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| | rpsK | SSU ribosomal protein S11P; 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. (130 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 | LSU ribosomal protein L15P; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (144 aa) |
| | rpmD | PFAM: Ribosomal protein L30p/L7e; 'TIGRFAM: ribosomal protein L30, bacterial/organelle'. (61 aa) |
| | mnmG | NAD/FAD-utilizing enzyme apparently involved in cell division; 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. (630 aa) |
| | ybeY | Putative rRNA maturation factor YbeY; Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA. (158 aa) |
| | rsmG | 16S rRNA m(7)G-527 methyltransferase; Specifically methylates the N7 position of guanine in position 527 of 16S rRNA. (206 aa) |
| | Sps_05621 | PFAM: HI0933-like protein; 'TIGRFAM: flavoprotein, HI0933 family'. (394 aa) |
| | rlmF | 23S rRNA m(6)A-1618 methyltransferase; Specifically methylates the adenine in position 1618 of 23S rRNA. (409 aa) |
| | Sps_05489 | PFAM: RNA pseudouridylate synthase; 'TIGRFAM: pseudouridine synthase Rlu family protein, TIGR01621'. (224 aa) |
| | Sps_05481 | 'PFAM: Sigma-70, region 4; Sigma-70 region 2'; 'TIGRFAM: RNA polymerase sigma factor, sigma-70 family'; Belongs to the sigma-70 factor family. ECF subfamily. (177 aa) |
| | selU | tRNA 2-selenouridine synthase; Involved in the post-transcriptional modification of the uridine at the wobble position (U34) of tRNA(Lys), tRNA(Glu) and tRNA(Gln). Catalyzes the conversion of 2-thiouridine (S2U-RNA) to 2- selenouridine (Se2U-RNA). Acts in a two-step process involving geranylation of 2-thiouridine (S2U) to S-geranyl-2-thiouridine (geS2U) and subsequent selenation of the latter derivative to 2-selenouridine (Se2U) in the tRNA chain. (369 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). (365 aa) |
| | Sps_05434 | 'PFAM: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)'. (156 aa) |
| | trpS | tryptophanyl-tRNA synthetase; Catalyzes the attachment of tryptophan to tRNA(Trp). Belongs to the class-I aminoacyl-tRNA synthetase family. (335 aa) |
| | rsmI | Putative S-adenosylmethionine-dependent methyltransferase, YraL family; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA. (281 aa) |
| | argS | arginyl-tRNA synthetase; PFAM: DALR anticodon binding domain; Arginyl tRNA synthetase N terminal domain; tRNA synthetases class I (R); TIGRFAM: arginyl-tRNA synthetase. (581 aa) |
| | rpmE | LSU ribosomal protein L31P; Binds the 23S rRNA. (70 aa) |
| | Sps_05335 | RNAse G; PFAM: Ribonuclease E/G family; S1 RNA binding domain; 'TIGRFAM: ribonuclease, Rne/Rng family'. (500 aa) |
| | Sps_05222 | Putative SAM-dependent methyltransferase; PFAM: S-adenosylmethionine-dependent methyltransferase; Belongs to the methyltransferase superfamily. (335 aa) |
| | Sps_05218 | Hypothetical protein; PFAM: S-adenosyl-L-methionine-dependent methyltransferase. (227 aa) |
| | Sps_05208 | RNA polymerase, sigma 54 subunit, RpoN/SigL; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (492 aa) |
| | rplM | LSU ribosomal protein L13P; 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. (143 aa) |
| | rpsI | PFAM: Ribosomal protein S9/S16; Belongs to the universal ribosomal protein uS9 family. (130 aa) |
| | rlmB | 23S rRNA Gm-2251 2'-O-methyltransferase; Specifically methylates the ribose of guanosine 2251 in 23S rRNA. (250 aa) |
| | rpsF | SSU ribosomal protein S6P; Binds together with S18 to 16S ribosomal RNA. (140 aa) |
| | rpsR | SSU ribosomal protein S18P; 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 | LSU ribosomal protein L9P; Binds to the 23S rRNA. (150 aa) |
| | dusA | tRNA-U16,U17-dihydrouridine synthase; 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. (341 aa) |
| | Sps_05084 | PFAM: Uncharacterised P-loop hydrolase UPF0079; TIGRFAM: tRNA threonylcarbamoyl adenosine modification protein YjeE. (152 aa) |
| | miaA | tRNA isopentenyltransferase MiaA; 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. (308 aa) |
| | Sps_05033 | 'PFAM: Sigma-70, region 4; Sigma-70 region 2'; 'TIGRFAM: RNA polymerase sigma factor, sigma-70 family'; Belongs to the sigma-70 factor family. ECF subfamily. (205 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. (452 aa) |
| | gluQ | Glutamyl-queuosine tRNA(Asp) 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. (290 aa) |
| | Sps_04974 | ATP-dependent helicase HrpB; PFAM: Helicase conserved C-terminal domain; ATP-dependent helicase C-terminal; Helicase associated domain (HA2); DEAD/DEAH box helicase; TIGRFAM: ATP-dependent helicase HrpB. (876 aa) |
| | Sps_04939 | Ribosomal large subunit pseudouridine synthase A; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (225 aa) |
| | prfB | Bacterial peptide chain release factor 2 (bRF-2); Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA. (352 aa) |
| | lysS | 'PFAM: tRNA synthetases class II (D, K and N); OB-fold nucleic acid binding domain'; 'TIGRFAM: lysyl-tRNA synthetase, eukaryotic and non-spirochete bacterial'; Belongs to the class-II aminoacyl-tRNA synthetase family. (500 aa) |
| | Sps_04912 | PFAM: RNA pseudouridylate synthase; TIGRFAM: pseudouridine synthase; Belongs to the pseudouridine synthase RsuA family. (208 aa) |
| | rsmA | 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) |
| | Sps_04610 | PFAM: RNA pseudouridylate synthase; TIGRFAM: pseudouridine synthase; Belongs to the pseudouridine synthase RsuA family. (236 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. (973 aa) |
| | Sps_04540 | 'PFAM: Sigma-70, region 4; Sigma-70 region 2'; 'TIGRFAM: RNA polymerase sigma factor, sigma-70 family'; Belongs to the sigma-70 factor family. ECF subfamily. (178 aa) |
| | Sps_04511 | Hypothetical protein. (835 aa) |
| | queG | Epoxyqueuosine reductase; 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. (424 aa) |
| | Sps_04407 | PFAM: RNA pseudouridylate synthase; S4 domain; TIGRFAM: pseudouridine synthase; Belongs to the pseudouridine synthase RsuA family. (229 aa) |
| | Sps_04404 | RNA polymerase, sigma-24 subunit, RpoE; 'PFAM: Sigma-70, region 4; Sirohaem synthase dimerisation region; Sigma-70 region 2'; 'TIGRFAM: RNA polymerase sigma factor, sigma-70 family'; Belongs to the sigma-70 factor family. ECF subfamily. (178 aa) |
| | Sps_04399 | Ribosomal large subunit pseudouridine synthase D; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (324 aa) |
| | Sps_04383 | (SSU ribosomal protein S18P)-alanine acetyltransferase; Acetylates the N-terminal alanine of ribosomal protein S18. (151 aa) |
| | lipA | Lipoate synthase; 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) |
| | 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. (217 aa) |
| | rlmH | 23S rRNA (pseudouridine-1915-N(3)-) methyltransferase; Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA; Belongs to the RNA methyltransferase RlmH family. (156 aa) |
| | leuS | 'PFAM: Leucyl-tRNA synthetase, Domain 2; tRNA synthetases class I (I, L, M and V); Anticodon-binding domain of tRNA'; 'TIGRFAM: leucyl-tRNA synthetase, eubacterial and mitochondrial family'; Belongs to the class-I aminoacyl-tRNA synthetase family. (863 aa) |
| | miaB | tRNA-i(6)A37 thiotransferase enzyme MiaB; 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) |
| | 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. (194 aa) |
| | prfA | Bacterial peptide chain release factor 1 (bRF-1); Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA. (361 aa) |
| | rlmG | 23S rRNA m(2)G-1835 methyltransferase; Specifically methylates the guanine in position 1835 (m2G1835) of 23S rRNA. (420 aa) |
| | Sps_04308 | Transcriptional regulator, BolA protein family; PFAM: BolA-like protein; Belongs to the BolA/IbaG family. (99 aa) |
| | Sps_04258 | PFAM: CRS1 / YhbY (CRM) domain; 'TIGRFAM: putative RNA-binding protein, YhbY family'. (99 aa) |
| | rlmE | 23S rRNA Um-2552 2'-O-methyltransferase; 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) |
| | nusA | NusA antitermination factor; Participates in both transcription termination and antitermination. (499 aa) |
| | infB | Bacterial translation initiation factor 2 (bIF-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. (892 aa) |
| | rbfA | 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. (140 aa) |
| | truB | 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. (320 aa) |
| | rpsO | SSU ribosomal protein S15P; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome. (89 aa) |
| | pnp | Polyribonucleotide nucleotidyltransferase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (702 aa) |
| | prfC | Bacterial peptide chain release factor 3 (bRF-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. (526 aa) |
| | Sps_04183 | PFAM: 4Fe-4S dicluster domain. (85 aa) |
| | Sps_04165 | 'PFAM: Anticodon binding domain; tRNA synthetase class II core domain (G, H, P, S and T)'; TIGRFAM: threonyl-tRNA synthetase. (392 aa) |
| | Sps_04141 | PFAM: RNA pseudouridylate synthase; S4 domain; TIGRFAM: pseudouridine synthase; Belongs to the pseudouridine synthase RsuA family. (250 aa) |
| | Sps_04134 | PFAM: ABC transporter; 'TIGRFAM: ATP-binding cassette protein, ChvD family'. (554 aa) |
| | Sps_04131 | PFAM: FAD dependent oxidoreductase; TIGRFAM: putative aminophosphonate oxidoreductase. (462 aa) |
| | nusB | NusB antitermination factor; 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. (134 aa) |
| | rlmD | 23S rRNA m(5)U-1939 methyltransferase; Catalyzes the formation of 5-methyl-uridine at position 1939 (m5U1939) in 23S rRNA; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. RlmD subfamily. (451 aa) |
| | truD | tRNA pseudouridine synthase, TruD family; Responsible for synthesis of pseudouridine from uracil-13 in transfer RNAs; Belongs to the pseudouridine synthase TruD family. (359 aa) |
| | rpoS | RNA polymerase, sigma 38 subunit, 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. (323 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. (874 aa) |
| | Sps_04058 | 'PFAM: Sigma-70, region 4; Sigma-70 region 2'; 'TIGRFAM: RNA polymerase sigma factor, sigma-70 family'; Belongs to the sigma-70 factor family. ECF subfamily. (204 aa) |
| | Sps_04021 | TIGRFAM: anaerobic sulfatase-maturating enzyme; radical SAM additional 4Fe4S-binding SPASM domain. (298 aa) |
| | Sps_04020 | Hypothetical protein. (51 aa) |
| | Sps_03916 | Putative SAM-dependent methyltransferase; PFAM: Family of unknown function (DUF633). (239 aa) |
| | smpB | SsrA-binding protein; 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 ribosome then switches to [...] (165 aa) |
| | rlmN | 23S rRNA m(2)A-2503 methyltransferase; 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. (373 aa) |
| | Sps_03838 | PFAM: Tetratricopeptide repeat; TIGRFAM: type IV pilus biogenesis/stability protein PilW. (262 aa) |
| | hisS | PFAM: Anticodon binding domain; Histidyl-tRNA synthetase; TIGRFAM: histidyl-tRNA synthetase. (424 aa) |
| | tadA | tRNA-adenosine deaminase; Catalyzes the deamination of adenosine to inosine at the wobble position 34 of tRNA(Arg2); Belongs to the cytidine and deoxycytidylate deaminase family. (189 aa) |
| | Sps_03822 | PFAM: TfoX C-terminal domain. (89 aa) |
| | fliA | RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG; 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. (239 aa) |
| | Sps_03741 | methionyl-tRNA formyltransferase; 'PFAM: Formyl transferase; Formyl transferase, C-terminal domain'. (295 aa) |
| | Sps_03738 | methionyl-tRNA formyltransferase; 'PFAM: Formyl transferase; Formyl transferase, C-terminal domain'. (310 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). (469 aa) |
| | Sps_03612 | PFAM: RNA pseudouridylate synthase; 'TIGRFAM: pseudouridine synthase, RluA family'. (230 aa) |
| | tgt | tRNA-guanine transglycosylase; 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 the [...] (374 aa) |
| | trmJ-2 | RNA methyltransferase, TrmH family, group 1; Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA. (254 aa) |
| | Sps_03571 | Putative SAM-dependent methyltransferase; PFAM: S-adenosylmethionine-dependent methyltransferase; Belongs to the methyltransferase superfamily. (304 aa) |
| | Sps_03544 | 'PFAM: Bacterial regulatory proteins, tetR family'. (230 aa) |
| | Sps_03461 | PFAM: Phage Mu protein F like protein. (480 aa) |
| | trmH | SpoU rRNA methylase family protein; 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. (232 aa) |
| | rpoZ | DNA-directed RNA polymerase subunit omega; 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. (94 aa) |
| | Sps_03309 | TIGR00255 family protein; 'PFAM: YicC-like family, N-terminal region; Domain of unknown function (DUF1732)'; TIGRFAM: TIGR00255 family protein. (287 aa) |
| | rph | RNAse 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. (237 aa) |
| | rpmB | LSU ribosomal protein L28P; PFAM: Ribosomal L28 family; TIGRFAM: ribosomal protein L28; Belongs to the bacterial ribosomal protein bL28 family. (78 aa) |
| | rpmG | PFAM: Ribosomal protein L33; 'TIGRFAM: ribosomal protein L33, bacterial type'; Belongs to the bacterial ribosomal protein bL33 family. (57 aa) |
| | rsmH | 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA. (313 aa) |
| | Sps_03192 | PFAM: Peptidase S24-like; 'TIGRFAM: signal peptidase I, bacterial type'; Belongs to the peptidase S26 family. (216 aa) |
| | Sps_03156 | Anaerobic sulfatase-maturating enzyme; PFAM: Iron-sulfur cluster-binding domain; Radical SAM superfamily; 4Fe-4S single cluster domain; TIGRFAM: anaerobic sulfatase-maturating enzyme; radical SAM additional 4Fe4S-binding SPASM domain. (389 aa) |
| | dusB | tRNA-U20-dihydrouridine synthase; 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. (322 aa) |
| | rho | Transcription termination factor Rho; 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. (422 aa) |
| | Sps_03030 | PFAM: RF-1 domain. (138 aa) |
| | Sps_03001 | PFAM: RNA pseudouridylate synthase. (308 aa) |
| | Sps_02912 | Dinucleotide-utilizing enzyme; PFAM: ThiF family. (279 aa) |
| | rsmC | 16S rRNA m(2)G 1207 methyltransferase; Specifically methylates the guanine in position 1207 of 16S rRNA in the 30S particle; Belongs to the methyltransferase superfamily. RsmC family. (357 aa) |
| | Sps_02899 | 16S rRNA m(3)U-1498 methyltransferase; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit. (242 aa) |
| | rimK | SSU ribosomal protein S6P modification protein; PFAM: RimK-like ATP-grasp domain; Putative ATP-dependant zinc protease; 'TIGRFAM: alpha-L-glutamate ligase, RimK family'; Belongs to the RimK family. (464 aa) |
| | Sps_02833 | PFAM: RNA pseudouridylate synthase; S4 domain; TIGRFAM: pseudouridine synthase; Belongs to the pseudouridine synthase RsuA family. (254 aa) |
| | Sps_02818 | Hypothetical protein; PFAM: tRNA synthetases class I (W and Y); TIGRFAM: tryptophanyl-tRNA synthetase; Belongs to the class-I aminoacyl-tRNA synthetase family. (257 aa) |
| | Sps_02817 | Hypothetical protein. (112 aa) |
| | Sps_02760 | Hypothetical protein; PFAM: Domain of unknown function. (72 aa) |
| | Sps_02730 | Metal-dependent hydrolase, beta-lactamase superfamily III; PFAM: Beta-lactamase superfamily domain. (313 aa) |
| | rplU | LSU ribosomal protein L21P; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family. (103 aa) |
| | rpmA | PFAM: Ribosomal L27 protein; TIGRFAM: ribosomal protein L27; Belongs to the bacterial ribosomal protein bL27 family. (84 aa) |
| | Sps_02628 | Putative O-methyltransferase; Specifically methylates the adenine in position 37 of tRNA(1)(Val) (anticodon cmo5UAC). (243 aa) |
| | def-3 | Peptide 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. (166 aa) |
| | Sps_02563 | Gamma-glutamylputrescine oxidase; PFAM: FAD dependent oxidoreductase. (435 aa) |
| | Sps_02555 | Gamma-glutamylputrescine oxidase; PFAM: FAD dependent oxidoreductase. (428 aa) |
| | rpoD | RNA polymerase, sigma 70 subunit, 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. (610 aa) |
| | rpsU | PFAM: Ribosomal protein S21; TIGRFAM: ribosomal protein S21; Belongs to the bacterial ribosomal protein bS21 family. (71 aa) |
| | tsaD | O-sialoglycoprotein endopeptidase; 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) |
| | cca | Metal dependent phosphohydrolase; 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. (413 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 2 subfamily. (398 aa) |
| | Sps_02441 | RNA polymerase, sigma-24 subunit, RpoE; 'PFAM: Sigma-70, region 4; Sigma-70 region 2'; 'TIGRFAM: RNA polymerase sigma factor, sigma-70 family; RNA polymerase sigma factor RpoE'; Belongs to the sigma-70 factor family. ECF subfamily. (192 aa) |
| | lepA | GTP-binding protein LepA; Required for accurate and efficient protein synthesis under certain stress conditions. May act as a fidelity factor of the translation reaction, by catalyzing a one-codon backward translocation of tRNAs on improperly translocated ribosomes. Back-translocation proceeds from a post-translocation (POST) complex to a pre- translocation (PRE) complex, thus giving elongation factor G a second chance to translocate the tRNAs correctly. Binds to ribosomes in a GTP- dependent manner. (596 aa) |
| | Sps_02436 | 'PFAM: Peptidase S24-like; Signal peptidase, peptidase S26'; 'TIGRFAM: signal peptidase I, bacterial type'; Belongs to the peptidase S26 family. (305 aa) |
| | rnc | RNAse 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. (225 aa) |
| | rpsP | PFAM: Ribosomal protein S16; TIGRFAM: ribosomal protein S16; Belongs to the bacterial ribosomal protein bS16 family. (83 aa) |
| | rimM | 16S rRNA processing protein RimM; 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. (176 aa) |
| | trmD | tRNA (Guanine37-N(1)-) methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family. (242 aa) |
| | rplS | LSU ribosomal protein L19P; 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. (117 aa) |
| | rpsT | SSU ribosomal protein S20P; Binds directly to 16S ribosomal RNA. (88 aa) |
| | ileS | 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. (924 aa) |
| | trmB | tRNA (guanine-N(7)-)-methyltransferase; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. (238 aa) |
| | Sps_02336 | RNAse H-fold protein YqgF; Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA; Belongs to the YqgF HJR family. (140 aa) |
| | Sps_02334 | PFAM: Translation initiation factor SUI1; 'TIGRFAM: translation initation factor SUI1, putative, prokaryotic'. (109 aa) |
| | Sps_02319 | Hypothetical protein. (72 aa) |
| | Sps_02296 | tRNA/rRNA cytosine-C5-methylase; PFAM: NOL1/NOP2/sun family; Belongs to the class I-like SAM-binding methyltransferase superfamily. RsmB/NOP family. (491 aa) |
| | thiI | (ThiS-adenylate) sulfurtransferase; 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. (484 aa) |
| | rlmM | Putative SAM-dependent methyltransferase; 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. (360 aa) |
| | Sps_02181 | 'PFAM: Elongation Factor G, domain II; Elongation factor Tu domain 2; Elongation factor G C-terminus; Elongation factor Tu GTP binding domain; Elongation factor G, domain IV'; TIGRFAM: translation elongation factor EF-G; small GTP-binding protein domain. (693 aa) |
| | Sps_02145 | tRNA pseudouridine synthase C; PFAM: RNA pseudouridylate synthase; 'TIGRFAM: pseudouridine synthase, RluA family'. (291 aa) |
| | rpsB | PFAM: Ribosomal protein S2; 'TIGRFAM: ribosomal protein S2, bacterial type'; Belongs to the universal ribosomal protein uS2 family. (242 aa) |
| | tsf | Translation elongation factor Ts (EF-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. (282 aa) |
| | frr | 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) |
| | Sps_02123 | Periplasmic chaperone for outer membrane proteins Skp; PFAM: Outer membrane protein (OmpH-like); Belongs to the skp family. (167 aa) |
| | tilS | tRNA(Ile)-lysidine synthetase; 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. (467 aa) |
| | proS | 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 [...] (569 aa) |
| | Sps_02075 | PFAM: RNA pseudouridylate synthase; 'TIGRFAM: pseudouridine synthase, RluA family'. (599 aa) |
| | Sps_02005 | Hydroxylase for synthesis of 2-methylthio-cis-ribozeatin in tRNA; PFAM: tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE). (190 aa) |
| | Sps_01968 | PFAM: RNA pseudouridylate synthase. (290 aa) |
| | glnS | 'PFAM: tRNA synthetases class I (E and Q), catalytic domain; tRNA synthetases class I (E and Q), anti-codon binding domain'; TIGRFAM: glutaminyl-tRNA synthetase. (556 aa) |
| | Sps_01891 | Hydroxylase for synthesis of 2-methylthio-cis-ribozeatin in tRNA; PFAM: tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE). (262 aa) |
| | cysS | PFAM: tRNA synthetases class I (C) catalytic domain; DALR domain; TIGRFAM: cysteinyl-tRNA synthetase; Belongs to the class-I aminoacyl-tRNA synthetase family. (459 aa) |
| | Sps_01841 | Hypothetical protein; PFAM: S4 domain. (77 aa) |
| | Sps_01801 | PFAM: Protein of unknown function (DUF3379). (234 aa) |
| | Sps_01800 | 'PFAM: Sigma-70, region 4; Sigma-70 region 2'; 'TIGRFAM: RNA polymerase sigma factor, sigma-70 family'; Belongs to the sigma-70 factor family. ECF subfamily. (187 aa) |
| | Sps_01779 | PFAM: SpoU rRNA Methylase family. (183 aa) |
| | mnmC | tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; 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 C-terminal section; belongs to the DAO family. (700 aa) |
| | truA | tRNA pseudouridine(38-40) synthase; Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs. (261 aa) |
| | Sps_01688 | Translation factor SUA5; PFAM: Telomere recombination; 'TIGRFAM: tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family'; Belongs to the SUA5 family. (206 aa) |
| | Sps_01685 | Ribosomal large subunit pseudouridine synthase B; PFAM: RNA pseudouridylate synthase; S4 domain; TIGRFAM: pseudouridine synthase; Belongs to the pseudouridine synthase RsuA family. (288 aa) |
| | dusC | tRNA-U20a,U20b-dihydrouridine synthase; 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. (310 aa) |
| | Sps_01559 | Acetyltransferase, ribosomal protein N-acetylase; PFAM: Acetyltransferase (GNAT) domain. (200 aa) |
| | Sps_01471 | Hypothetical protein. (920 aa) |
| | Sps_01402 | Putative sulfurtransferase; PFAM: Rhodanese-like domain; Belongs to the UPF0176 family. (365 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. (694 aa) |
| | rsmF | 16S rRNA m(5)C-1407 methyltransferase; Specifically methylates the cytosine at position 1407 (m5C1407) of 16S rRNA. (478 aa) |
| | Sps_01377 | Ribosome biogenesis GTP-binding protein YlqF; Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity; Belongs to the TRAFAC class YlqF/YawG GTPase family. MTG1 subfamily. (312 aa) |
| | rne | RNAse 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. (1192 aa) |
| | Sps_01372 | Ribosomal large subunit pseudouridine synthase C; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (319 aa) |
| | rpmF | PFAM: Ribosomal L32p protein family; TIGRFAM: ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family. (56 aa) |
| | Sps_01338 | Hypothetical protein; PFAM: Putative ATP-dependant zinc protease. (195 aa) |
| | Sps_01335 | Hypothetical protein; PFAM: Putative ATP-dependant zinc protease. (118 aa) |
| | pheS | phenylalanyl-tRNA synthetase, alpha subunit; 'PFAM: tRNA synthetases class II core domain (F); Aminoacyl tRNA synthetase class II, N-terminal domain'; 'TIGRFAM: phenylalanyl-tRNA synthetase, alpha subunit'; Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily. (327 aa) |
| | pheT | phenylalanyl-tRNA synthetase beta subunit; PFAM: tRNA synthetase B5 domain; Ferredoxin-fold anticodon binding domain; B3/4 domain; Putative tRNA binding domain; 'TIGRFAM: phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial'; Belongs to the phenylalanyl-tRNA synthetase beta subunit family. Type 1 subfamily. (795 aa) |
| | Sps_01294 | PFAM: Glycoprotease family; TIGRFAM: tRNA threonylcarbamoyl adenosine modification protein YeaZ. (239 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. (372 aa) |
| | Sps_01274 | PFAM: Asparaginase. (345 aa) |
| | Sps_01262 | ATP-dependent helicase HrpA; PFAM: Helicase conserved C-terminal domain; Helicase associated domain (HA2); Oligonucleotide/oligosaccharide-binding (OB)-fold; Domain of unknown function (DUF3418); DEAD/DEAH box helicase; TIGRFAM: RNA helicase HrpA. (1299 aa) |
| | def-2 | Peptide 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. (163 aa) |
| | Sps_01188 | PFAM: DTW domain. (175 aa) |
| | Sps_01171 | Hypothetical protein; PFAM: Putative ATP-dependant zinc protease. (247 aa) |
| | cmoB | tRNA (mo5U34)-methyltransferase; 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. (330 aa) |
| | cmoA | tRNA (cmo5U34)-methyltransferase; Catalyzes the conversion of S-adenosyl-L-methionine (SAM) to carboxy-S-adenosyl-L-methionine (Cx-SAM). (244 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. (595 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). (642 aa) |
| | infC | Bacterial translation initiation factor 3 (bIF-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. (153 aa) |
| | rpmI | PFAM: Ribosomal protein L35; TIGRFAM: ribosomal protein L35; Belongs to the bacterial ribosomal protein bL35 family. (64 aa) |
| | rplT | LSU ribosomal protein L20P; 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. (119 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). (428 aa) |
| | Sps_01066 | Sulfur relay protein, TusE/DsrC/DsvC family; Part of a sulfur-relay system. (111 aa) |
| | Sps_01065 | PFAM: DsrH like protein; TIGRFAM: sulfur relay protein TusB/DsrH. (93 aa) |
| | Sps_01064 | PFAM: DsrE/DsrF-like family; TIGRFAM: sulfur relay protein TusC/DsrF; Belongs to the DsrF/TusC family. (118 aa) |
| | Sps_01063 | PFAM: DsrE/DsrF-like family; TIGRFAM: sulfur relay protein TusD/DsrE. (129 aa) |
| | ttcA | Putative ATPase of the PP-loop superfamily implicated in cell cycle control; 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. (316 aa) |
| | trmJ | RNA methyltransferase, TrmH family, group 1; Catalyzes the formation of 2'O-methylated cytidine (Cm32) or 2'O-methylated uridine (Um32) at position 32 in tRNA. (236 aa) |
| | Sps_00892 | glycine/D-amino acid oxidase, deaminating; PFAM: FAD dependent oxidoreductase. (452 aa) |
| | Sps_00881 | PFAM: RNA pseudouridylate synthase; 'TIGRFAM: pseudouridine synthase, RluA family'. (238 aa) |
| | Sps_00829 | Hypothetical protein; PFAM: DTW domain. (252 aa) |
| | Sps_00817 | SSU ribosomal protein S1P; Binds mRNA; thus facilitating recognition of the initiation point. It is needed to translate mRNA with a short Shine-Dalgarno (SD) purine-rich sequence. (555 aa) |
| | Sps_00805 | PFAM: Peptidase family S49; 'TIGRFAM: signal peptide peptidase SppA, 36K type; signal peptide peptidase SppA, 67K type'. (613 aa) |
| | efp | Translation elongation factor P (EF-P); Involved in peptide bond synthesis. Stimulates efficient translation and peptide-bond synthesis on native or reconstituted 70S ribosomes in vitro. Probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase. (187 aa) |
| | asnS | 'PFAM: tRNA synthetases class II (D, K and N); OB-fold nucleic acid binding domain'; TIGRFAM: asparaginyl-tRNA synthetase. (466 aa) |
| | Sps_00715 | tRNA/rRNA cytosine-C5-methylase; PFAM: NOL1/NOP2/sun family; TIGRFAM: 16S rRNA (cytosine(967)-C(5))-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. RsmB/NOP family. (404 aa) |
| | fusA-2 | Translation elongation factor 2 (EF-2/EF-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. [...] (697 aa) |
| | Sps_00631 | Putative redox protein, regulator of disulfide bond formation; PFAM: Sulfurtransferase TusA; Belongs to the sulfur carrier protein TusA family. (71 aa) |
| | rplY | LSU ribosomal protein L25P; 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. (95 aa) |
| | rlmL | 23S rRNA m(2)G-2445 methyltransferase; 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. (711 aa) |
| | infA | Bacterial translation initiation factor 1 (bIF-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) |
| | Sps_00562 | PFAM: RNA pseudouridylate synthase; TIGRFAM: pseudouridine synthase; Belongs to the pseudouridine synthase RsuA family. (274 aa) |
| | mnmA | tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34. (376 aa) |
| | Sps_00526 | glycine/D-amino acid oxidase, deaminating; PFAM: FAD dependent oxidoreductase. (429 aa) |
| | rnt | RNAse 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. (223 aa) |
| | Sps_00437 | Elongation factor P-like protein YeiP; 'PFAM: Elongation factor P, C-terminal; Elongation factor P (EF-P) KOW-like domain; Elongation factor P (EF-P) OB domain'; TIGRFAM: translation elongation factor P; elongation factor P-like protein YeiP. (192 aa) |
| | rplQ | PFAM: Ribosomal protein L17; TIGRFAM: ribosomal protein L17. (131 aa) |
| | rpoA | DNA-directed RNA polymerase subunit alpha; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (329 aa) |
| | rpsD | SSU ribosomal protein S4P; 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) |
| | rpsE | Ribosomal protein S5, bacterial/organelle type; Located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body. Belongs to the universal ribosomal protein uS5 family. (167 aa) |
| | rplR | LSU ribosomal protein L18P; 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. (116 aa) |
| | rplF | LSU ribosomal protein L6P; 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. (176 aa) |
| | rpsH | SSU ribosomal protein S8P; 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 | SSU ribosomal protein S14P; 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 | LSU ribosomal protein L5P; 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 | LSU ribosomal protein L24P; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. (104 aa) |
| | rplN | LSU ribosomal protein L14P; Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome; Belongs to the universal ribosomal protein uL14 family. (122 aa) |
| | rpsQ | 30S ribosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (82 aa) |
| | rpmC | PFAM: Ribosomal L29 protein; TIGRFAM: ribosomal protein L29; Belongs to the universal ribosomal protein uL29 family. (63 aa) |
| | rplP | LSU ribosomal protein L16P; 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 | SSU ribosomal protein S3P; 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. (229 aa) |
| | rplV | LSU ribosomal protein L22P; The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome. (110 aa) |
| | rpsS | Ribosomal protein S19, bacterial/organelle; Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA. (92 aa) |
| | rplB | LSU ribosomal protein L2P; 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. (275 aa) |
| | rplW | LSU ribosomal protein L23P; 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. (99 aa) |
| | rplD | LSU ribosomal protein L4P; Forms part of the polypeptide exit tunnel. (201 aa) |
| | rplC | LSU ribosomal protein L3P; 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. (212 aa) |
| | rpsJ | SSU ribosomal protein S10P; Involved in the binding of tRNA to the ribosomes. Belongs to the universal ribosomal protein uS10 family. (103 aa) |
| | Sps_00363 | PFAM: Elongation factor Tu C-terminal domain; Elongation factor Tu domain 2; Elongation factor Tu GTP binding domain; TIGRFAM: translation elongation factor TU. (303 aa) |
| | Sps_00362 | PFAM: Elongation factor Tu GTP binding domain. (89 aa) |
| | fusA | Translation elongation factor 2 (EF-2/EF-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. [...] (698 aa) |
| | rpsG | SSU ribosomal protein S7P; 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) |
| | rpsL | SSU ribosomal protein S12P; Interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone. Located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side and probably holding the rRNA structure together. The combined cluster of proteins S8, S12 and S17 appears to hold together the shoulder and platform of the 30S subunit. (124 aa) |
| | rpoC | DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1408 aa) |
| | rpoB | DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1343 aa) |
| | rplL | LSU ribosomal protein L12P; 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) |
| | rplJ | LSU ribosomal protein L10P; 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. (166 aa) |
| | rplA | 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. (233 aa) |
| | rplK | LSU ribosomal protein L11P; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. (142 aa) |
| | nusG | Transcription antitermination protein nusG; Participates in transcription elongation, termination and antitermination. (183 aa) |
| | tuf | Translation elongation factor TU; This protein promotes the GTP-dependent binding of aminoacyl- tRNA to the A-site of ribosomes during protein biosynthesis. (409 aa) |
| | trmL | Putative rRNA methylase SpoU family; 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. (154 aa) |
| | Sps_00311 | Hypothetical protein; PFAM: DTW domain. (174 aa) |
| | rpoH | RNA polymerase, sigma 32 subunit, RpoH; 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. (286 aa) |
| | Sps_00291 | 16S rRNA m(2)G-966 methyltransferase; Specifically methylates the guanine in position 966 of 16S rRNA in the assembled 30S particle; Belongs to the methyltransferase superfamily. RsmD family. (193 aa) |
| | nfuA | IscR-regulated protein YhgI; 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. (192 aa) |
| | rsmJ | Putative SAM-dependent methyltransferase; Specifically methylates the guanosine in position 1516 of 16S rRNA. (258 aa) |
| | rlmJ | Protein involved in catabolism of external DNA; Specifically methylates the adenine in position 2030 of 23S rRNA. (280 aa) |
| | Sps_00090 | RNA polymerase, sigma 28 subunit, SigD/FliA/WhiG; 'PFAM: Sigma-70, region 4; Sigma-70 region 3; Sigma-70 region 2'; 'TIGRFAM: RNA polymerase sigma factor, FliA/WhiG family; RNA polymerase sigma factor, sigma-70 family'. (240 aa) |
| | tsaC | Translation factor SUA5; 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. (185 aa) |
| | def | Peptide 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. (319 aa) |
| | Sps_00067 | 16S rRNA m(5)C-967 methyltransferase; Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA. (425 aa) |
| | Sps_00053 | Cys-tRNA(Pro) deacylase; PFAM: Aminoacyl-tRNA editing domain; TIGRFAM: Cys-tRNA(Pro) deacylase; Belongs to the prolyl-tRNA editing family. YbaK/EbsC subfamily. (155 aa) |
| | tusA | Putative redox protein, regulator of disulfide bond formation; Sulfur carrier protein which probably makes part of a sulfur- relay system; Belongs to the sulfur carrier protein TusA family. (89 aa) |
| | glyQ | PFAM: Glycyl-tRNA synthetase alpha subunit; 'TIGRFAM: glycyl-tRNA synthetase, tetrameric type, alpha subunit'. (287 aa) |
| | glyS | PFAM: Glycyl-tRNA synthetase beta subunit; DALR anticodon binding domain; 'TIGRFAM: glycyl-tRNA synthetase, tetrameric type, beta subunit'. (689 aa) |
| | rpmH | PFAM: Ribosomal protein L34; 'TIGRFAM: ribosomal protein L34, bacterial type'; Belongs to the bacterial ribosomal protein bL34 family. (45 aa) |
| | rnpA | Ribonuclease P protein component; 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. (120 aa) |
| | mnmE | tRNA modification GTPase trmE; 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. (453 aa) |
| | Sps_00029 | Helicase family protein; PFAM: Helicase conserved C-terminal domain; Helicase associated domain (HA2); DEAD/DEAH box helicase. (840 aa) |
