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| | 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) |
| | 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) |
| | mmrA | Putative DEAD-box helicase; DEAD-box RNA helicase involved in RNA degradation. Has RNA- dependent ATPase activity and unwinds double-stranded RNA. Belongs to the DEAD box helicase family. RhlB subfamily. (428 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) |
| | 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) |
| | nfi | Endonuclease V; DNA repair enzyme involved in the repair of deaminated bases. Selectively cleaves double-stranded DNA at the second phosphodiester bond 3' to a deoxyinosine leaving behind the intact lesion on the nicked DNA. (234 aa) |
| | YPO3689 | Putative succinate-semialdehyde dehydrogenase (pseudogene); PS00070 Aldehyde dehydrogenases cysteine active site. (152 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) |
| | cspa2 | Similar to Yersinia enterocolitica major cold shock protein Cspa1 TR:Q9RIF2 (EMBL:U82821) (70 aa) fasta scores: E(): 2e-29, 95.7% id in 70 aa, and to Y. enterocolitica major cold shock protein Cspa2 TR:Q9RIF1 (EMBL:U82821) (70 aa) fasta scores: E(): 2.6e-28, 94.3% id in 70 aa, and identical to the previously sequenced Yersinia pestis hypothetical 7.5 kDa protein TR:O34279 (EMBL:Z97978) (70 aa) fasta scores: E(): 2.2e-30, 100.0% id in 70 aa. This CDS is almost identical (97.4%) to the one immediately upstream (YPO3644). It is also similar to YPO2659 (88.0% identity in 75 aa overlap), YP [...] (70 aa) |
| | YPO3611 | Hypothetical protein; No significant database hits. (63 aa) |
| | rapZ | Conserved hypothetical protein; Modulates the synthesis of GlmS, by affecting the processing and stability of the regulatory small RNA GlmZ. When glucosamine-6- phosphate (GlcN6P) concentrations are high in the cell, RapZ binds GlmZ and targets it to cleavage by RNase E. Consequently, GlmZ is inactivated and unable to activate GlmS synthesis. Under low GlcN6P concentrations, RapZ is sequestered and inactivated by an other regulatory small RNA, GlmY, preventing GlmZ degradation and leading to synthesis of GlmS; Belongs to the RapZ-like family. RapZ subfamily. (284 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) |
| | 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) |
| | YPO3504 | Similar to Escherichia coli hypothetical protein YhbY SW:YHBY_ECOLI (P42550) (97 aa) fasta scores: E(): 3.2e-31, 80.4% id in 97 aa, and to Vibrio cholerae hypothetical protein VC0635 TR:Q9KU88 (EMBL:AE004149) (98 aa) fasta scores: E(): 1e-27, 73.2% id in 97 aa. (97 aa) |
| | nusA | N utilization substance protein A; Participates in both transcription termination and antitermination. (495 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) |
| | csdA | Cold-shock dead-box protein A; DEAD-box RNA helicase involved in various cellular processes at low temperature, including ribosome biogenesis, mRNA degradation and translation initiation. (664 aa) |
| | acnB | Aconitate hydratase 2; Similar to Escherichia coli aconitate hydratase 2 AcnB SW:ACO2_ECOLI (P36683) (865 aa) fasta scores: E(): 0,90.3% id in 865 aa, and to Vibrio cholerae aconitate hydratase 2 Vc0604 TR:Q9KUB8 (EMBL:AE004145) (865 aa) fasta scores: E(): 0, 81.2% id in 862 aa; Belongs to the aconitase/IPM isomerase family. (865 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) |
| | truD | Conserved hypothetical protein; Responsible for synthesis of pseudouridine from uracil-13 in transfer RNAs; Belongs to the pseudouridine synthase TruD family. (349 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) |
| | csrA | Carbon storage regulator; A key translational regulator that binds mRNA to regulate translation initiation and/or mRNA stability. Mediates global changes in gene expression, shifting from rapid growth to stress survival by linking envelope stress, the stringent response and the catabolite repression systems. Usually binds in the 5'-UTR; binding at or near the Shine-Dalgarno sequence prevents ribosome-binding, repressing translation, binding elsewhere in the 5'-UTR can activate translation and/or stabilize the mRNA. Its function is antagonized by small RNA(s). (61 aa) |
| | ffh | Signal recognition particle protein; Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY. Interaction with FtsY leads to the transfer of the RNC complex to the Sec translocase for insertion into the membrane, the hydrolysis of GTP by both Ffh and FtsY, and the dissociation of the SRP-FtsY complex into the individual componen [...] (453 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) |
| | 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) |
| | proB | Glutamate 5-kinase; Catalyzes the transfer of a phosphate group to glutamate to form L-glutamate 5-phosphate. (367 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) |
| | 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) |
| | 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) |
| | 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) |
| | YPO2825 | Similar to Escherichia coli hypothetical protein YbcJ SW:YBCJ_ECOLI (P45571) (70 aa) fasta scores: E(): 5.9e-18, 71.4% id in 70 aa, and to Neisseria meningitidis hypothetical protein NMA0633 TR:Q9JVX7 (EMBL:AL162753) (77 aa) fasta scores: E(): 1.1e-08, 46.9% id in 64 aa. (70 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) |
| | era | Putative GTP-binding protein; An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism. (303 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) |
| | cspB-2 | Similar to Escherichia coli plasmid (ColE1) mobilization protein MbeD SW:MBED_ECOLI (P13660) (77 aa) fasta scores: E(): 0.31, 28.4% id in 67 aa, and to Escherichia coli plasmid (pLG13) mobilization protein MobD TR:AAG18130 (EMBL:AF251289) (77 aa) fasta scores: E(): 0.18, 28.4% id in 67 aa. This CDS appears to be disrupted by the insertion of the downstream IS285 element. The insertion occurred near the C-terminus. It is not clear whether this insertion affects the function of the protein. (70 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) |
| | 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) |
| | 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) |
| | rnb | Exoribonuclease II; Involved in mRNA degradation. Hydrolyzes single-stranded polyribonucleotides processively in the 3' to 5' direction. (644 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) |
| | YPO2212 | Similar to Escherichia coli hypothetical protein YciO SW:YCIO_ECOLI (P45847) (206 aa) fasta scores: E(): 0,80.0% id in 205 aa, and to Vibrio cholerae hypothetical protein VC1178 vc1178 TR:Q9KSS8 (EMBL:AE004197) (206 aa) fasta scores: E(): 0, 74.3% id in 206 aa; Belongs to the SUA5 family. (206 aa) |
| | YPO1818 | Similar to Synechocystis sp. hypothetical protein SLR1999 TR:P73830 (EMBL:D90910) (136 aa) fasta scores: E(): 4e-06, 42.4% id in 59 aa, and to Escherichia coli YcfA protein TR:BAB12616 (EMBL:AP002527) (60 aa) fasta scores: E(): 0.0025, 43.3% id in 60 aa. (122 aa) |
| | dbpA | ATP-dependent RNA helicase; DEAD-box RNA helicase involved in the assembly of the 50S ribosomal subunit. Has an RNA-dependent ATPase activity, which is specific for 23S rRNA, and a 3' to 5' RNA helicase activity that uses the energy of ATP hydrolysis to destabilize and unwind short rRNA duplexes. (460 aa) |
| | proQ | ProP effector homologue; RNA chaperone with significant RNA binding, RNA strand exchange and RNA duplexing activities. May regulate ProP activity through an RNA-based, post-transcriptional mechanism. Belongs to the ProQ family. (237 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) |
| | 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) |
| | 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) |
| | 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) |
| | 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) |
| | rsuA | Ribosomal small subunit pseudouridine synthase A; Responsible for synthesis of pseudouridine from uracil-516 in 16S ribosomal RNA. (235 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) |
| | YPO1262 | Similar to Escherichia coli nucleoid-associated protein YejK SW:NA37_ECOLI (P33920) (334 aa) fasta scores: E(): 0, 79.7% id in 330 aa, and to Vibrio cholerae hypothetical protein VC2039 TR:Q9KQF9 (EMBL:AE004278) (333 aa) fasta scores: E(): 0, 54.4% id in 331 aa. (334 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) |
| | 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) |
| | b0183 | Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family. (198 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) |
| | 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) |
| | 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) |
| | 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) |
| | 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) |
| | rnr | Ribonuclease R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs. Belongs to the RNR ribonuclease family. RNase R subfamily. (844 aa) |
| | ymr | Yersinia multiple regulator; RNA chaperone that binds small regulatory RNA (sRNAs) and mRNAs to facilitate mRNA translational regulation in response to envelope stress, environmental stress and changes in metabolite concentrations. Also binds with high specificity to tRNAs. Belongs to the Hfq family. (101 aa) |
| | rsgA | Conserved hypothetical protein; One of several proteins that assist in the late maturation steps of the functional core of the 30S ribosomal subunit. Helps release RbfA from mature subunits. May play a role in the assembly of ribosomal proteins into the subunit. Circularly permuted GTPase that catalyzes slow GTP hydrolysis, GTPase activity is stimulated by the 30S ribosomal subunit; Belongs to the TRAFAC class YlqF/YawG GTPase family. RsgA subfamily. (350 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) |
| | 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) |
| | rsmB | Conserved hypothetical protein; Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA. (429 aa) |
| | 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) |
| | 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) |
| | 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) |
| | rplO | 50S ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (144 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) |
| | 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) |
| | 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) |
| | 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) |
| | 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) |
| | 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) |
| | 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) |
| | 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) |
| | 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) |
| | 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) |
| | 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) |
| | 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) |
| | rpsS | 30S ribosomal protein S19; Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA. (92 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) |
| | 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) |
| | bipA | Putative GTPase; Similar to Salmonella typhimurium GTPase BipA TR:CAC14270 (EMBL:AJ276889) (607 aa) fasta scores: E(): 0,89.1% id in 606 aa and to Escherichia coli GTP-binding protein BipA which has shown to be important for virulence of EPEC strains. SW:TYPA_ECOLI (P32132) (591 aa) fasta scores: E(): 0, 89.3% id in 591 aa. (607 aa) |
| | dtd | Conserved hypothetical protein; An aminoacyl-tRNA editing enzyme that deacylates mischarged D-aminoacyl-tRNAs. Also deacylates mischarged glycyl-tRNA(Ala), protecting cells against glycine mischarging by AlaRS. Acts via tRNA- based rather than protein-based catalysis; rejects L-amino acids rather than detecting D-amino acids in the active site. By recycling D- aminoacyl-tRNA to D-amino acids and free tRNA molecules, this enzyme counteracts the toxicity associated with the formation of D-aminoacyl- tRNA entities in vivo and helps enforce protein L-homochirality. Belongs to the DTD family. (145 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) |
| | 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) |
| | 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) |
| | hslR | Similar to Escherichia coli heat shock protein 15 HslR SW:HSLR_ECOLI (P45802) (133 aa) fasta scores: E(): 0,73.3% id in 135 aa; Belongs to the HSP15 family. (135 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) |
| | 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) |
| | 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) |
| | rlmJ | Conserved hypothetical protein; Specifically methylates the adenine in position 2030 of 23S rRNA. (280 aa) |
