to Haemophilus influenzae 50S ribosomal protein L32 RpmF or Rpl32 or Hi0158 SW:RL32_HAEIN (P44368) (55 aa) fasta scores: E(): 4.3e-19, 83.0% id in 53 aa; Belongs to the bacterial ribosomal protein bL32 family. (55 aa) |
| | rluC | Ribosomal large subunit pseudouridine synthase C; Responsible for synthesis of pseudouridine from uracil at positions 955, 2504 and 2580 in 23S ribosomal RNA; Belongs to the pseudouridine synthase RluA family. (320 aa) |
| | ams | Ribonuclease E; Endoribonuclease that plays a central role in RNA processing and decay. Required for the maturation of 5S and 16S rRNAs and the majority of tRNAs. Also involved in the degradation of most mRNAs. Belongs to the RNase E/G family. RNase E subfamily. (1221 aa) |
| | metG | methionyl-tRNA synthetase; Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation. (675 aa) |
| | tusE | Putative sulfite reductase subunit protein; Part of a sulfur-relay system required for 2-thiolation of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at tRNA wobble positions. Could accept sulfur from TusD (By similarity). (108 aa) |
| | rlmI | Conserved hypothetical protein; Specifically methylates the cytosine at position 1962 (m5C1962) of 23S rRNA. (396 aa) |
| | rlmL | Conserved hypothetical protein; Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA. Belongs to the methyltransferase superfamily. RlmKL family. (706 aa) |
| | asnS | Similar to Escherichia coli asparaginyl-tRNA synthetase AsnS SW:SYN_ECOLI (P17242) (465 aa) fasta scores: E(): 0, 87.3% id in 465 aa, and to Haemophilus influenzae asparaginyl-tRNA synthetase AsnS SW:SYN_HAEIN (P43829) (477 aa) fasta scores: E(): 0, 79.5% id in 464 aa. (466 aa) |
| | smtA | Putative methyltransferase; Catalyzes the methylation of 5-carboxymethoxyuridine (cmo5U) to form 5-methoxycarbonylmethoxyuridine (mcmo5U) at position 34 in tRNAs; Belongs to the class I-like SAM-binding methyltransferase superfamily. CmoM family. (261 aa) |
| | rpsA | 30S ribosomal protein S1; Binds mRNA; thus facilitating recognition of the initiation point. It is needed to translate mRNA with a short Shine-Dalgarno (SD) purine-rich sequence. (557 aa) |
| | serS | seryl-tRNA synthetase; Catalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L- seryl-tRNA(Sec), which will be further converted into selenocysteinyl- tRNA(Sec). (430 aa) |
| | infA | Translation initiation factor IF-1; One of the essential components for the initiation of protein synthesis. Stabilizes the binding of IF-2 and IF-3 on the 30S subunit to which N-formylmethionyl-tRNA(fMet) subsequently binds. Helps modulate mRNA selection, yielding the 30S pre-initiation complex (PIC). Upon addition of the 50S ribosomal subunit IF-1, IF-2 and IF-3 are released leaving the mature 70S translation initiation complex. (72 aa) |
| | rlmC | Putative RNA methyltransferase; Catalyzes the formation of 5-methyl-uridine at position 747 (m5U747) in 23S rRNA; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. RlmC subfamily. (376 aa) |
| | YPO1284 | Putative elongation factor P; C-terminal region is similar to similar to Synechococcus sp elongation factor P Efp SW:EFP_SYNP7 (Q54760) (185 aa) fasta scores: E(): 3.4e-17, 31.9% id in 188 aa. Similar to the C-terminal region of Escherichia coli hypothetical protein YeiP SW:YEIP_ECOLI (P33028) (275 aa) fasta scores: E(): 0, 78.0% id in 205 aa. Possible alternative translational start sites. (190 aa) |
| | rsuA | Ribosomal small subunit pseudouridine synthase A; Responsible for synthesis of pseudouridine from uracil-516 in 16S ribosomal RNA. (235 aa) |
| | YPO1265 | Putative DEAD box helicase family protein; Similar to Escherichia coli hypothetical protein YejH SW:YEJH_ECOLI (P33919) (586 aa) fasta scores: E(): 0,78.4% id in 584 aa, and to Lactobacillus casei bacteriophage A2 hypothetical protein TR:Q9T0Y3 (EMBL:AJ251789) (455 aa) fasta scores: E(): 7.7e-10, 27.9% id in 373 aa, and to Vibrio cholerae helicase-related protein VC1636 TR:Q9KRK4 (EMBL:AE004241) (657 aa) fasta scores: E(): 0, 59.8% id in 572 aa. (585 aa) |
| | rplY | 50S ribosomal protein L25; This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance. Belongs to the bacterial ribosomal protein bL25 family. (94 aa) |
| | dusC | Conserved hypothetical protein; Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines. Specifically modifies U16 in tRNAs. Belongs to the Dus family. DusC subfamily. (314 aa) |
| | YPO1140 | Putative membrane protein; Similar to Vibrio cholerae hypothetical protein VC1074 TR:Q9KT31 (EMBL:AE004189) (276 aa) fasta scores: E(): 0, 45.5% id in 275 aa. (272 aa) |
| | b2620 | SsrA-binding protein (small protein B); Required for rescue of stalled ribosomes mediated by trans- translation. Binds to transfer-messenger RNA (tmRNA), required for stable association of tmRNA with ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB. tmRNA is encoded by the ssrA gene; the 2 termini fold to resemble tRNA(Ala) and it encodes a 'tag peptide', a short internal open reading frame. During trans-translation Ala-aminoacylated tmRNA acts like a tRNA, entering the A-site of stalled ribosomes, displacing the stalled mRNA. The ribosom [...] (160 aa) |
| | drpA | prolyl-tRNA synthetase; Catalyzes the attachment of proline to tRNA(Pro) in a two- step reaction: proline is first activated by ATP to form Pro-AMP and then transferred to the acceptor end of tRNA(Pro). As ProRS can inadvertently accommodate and process non-cognate amino acids such as alanine and cysteine, to avoid such errors it has two additional distinct editing activities against alanine. One activity is designated as 'pretransfer' editing and involves the tRNA(Pro)-independent hydrolysis of activated Ala-AMP. The other activity is designated 'posttransfer' editing and involves dea [...] (572 aa) |
| | YPO1066 | Similar to Escherichia coli hypothetical protein YaeJ SW:YAEJ_ECOLI (P40711) (140 aa) fasta scores: E(): 0,65.2% id in 135 aa, and to Pseudomonas putida hypothetical protein SW:YAEJ_PSEPU (P45388) (137 aa) fasta scores: E(): 8.6e-31, 65.2% id in 135 aa, and to Streptomyces coelicolor hypothetical protein SCD95A.11 TR:Q9KXW3 (EMBL:AL357432) (145 aa) fasta scores: E(): 7.4e-13, 41.5% id in 135 aa. (138 aa) |
| | tilS | Conserved hypothetical protein; Ligates lysine onto the cytidine present at position 34 of the AUA codon-specific tRNA(Ile) that contains the anticodon CAU, in an ATP-dependent manner. Cytidine is converted to lysidine, thus changing the amino acid specificity of the tRNA from methionine to isoleucine. Belongs to the tRNA(Ile)-lysidine synthase family. (460 aa) |
| | ompH | Cationic 19 kDa outer membrane protein precursor; Molecular chaperone that interacts specifically with outer membrane proteins, thus maintaining the solubility of early folding intermediates during passage through the periplasm. (165 aa) |
| | b0172 | Ribosome recycling factor; Responsible for the release of ribosomes from messenger RNA at the termination of protein biosynthesis. May increase the efficiency of translation by recycling ribosomes from one round of translation to another; Belongs to the RRF family. (185 aa) |
| | tsf | Elongation factor Ts; Associates with the EF-Tu.GDP complex and induces the exchange of GDP to GTP. It remains bound to the aminoacyl-tRNA.EF- Tu.GTP complex up to the GTP hydrolysis stage on the ribosome. Belongs to the EF-Ts family. (285 aa) |
| | rpsB | Similar to Escherichia coli 30S ribosomal protein S2 RpsB SW:RS2_ECOLI (P02351) (240 aa) fasta scores: E(): 0,93.8% id in 240 aa; Belongs to the universal ribosomal protein uS2 family. (241 aa) |
| | truC | Conserved hypothetical protein; Responsible for synthesis of pseudouridine from uracil-65 in transfer RNAs; Belongs to the pseudouridine synthase RluA family. (257 aa) |
| | rlmM | Conserved hypothetical protein; Catalyzes the 2'-O-methylation at nucleotide C2498 in 23S rRNA; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA methyltransferase RlmE family. RlmM subfamily. (368 aa) |
| | YPO0983 | Putative membrane protein; Similar to Escherichia coli hypothetical protein YprA SW:YPRA_ECOLI (P13974) (217 aa) fasta scores: E(): 2.1e-08, 27.9% id in 201 aa, and to Bacillus anthracis hypothetical protein TR:Q9RMY6 (EMBL:AF188935) (221 aa) fasta scores: E(): 0.014, 28.4% id in 208 aa. (216 aa) |
| | trmB | Putative methyltransferase; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA; Belongs to the class I-like SAM-binding methyltransferase superfamily. TrmB family. (239 aa) |
| | yqgF | Conserved hypothetical protein; Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA; Belongs to the YqgF nuclease family. (140 aa) |
| | YPO0934 | Conserved hypothetical protein; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit. (243 aa) |
| | gcsH | Glycine cleavage system H protein; The glycine cleavage system catalyzes the degradation of glycine. The H protein shuttles the methylamine group of glycine from the P protein to the T protein. (128 aa) |
| | YPO0898 | Conserved hypothetical protein; Folate-binding protein involved in regulating the level of ATP-DnaA and in the modification of some tRNAs. It is probably a key factor in regulatory networks that act via tRNA modification, such as initiation of chromosomal replication; Belongs to the tRNA-modifying YgfZ family. (330 aa) |
| | prfB | Peptide chain release factor 2; Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA. (366 aa) |
| | asuD | Similar to Escherichia coli lysyl-tRNA synthetase LysS SW:SYK1_ECOLI (P13030) (504 aa) fasta scores: E(): 0,85.9% id in 504 aa, and to Haemophilus influenzae lysyl-tRNA synthetase LysS SW:SYK_HAEIN (P43825) (502 aa) fasta scores: E(): 0, 68.5% id in 504 aa; Belongs to the class-II aminoacyl-tRNA synthetase family. (505 aa) |
| | fliA | Similar to Salmonella typhimurium RNA polymerase sigma factor for flagellar operon FliA SW:FLIA_SALTY (P17168) (239 aa) fasta scores: E(): 4e-20, 35.0% id in 217 aa, and to Vibrio parahaemolyticus RNA polymerase sigma factor for flagellar operon LafS SW:LAFS_VIBPA (Q03474) (242 aa) fasta scores: E(): 2.5e-25, 40.3% id in 216 aa; Belongs to the sigma-70 factor family. (231 aa) |
| | cca | tRNA nucleotidyltransferase; Catalyzes the addition and repair of the essential 3'- terminal CCA sequence in tRNAs without using a nucleic acid template. Adds these three nucleotides in the order of C, C, and A to the tRNA nucleotide-73, using CTP and ATP as substrates and producing inorganic pyrophosphate. Also shows phosphatase, 2'-nucleotidase and 2',3'-cyclic phosphodiesterase activities. These phosphohydrolase activities are probably involved in the repair of the tRNA 3'-CCA terminus degraded by intracellular RNases. (412 aa) |
| | gcp | Putative glycoprotease; Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. Is involved in the transfer of the threonylcarbamoyl moiety of threonylcarbamoyl-AMP (TC-AMP) to the N6 group of A37, together with TsaE and TsaB. TsaD likely plays a direct catalytic role in this reaction; Belongs to the KAE1 / TsaD family. (337 aa) |
| | rpsU | 30S ribosomal protein S21; Identical to Escherichia coli and Salmonella typhimurium 30S ribosomal protein S21 RpsU SW:RS21_ECOLI (P02379) (70 aa) fasta scores: E(): 2.3e-27, 100.0% id in 70 aa, and to Buchnera aphidicola (subsp Acyrthosiphon pisum) 30S ribosomal protein S21 RpsU TR:BAB12780 (EMBL:AP001118) (71 aa) fasta scores: E(): 1e-25, 90.1% id in 71 aa; Belongs to the bacterial ribosomal protein bS21 family. (71 aa) |
| | alt | RNA polymerase sigma factor RpoD; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth. (612 aa) |
| | rlmG | Putative methyltransferase; Specifically methylates the guanine in position 1835 (m2G1835) of 23S rRNA. (395 aa) |
| | rsmH | Conserved hypothetical protein; Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA. (320 aa) |
| | rluA | Ribosomal large subunit pseudouridine synthase A; Dual specificity enzyme that catalyzes the synthesis of pseudouridine from uracil-746 in 23S ribosomal RNA and from uracil-32 in the anticodon stem and loop of transfer RNAs. (206 aa) |
| | b0051 | Dimethyladenosine transferase; Specifically dimethylates two adjacent adenosines (A1518 and A1519) in the loop of a conserved hairpin near the 3'-end of 16S rRNA in the 30S particle. May play a critical role in biogenesis of 30S subunits. (272 aa) |
| | b0026 | isoleucyl-tRNA synthetase; Catalyzes the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile). Belongs to the class-I aminoacyl-tRNA synthetase family. IleS type 1 subfamily. (938 aa) |
| | b0023 | 30S ribosomal protein S20; Binds directly to 16S ribosomal RNA. (87 aa) |
| | b4375 | Peptide chain release factor 3; Increases the formation of ribosomal termination complexes and stimulates activities of RF-1 and RF-2. It binds guanine nucleotides and has strong preference for UGA stop codons. It may interact directly with the ribosome. The stimulation of RF-1 and RF-2 is significantly reduced by GTP and GDP, but not by GMP. Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. PrfC subfamily. (529 aa) |
| | b4373 | Ribosomal-protein-alanine acetyltransferase; Acetylates the N-terminal alanine of ribosomal protein S18. (147 aa) |
| | b4371 | Ribosomal RNA small subunit methyltransferase C; Specifically methylates the guanine in position 1207 of 16S rRNA in the 30S particle; Belongs to the methyltransferase superfamily. RsmC family. (347 aa) |
| | rlmB | Putative methylase; Specifically methylates the ribose of guanosine 2251 in 23S rRNA; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. RlmB subfamily. (246 aa) |
| | b4171 | tRNA delta(2)-isopentenylpyrophosphate transferase; Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A); Belongs to the IPP transferase family. (313 aa) |
| | YPO0369 | Conserved hypothetical protein; Similar to several proteins of undefined function e.g. Escherichia coli hypothetical protein YjeE or B4168 SW:YJEE_ECOLI (P31805) (153 aa) fasta scores: E(): 3.5e-41,73.026% id in 152 aa. (156 aa) |
| | queG | Putative iron-sulfur cluster-binding protein; Catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr); Belongs to the QueG family. (411 aa) |
| | b4155 | Putative lysyl-tRNA synthetase; With EpmB is involved in the beta-lysylation step of the post-translational modification of translation elongation factor P (EF- P). Catalyzes the ATP-dependent activation of (R)-beta-lysine produced by EpmB, forming a lysyl-adenylate, from which the beta-lysyl moiety is then transferred to the epsilon-amino group of a conserved specific lysine residue in EF-P; Belongs to the class-II aminoacyl-tRNA synthetase family. EpmA subfamily. (325 aa) |
| | b4147 | Elongation factor P; Involved in peptide bond synthesis. Alleviates ribosome stalling that occurs when 3 or more consecutive Pro residues or the sequence PPG is present in a protein, possibly by augmenting the peptidyl transferase activity of the ribosome. Modification of Lys-34 is required for alleviation; Belongs to the elongation factor P family. (188 aa) |
| | dusA | Conserved hypothetical protein; Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines. Specifically modifies U20 and U20a in tRNAs; Belongs to the Dus family. DusA subfamily. (345 aa) |
| | YPO0275 | Conserved hypothetical protein; Similar to Escherichia coli and Salmonella typhimurium hypothetical protein YedF SW:YEDF_ECOLI (P31065) (77 aa) fasta scores: E(): 1.5e-26, 94.6% id in 74 aa. Note alternative possible translational start site at codon 17; Belongs to the sulfur carrier protein TusA family. (89 aa) |
| | tsaC | Conserved hypothetical protein; Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. Catalyzes the conversion of L-threonine, HCO(3)(-)/CO(2) and ATP to give threonylcarbamoyl-AMP (TC-AMP) as the acyladenylate intermediate, with the release of diphosphate. (190 aa) |
| | def | Polypeptide deformylase; Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions. (170 aa) |
| | fmt | methionyl-tRNA formyltransferase; Attaches a formyl group to the free amino group of methionyl- tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus; Belongs to the Fmt family. (315 aa) |
| | rpmJ | Similar to Escherichia coli 50S ribosomal protein L36 RpmJ SW:RL36_ECOLI (P21194) (38 aa) fasta scores: E(): 2.1e-15, 94.7% id in 38 aa; Belongs to the bacterial ribosomal protein bL36 family. (38 aa) |
| | rpsM | 30S ribosomal protein S13; Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. In the 70S ribosome it contacts the 23S rRNA (bridge B1a) and protein L5 of the 50S subunit (bridge B1b), connecting the 2 subunits; these bridges are implicated in subunit movement. Contacts the tRNAs in the A and P-sites. Belongs to the universal ribosomal protein uS13 family. (118 aa) |
| | rsmB | Conserved hypothetical protein; Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA. (429 aa) |
| | rpsK | 30S ribosomal protein S11; Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine- Dalgarno cleft in the 70S ribosome; Belongs to the universal ribosomal protein uS11 family. (129 aa) |
