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| | GM21_0006 | KEGG: gur:Gura_0006 hypothetical protein. (505 aa) |
| | GM21_0034 | KEGG: gbm:Gbem_0035 selenocysteine-specific translation elongation factor; TIGRFAM: selenocysteine-specific translation elongation factor; small GTP-binding protein; PFAM: protein synthesis factor GTP-binding; Elongation factor SelB winged helix 3; Elongation factor SelB winged helix 2; elongation factor Tu domain 2 protein. (636 aa) |
| | GM21_0080 | Dihydrouridine synthase DuS; 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. (341 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). (422 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. (482 aa) |
| | GM21_0142 | KEGG: gbm:Gbem_0159 ribonuclease, Rne/Rng family; TIGRFAM: ribonuclease, Rne/Rng family; PFAM: RNA binding S1 domain protein; SMART: RNA binding S1 domain protein. (496 aa) |
| | rplU | Ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family. (102 aa) |
| | rpmA | TIGRFAM: ribosomal protein L27; PFAM: ribosomal protein L27; KEGG: gbm:Gbem_0163 ribosomal protein L27; Belongs to the bacterial ribosomal protein bL27 family. (85 aa) |
| | GM21_0221 | PFAM: 3'-5' exonuclease; HRDC domain protein; SMART: 3'-5' exonuclease; HRDC domain protein; KEGG: gbm:Gbem_0237 3'-5' exonuclease. (377 aa) |
| | GM21_0224 | Protein of unknown function DUF558; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit. (246 aa) |
| | GM21_0229 | Ribonuclease Z; KEGG: gbm:Gbem_0245 ribonuclease Z. (351 aa) |
| | GM21_0234 | KEGG: gbm:Gbem_0250 hypothetical protein. (564 aa) |
| | GM21_0243 | KEGG: gbm:Gbem_0258 iron-sulfur cluster-binding protein. (275 aa) |
| | GM21_0302 | Hypothetical protein. (262 aa) |
| | GM21_0362 | TIGRFAM: hydrogenase maturation protease; PFAM: peptidase M52 hydrogen uptake protein; KEGG: gbm:Gbem_0380 hydrogenase maturation protease. (176 aa) |
| | GM21_0393 | PFAM: biotin/lipoate A/B protein ligase; KEGG: gbm:Gbem_0399 biotin/lipoate A/B protein ligase. (267 aa) |
| | lipA | Lipoic acid synthetase; Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives. (291 aa) |
| | GM21_0412 | KEGG: gbm:Gbem_0412 metal-dependent hydrolase of the beta-lactamase superfamily III-like protein. (361 aa) |
| | GM21_0413 | TIGRFAM: translation initiation factor SUI1; PFAM: translation initiation factor SUI1; KEGG: gbm:Gbem_0413 translation initiation factor SUI1. (122 aa) |
| | GM21_0414 | PFAM: RNA-binding S4 domain protein; KEGG: gbm:Gbem_0414 RNA-binding S4 domain protein. (65 aa) |
| | efp | Translation elongation factor 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) |
| | GM21_0494 | PFAM: putative RNA methylase; THUMP domain protein; KEGG: gbm:Gbem_0477 putative RNA methylase; Belongs to the methyltransferase superfamily. (376 aa) |
| | rsmH | S-adenosyl-methyltransferase MraW; Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA. (312 aa) |
| | GM21_0581 | PFAM: peptidase M48 Ste24p; KEGG: gbm:Gbem_0568 peptidase M48 Ste24p. (419 aa) |
| | GM21_0586 | 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. (285 aa) |
| | ttcA | PP-loop domain 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. (255 aa) |
| | rimO | MiaB-like tRNA modifying enzyme YliG; Catalyzes the methylthiolation of an aspartic acid residue of ribosomal protein S12; Belongs to the methylthiotransferase family. RimO subfamily. (448 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. (172 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. (318 aa) |
| | glyQ | KEGG: gbm:Gbem_0641 glycyl-tRNA synthetase, alpha subunit; TIGRFAM: glycyl-tRNA synthetase, alpha subunit; PFAM: glycyl-tRNA synthetase alpha subunit. (292 aa) |
| | glyS | KEGG: gbm:Gbem_0642 glycyl-tRNA synthetase, beta subunit; TIGRFAM: glycyl-tRNA synthetase, beta subunit. (687 aa) |
| | GM21_0701 | PFAM: ABC transporter related; SMART: AAA ATPase; KEGG: gbm:Gbem_0690 ABC transporter related protein. (648 aa) |
| | rne | Ribonuclease, Rne/Rng family; 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. (919 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. (204 aa) |
| | leuS | TIGRFAM: leucyl-tRNA synthetase; KEGG: gbm:Gbem_0751 leucyl-tRNA synthetase; Belongs to the class-I aminoacyl-tRNA synthetase family. (824 aa) |
| | rpsT | Ribosomal protein S20; Binds directly to 16S ribosomal RNA. (87 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. (441 aa) |
| | GM21_0887 | PFAM: putative rRNA methylase; Methyltransferase type 12; KEGG: gbm:Gbem_3358 putative rRNA methylase. (195 aa) |
| | queH | Protein of unknown function DUF208; 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). (176 aa) |
| | tgt | Queuine tRNA-ribosyltransferase; Catalyzes the base-exchange of a guanine (G) residue with the queuine precursor 7-aminomethyl-7-deazaguanine (PreQ1) at position 34 (anticodon wobble position) in tRNAs with GU(N) anticodons (tRNA-Asp, - Asn, -His and -Tyr). Catalysis occurs through a double-displacement mechanism. The nucleophile active site attacks the C1' of nucleotide 34 to detach the guanine base from the RNA, forming a covalent enzyme-RNA intermediate. The proton acceptor active site deprotonates the incoming PreQ1, allowing a nucleophilic attack on the C1' of the ribose to form t [...] (368 aa) |
| | trmL | tRNA/rRNA methyltransferase (SpoU); 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. (158 aa) |
| | GM21_0928 | PFAM: ABC transporter related; SMART: AAA ATPase; KEGG: gbm:Gbem_3318 ABC transporter related protein. (633 aa) |
| | GM21_0945 | PFAM: ABC transporter related; SMART: AAA ATPase; KEGG: gbm:Gbem_3303 ABC transporter related protein. (544 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. (355 aa) |
| | GM21_0995 | 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. (584 aa) |
| | fusA | Translation elongation factor G; Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post-translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 s [...] (703 aa) |
| | GM21_1049 | PFAM: YicC domain protein; domain of unknown function DUF1732; KEGG: gbm:Gbem_3214 domain of unknown function DUF1732. (292 aa) |
| | rpoZ | DNA-directed RNA polymerase, omega subunit; 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. (68 aa) |
| | rpmB | TIGRFAM: ribosomal protein L28; PFAM: ribosomal protein L28; KEGG: gbm:Gbem_3209 ribosomal protein L28; Belongs to the bacterial ribosomal protein bL28 family. (63 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. (509 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. (232 aa) |
| | GM21_1061 | PFAM: Radical SAM domain protein; SMART: Elongator protein 3/MiaB/NifB; KEGG: gbm:Gbem_3202 radical SAM domain protein. (343 aa) |
| | GM21_1117 | KEGG: gbm:Gbem_3144 hypothetical protein. (100 aa) |
| | hypA | Hydrogenase nickel insertion protein HypA; Involved in the maturation of [NiFe] hydrogenases. Required for nickel insertion into the metal center of the hydrogenase. (110 aa) |
| | GM21_1127 | TIGRFAM: hydrogenase maturation protease; PFAM: peptidase M52 hydrogen uptake protein; KEGG: gbm:Gbem_3135 hydrogenase maturation protease. (159 aa) |
| | GM21_1129 | TIGRFAM: hydrogenase accessory protein HypB; PFAM: cobalamin synthesis protein P47K; KEGG: gbm:Gbem_3133 hydrogenase accessory protein HypB. (273 aa) |
| | GM21_1131 | TIGRFAM: hydrogenase assembly chaperone hypC/hupF; PFAM: hydrogenase expression/formation protein (HUPF/HYPC); KEGG: gbm:Gbem_3131 hydrogenase assembly chaperone HypC/HupF. (76 aa) |
| | GM21_1132 | TIGRFAM: hydrogenase expression/formation protein HypD; PFAM: hydrogenase formation HypD protein; KEGG: gbm:Gbem_3130 hydrogenase expression/formation protein HypD; Belongs to the HypD family. (363 aa) |
| | GM21_1133 | TIGRFAM: hydrogenase expression/formation protein HypE; PFAM: AIR synthase related protein; AIR synthase related protein domain protein; KEGG: gbm:Gbem_3129 hydrogenase expression/formation protein HypE. (336 aa) |
| | GM21_1145 | KEGG: gbm:Gbem_3117 hypothetical protein. (716 aa) |
| | rpmF | TIGRFAM: ribosomal protein L32; PFAM: ribosomal L32p protein; KEGG: gbm:Gbem_3110 ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family. (60 aa) |
| | hisS | KEGG: gbm:Gbem_3096 histidyl-tRNA synthetase; TIGRFAM: histidyl-tRNA synthetase; PFAM: tRNA synthetase class II (G H P and S); Anticodon-binding domain protein. (416 aa) |
| | GM21_1172 | PFAM: pseudouridine synthase; RNA-binding S4 domain protein; SMART: RNA-binding S4 domain protein; KEGG: gbm:Gbem_3089 pseudouridine synthase; Belongs to the pseudouridine synthase RsuA family. (266 aa) |
| | GM21_1180 | KEGG: gbm:Gbem_3081 ATP-dependent helicase HrpB; TIGRFAM: ATP-dependent helicase HrpB; PFAM: Helicase ATP-dependent domain protein; helicase-associated domain protein; helicase domain protein; SMART: DEAD-like helicase; helicase domain protein. (828 aa) |
| | gluQ | glutamyl-tRNA synthetase class Ic; 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. (310 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. (145 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 [...] (157 aa) |
| | GM21_1301 | GTP-binding protein HSR1-related protein; Required for a late step of 50S ribosomal subunit assembly. Has GTPase activity; Belongs to the TRAFAC class YlqF/YawG GTPase family. MTG1 subfamily. (299 aa) |
| | aspS | aspartyl-tRNA synthetase; Aspartyl-tRNA synthetase with relaxed tRNA specificity since it is able to aspartylate not only its cognate tRNA(Asp) but also tRNA(Asn). Reaction proceeds in two steps: L-aspartate is first activated by ATP to form Asp-AMP and then transferred to the acceptor end of tRNA(Asp/Asn); Belongs to the class-II aminoacyl-tRNA synthetase family. Type 1 subfamily. (593 aa) |
| | GM21_1331 | PFAM: Polynucleotide adenylyltransferase region; metal-dependent phosphohydrolase HD sub domain; KEGG: gbm:Gbem_2894 polynucleotide adenylyltransferase/metal dependent phosphohydrolase; Belongs to the tRNA nucleotidyltransferase/poly(A) polymerase family. (416 aa) |
| | GM21_1332 | TIGRFAM: RNA methyltransferase, TrmA family; PFAM: (Uracil-5)-methyltransferase; KEGG: gbm:Gbem_2893 RNA methyltransferase, TrmA family; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. (447 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 [...] (573 aa) |
| | GM21_1336 | TIGRFAM: RNA methyltransferase, TrmH family, group 3; PFAM: tRNA/rRNA methyltransferase (SpoU); RNA 2-O ribose methyltransferase substrate binding; KEGG: gbm:Gbem_2889 RNA methyltransferase, TrmH family, group 3; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (249 aa) |
| | rtcA | RNA 3'-phosphate cyclase; Catalyzes the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. The mechanism of action of the enzyme occurs in 3 steps: (A) adenylation of the enzyme by ATP; (B) transfer of adenylate to an RNA-N3'P to produce RNA-N3'PP5'A; (C) and attack of the adjacent 2'-hydroxyl on the 3'-phosphorus in the diester linkage to produce the cyclic end product. The biological role of this enzyme is unknown but it is likely to function in some aspects of cellular RNA processing. (350 aa) |
| | GM21_1401 | TIGRFAM: ybaK/ebsC protein; PFAM: YbaK/prolyl-tRNA synthetase associated region; KEGG: gbm:Gbem_2809 YbaK/EbsC protein; Belongs to the prolyl-tRNA editing family. YbaK/EbsC subfamily. (160 aa) |
| | GM21_1403 | TIM-barrel protein, nifR3 family; 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. (321 aa) |
| | trmB | tRNA (guanine-N(7)-)-methyltransferase; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. (207 aa) |
| | truD | tRNA pseudouridine synthase D TruD; Responsible for synthesis of pseudouridine from uracil-13 in transfer RNAs; Belongs to the pseudouridine synthase TruD family. (398 aa) |
| | rplY | Ribosomal 5S rRNA E-loop binding protein Ctc/L25/TL5; 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. CTC subfamily. (197 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. (188 aa) |
| | rpsF | Ribosomal protein S6; Binds together with S18 to 16S ribosomal RNA. (134 aa) |
| | rpsR | 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. (92 aa) |
| | rplI | Ribosomal protein L9; Binds to the 23S rRNA. (147 aa) |
| | rpsB | TIGRFAM: ribosomal protein S2; PFAM: ribosomal protein S2; KEGG: gbm:Gbem_2756 ribosomal protein S2; Belongs to the universal ribosomal protein uS2 family. (255 aa) |
| | tsf | Translation elongation factor Ts; Associates with the EF-Tu.GDP complex and induces the exchange of GDP to GTP. It remains bound to the aminoacyl-tRNA.EF- Tu.GTP complex up to the GTP hydrolysis stage on the ribosome. Belongs to the EF-Ts family. (216 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) |
| | GM21_1493 | PFAM: peptidase M22 glycoprotease; KEGG: gbm:Gbem_2748 peptidase M22 glycoprotease. (230 aa) |
| | trmFO | Gid protein; Catalyzes the folate-dependent formation of 5-methyl-uridine at position 54 (M-5-U54) in all tRNAs; Belongs to the MnmG family. TrmFO subfamily. (435 aa) |
| | GM21_1536 | PFAM: ABC transporter related; SMC domain protein; SMART: AAA ATPase; KEGG: gbm:Gbem_2704 ABC transporter related protein. (540 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. (245 aa) |
| | GM21_1557 | RNA polymerase, sigma 70 subunit, RpoD subfamily; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (333 aa) |
| | GM21_1580 | Hemolysin A; KEGG: gbm:Gbem_2654 hemolysin A; TIGRFAM: hemolysin A; PFAM: RNA-binding S4 domain protein; ribosomal RNA methyltransferase RrmJ/FtsJ; SMART: RNA-binding S4 domain protein. (257 aa) |
| | GM21_1584 | KEGG: gbm:Gbem_2650 putative anti-sigma regulatory factor, serine/threonine protein kinase. (141 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. (457 aa) |
| | GM21_1677 | KEGG: gbm:Gbem_2554 hypothetical protein. (1131 aa) |
| | GM21_1749 | KEGG: gbm:Gbem_2468 putative anti-sigma regulatory factor, serine/threonine protein kinase. (147 aa) |
| | tgt-2 | Queuine tRNA-ribosyltransferase; Catalyzes the base-exchange of a guanine (G) residue with the queuine precursor 7-aminomethyl-7-deazaguanine (PreQ1) at position 34 (anticodon wobble position) in tRNAs with GU(N) anticodons (tRNA-Asp, - Asn, -His and -Tyr). Catalysis occurs through a double-displacement mechanism. The nucleophile active site attacks the C1' of nucleotide 34 to detach the guanine base from the RNA, forming a covalent enzyme-RNA intermediate. The proton acceptor active site deprotonates the incoming PreQ1, allowing a nucleophilic attack on the C1' of the ribose to form t [...] (372 aa) |
| | GM21_1818 | TIGRFAM: ribosomal-protein-alanine acetyltransferase; PFAM: GCN5-related N-acetyltransferase; KEGG: gbm:Gbem_2401 ribosomal-protein-alanine acetyltransferase. (161 aa) |
| | GM21_1828 | PFAM: Radical SAM domain protein; KEGG: gbm:Gbem_2391 radical SAM domain protein. (445 aa) |
| | GM21_1905 | TIGRFAM: translation elongation factor G; small GTP-binding protein; PFAM: protein synthesis factor GTP-binding; elongation factor G domain protein; elongation factor Tu domain 2 protein; elongation factor G domain IV; KEGG: gbm:Gbem_2318 translation elongation factor G. (701 aa) |
| | GM21_1925 | KEGG: gbm:Gbem_2298 tryptophanyl-tRNA synthetase; TIGRFAM: tryptophanyl-tRNA synthetase; PFAM: aminoacyl-tRNA synthetase class Ib. (327 aa) |
| | GM21_1929 | PFAM: CBS domain containing protein; Polynucleotide adenylyltransferase region; phosphoesterase DHHA1; phosphoesterase RecJ domain protein; SMART: CBS domain containing protein; KEGG: gbm:Gbem_2294 CBS domain containing protein; Belongs to the tRNA nucleotidyltransferase/poly(A) polymerase family. (875 aa) |
| | tsaD | Metalloendopeptidase, glycoprotease family; 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. (342 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. (275 aa) |
| | argS | KEGG: gbm:Gbem_2283 arginyl-tRNA synthetase; TIGRFAM: arginyl-tRNA synthetase. (554 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); Belongs to the class-I aminoacyl-tRNA synthetase family. Glutamate--tRNA ligase type 1 subfamily. (467 aa) |
| | GM21_2029 | PFAM: UBA/THIF-type NAD/FAD binding protein; KEGG: gbm:Gbem_2198 UBA/ThiF-type NAD/FAD binding protein. (258 aa) |
| | GM21_2125 | PFAM: outer membrane chaperone Skp (OmpH); KEGG: gbm:Gbem_2093 outer membrane chaperone Skp (OmpH). (223 aa) |
| | GM21_2158 | KEGG: gbm:Gbem_2058 RNA methyltransferase, TrmA family; TIGRFAM: RNA methyltransferase, TrmA family; PFAM: (Uracil-5)-methyltransferase; deoxyribonuclease/rho motif-related TRAM; methyltransferase small; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. (438 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) |
| | efp-2 | Translation elongation factor 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) |
| | GM21_2162 | PFAM: tRNA synthetase class II (D K and N); KEGG: gbm:Gbem_2054 tRNA synthetase class II (D K and N). (305 aa) |
| | GM21_2179 | PFAM: Class I peptide chain release factor; KEGG: gbm:Gbem_2037 class I peptide chain release factor. (105 aa) |
| | pheT | TIGRFAM: phenylalanyl-tRNA synthetase, beta subunit; KEGG: gbm:Gbem_1995 phenylalanyl-tRNA synthetase, beta subunit. (801 aa) |
| | pheS | KEGG: gbm:Gbem_1994 phenylalanyl-tRNA synthetase, alpha subunit; TIGRFAM: phenylalanyl-tRNA synthetase, alpha subunit; PFAM: phenylalanyl-tRNA synthetase class IIc; aminoacyl tRNA synthetase class II domain protein; Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 1 subfamily. (338 aa) |
| | rplT | 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. (117 aa) |
| | rpmI | TIGRFAM: ribosomal protein L35; PFAM: ribosomal protein L35; KEGG: gbm:Gbem_1992 ribosomal protein L35; Belongs to the bacterial ribosomal protein bL35 family. (65 aa) |
| | infC | Translation initiation factor IF-3; IF-3 binds to the 30S ribosomal subunit and shifts the equilibrum between 70S ribosomes and their 50S and 30S subunits in favor of the free subunits, thus enhancing the availability of 30S subunits on which protein synthesis initiation begins. (173 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). (636 aa) |
| | GM21_2243 | KEGG: gbm:Gbem_1977 hypothetical protein; Belongs to the sulfur carrier protein TusA family. (74 aa) |
| | mnmA-2 | 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. (359 aa) |
| | GM21_2315 | PFAM: protein of unknown function UPF0044; KEGG: gbm:Gbem_1894 protein of unknown function UPF0044. (100 aa) |
| | GM21_2317 | TIGRFAM: methyltransferase; PFAM: Protein of unknown function methylase putative; putative RNA methylase; KEGG: gbm:Gbem_1892 methyltransferase. (193 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. (599 aa) |
| | GM21_2328 | KEGG: gbm:Gbem_1882 signal peptidase I; TIGRFAM: signal peptidase I; PFAM: peptidase S24 and S26 domain protein; Belongs to the peptidase S26 family. (225 aa) |
| | GM21_2356 | KEGG: cak:Caul_5335 conjugal transfer protein TraF. (175 aa) |
| | GM21_2372 | RNA polymerase, sigma-24 subunit, ECF subfamily; TIGRFAM: RNA polymerase sigma factor, sigma-70 family; PFAM: Sigma-70 region 4 type 2; KEGG: glo:Glov_2342 hypothetical protein. (293 aa) |
| | GM21_2391 | RNA polymerase, sigma 70 subunit, RpoD subfamily; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (325 aa) |
| | GM21_2463 | PFAM: formyl transferase domain protein; KEGG: gbm:Gbem_1784 formyl transferase domain protein. (290 aa) |
| | GM21_2482 | TIGRFAM: CAAX prenyl protease-related protein; PFAM: Abortive infection protein; KEGG: gbm:Gbem_1765 CAAX prenyl protease-related protein. (237 aa) |
| | GM21_2530 | PFAM: Methyltransferase type 11; Methyltransferase type 12; KEGG: gbm:Gbem_1691 methyltransferase type 11. (262 aa) |
| | rlmN | Radical SAM enzyme, Cfr family; 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. (351 aa) |
| | miaA | tRNA delta(2)-isopentenylpyrophosphate transferase; Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A); Belongs to the IPP transferase family. (306 aa) |
| | GM21_2570 | KEGG: gbm:Gbem_1643 MiaB-like tRNA modifying enzyme; TIGRFAM: MiaB-like tRNA modifying enzyme; RNA modification enzyme, MiaB family; PFAM: Protein of unknown function UPF0004; Radical SAM domain protein; SMART: Elongator protein 3/MiaB/NifB. (429 aa) |
| | GM21_2599 | PFAM: formyl transferase domain protein; KEGG: bcs:BCAN_A0529 bifunctional polymyxin resistance ArnA protein. (242 aa) |
| | GM21_2641 | Formate dehydrogenase accessory protein; Necessary for formate dehydrogenase activity. Belongs to the FdhE family. (280 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. (888 aa) |
| | GM21_2691 | TIGRFAM: tRNA 2-selenouridine synthase; SMART: Rhodanese domain protein; KEGG: gbm:Gbem_1525 tRNA 2-selenouridine synthase; Belongs to the SelU family. (346 aa) |
| | GM21_2879 | KEGG: gbm:Gbem_1404 hypothetical protein. (287 aa) |
| | cmoA | Methyltransferase; Catalyzes the conversion of S-adenosyl-L-methionine (SAM) to carboxy-S-adenosyl-L-methionine (Cx-SAM). (244 aa) |
| | cmoB | 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. (323 aa) |
| | GM21_2900 | KEGG: gur:Gura_2940 hypothetical protein. (178 aa) |
| | GM21_2953 | PFAM: pseudouridine synthase; KEGG: gbm:Gbem_1330 pseudouridine synthase. (293 aa) |
| | GM21_2968 | TIGRFAM: Sua5/YciO/YrdC/YwlC family protein; PFAM: SUA5/yciO/yrdC domain; KEGG: gbm:Gbem_1315 SUA5/YciO/YrdC/YwlC family protein; Belongs to the SUA5 family. (202 aa) |
| | pnp | Polyribonucleotide nucleotidyltransferase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (696 aa) |
| | rpsO | 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. (88 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. (295 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. (119 aa) |
| | infB | Translation initiation factor IF-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. (980 aa) |
| | nusA | NusA antitermination factor; Participates in both transcription termination and antitermination. (382 aa) |
| | GM21_3020 | PFAM: protein of unknown function UPF0079; KEGG: gbm:Gbem_1263 protein of unknown function UPF0079. (153 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. (239 aa) |
| | prfB | Conserved hypothetical protein; Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA. (371 aa) |
| | ybeY | Protein of unknown function UPF0054; Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA. (132 aa) |
| | GM21_3265 | TIGRFAM: pseudouridine synthase, RluA family; PFAM: pseudouridine synthase; RNA-binding S4 domain protein; KEGG: gbm:Gbem_0995 pseudouridine synthase, RluA family; Belongs to the pseudouridine synthase RluA family. (302 aa) |
| | GM21_3269 | PFAM: RNA binding S1 domain protein; SMART: RNA binding S1 domain protein; KEGG: gbm:Gbem_0991 RNA binding S1 domain protein. (400 aa) |
| | rtcB | PFAM: protein of unknown function UPF0027; KEGG: gbm:Gbem_0989 protein of unknown function UPF0027; Belongs to the RtcB family. (486 aa) |
| | GM21_3272 | PFAM: protein of unknown function DUF101; KEGG: gbm:Gbem_0988 protein of unknown function DUF101. (143 aa) |
| | miaA-2 | tRNA delta(2)-isopentenylpyrophosphate transferase; Catalyzes the transfer of a dimethylallyl group onto the adenine at position 37 in tRNAs that read codons beginning with uridine, leading to the formation of N6-(dimethylallyl)adenosine (i(6)A); Belongs to the IPP transferase family. (306 aa) |
| | GM21_3284 | PFAM: protein of unknown function UPF0047; KEGG: gbm:Gbem_0976 protein of unknown function UPF0047. (138 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. (403 aa) |
| | rplQ | TIGRFAM: ribosomal protein L17; PFAM: ribosomal protein L17; KEGG: gbm:Gbem_0961 ribosomal protein L17. (168 aa) |
| | rpoA | DNA-directed RNA polymerase, alpha subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (339 aa) |
| | rpsD | 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. (208 aa) |
| | rpsK | 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. (131 aa) |
| | rpsM | 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. (122 aa) |
| | rpmJ | TIGRFAM: ribosomal protein L36; PFAM: ribosomal protein L36; KEGG: gbm:Gbem_0956 ribosomal protein L36; Belongs to the bacterial ribosomal protein bL36 family. (37 aa) |
| | rplO | Ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (146 aa) |
| | rpmD | TIGRFAM: ribosomal protein L30; PFAM: ribosomal protein L30; KEGG: gbm:Gbem_0951 ribosomal protein L30. (59 aa) |
| | rpsE | Ribosomal protein S5; 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. (162 aa) |
| | rplR | 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. (122 aa) |
| | rplF | 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. (179 aa) |
| | rpsH | 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. (132 aa) |
| | rpsZ | 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. (61 aa) |
| | rplE | 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 | 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. (108 aa) |
| | rplN | 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. (122 aa) |
| | rpsQ | Ribosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (85 aa) |
| | rpmC | TIGRFAM: ribosomal protein L29; PFAM: ribosomal protein L29; KEGG: gbm:Gbem_0941 ribosomal protein L29; Belongs to the universal ribosomal protein uL29 family. (62 aa) |
| | rplP | 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. (140 aa) |
| | rpsC | 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. (211 aa) |
| | rplV | 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). (111 aa) |
| | rpsS | Ribosomal protein S19; Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA. (93 aa) |
| | rplB | 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 | Ribosomal protein L25/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. (94 aa) |
| | rplD | Ribosomal protein L4/L1e; 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. (207 aa) |
| | rplC | 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; Belongs to the universal ribosomal protein uL3 family. (211 aa) |
| | rpsJ | Ribosomal protein S10; Involved in the binding of tRNA to the ribosomes. Belongs to the universal ribosomal protein uS10 family. (102 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. (396 aa) |
| | fusA-2 | Translation elongation factor G; Catalyzes the GTP-dependent ribosomal translocation step during translation elongation. During this step, the ribosome changes from the pre-translocational (PRE) to the post-translocational (POST) state as the newly formed A-site-bound peptidyl-tRNA and P-site-bound deacylated tRNA move to the P and E sites, respectively. Catalyzes the coordinated movement of the two tRNA molecules, the mRNA and conformational changes in the ribosome; Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. EF-G/EF-2 s [...] (692 aa) |
| | rpsG | 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) |
| | rpsL | Ribosomal protein S12; With S4 and S5 plays an important role in translational accuracy. (123 aa) |
| | rpoC | DNA-directed RNA polymerase, beta' subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1382 aa) |
| | rpoB | DNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1371 aa) |
| | rplL | 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. (126 aa) |
| | rplJ | 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. (173 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 | Ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. (140 aa) |
| | nusG | NusG antitermination factor; Participates in transcription elongation, termination and antitermination. (175 aa) |
| | rpmG | TIGRFAM: ribosomal protein L33; PFAM: ribosomal protein L33; KEGG: gbm:Gbem_0919 ribosomal protein L33; Belongs to the bacterial ribosomal protein bL33 family. (50 aa) |
| | GM21_3343 | TIGRFAM: translation elongation factor Tu; small GTP-binding protein; PFAM: protein synthesis factor GTP-binding; elongation factor Tu domain protein; elongation factor Tu domain 2 protein; KEGG: gbm:Gbem_0918 translation elongation factor Tu. (396 aa) |
| | rpsI | PFAM: ribosomal protein S9; KEGG: gbm:Gbem_0913 ribosomal protein S9; Belongs to the universal ribosomal protein uS9 family. (129 aa) |
| | rplM | 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) |
| | truA | tRNA pseudouridine synthase A; Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs. (247 aa) |
| | asnS | TIGRFAM: asparaginyl-tRNA synthetase; PFAM: tRNA synthetase class II (D K and N); nucleic acid binding OB-fold tRNA/helicase-type; KEGG: gbm:Gbem_0882 asparaginyl-tRNA synthetase. (461 aa) |
| | GM21_3390 | RNA polymerase, sigma 54 subunit, RpoN; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (515 aa) |
| | GM21_3396 | KEGG: gbm:Gbem_0862 hypothetical protein. (317 aa) |
| | GM21_3420 | PFAM: outer membrane chaperone Skp (OmpH); KEGG: gbm:Gbem_0840 outer membrane chaperone Skp (OmpH). (171 aa) |
| | lysS | TIGRFAM: lysyl-tRNA synthetase; PFAM: tRNA synthetase class II (D K and N); tRNA synthetase class II (G H P and S); nucleic acid binding OB-fold tRNA/helicase-type; KEGG: gbm:Gbem_0836 lysyl-tRNA synthetase; Belongs to the class-II aminoacyl-tRNA synthetase family. (492 aa) |
| | GM21_3426 | PFAM: ABC transporter related; SMART: AAA ATPase; KEGG: gbm:Gbem_0834 ABC transporter related protein. (561 aa) |
| | GM21_3459 | Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (319 aa) |
| | rsmI | Uroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA. (276 aa) |
| | rplS | Ribosomal protein L19; This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site. (118 aa) |
| | GM21_3489 | KEGG: gbm:Gbem_3427 uncharacterized protein-like protein. (189 aa) |
| | trmD | tRNA (guanine-N1)-methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family. (249 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. (172 aa) |
| | rpsP | TIGRFAM: ribosomal protein S16; PFAM: ribosomal protein S16; KEGG: gbm:Gbem_3431 ribosomal protein S16; Belongs to the bacterial ribosomal protein bS16 family. (88 aa) |
| | GM21_3495 | PFAM: SirA family protein; KEGG: gbm:Gbem_3433 SirA family protein; Belongs to the sulfur carrier protein TusA family. (195 aa) |
| | GM21_3623 | TIGRFAM: pseudouridine synthase, RluA family; PFAM: pseudouridine synthase; RNA-binding S4 domain protein; KEGG: gbm:Gbem_3557 pseudouridine synthase, RluA family; Belongs to the pseudouridine synthase RluA family. (297 aa) |
| | tadA | CMP/dCMP deaminase zinc-binding protein; Catalyzes the deamination of adenosine to inosine at the wobble position 34 of tRNA(Arg2); Belongs to the cytidine and deoxycytidylate deaminase family. (166 aa) |
| | GM21_3697 | Hypothetical protein; KEGG: spc:Sputcn32_0166 putative integrase protein. (526 aa) |
| | GM21_3731 | PFAM: protein of unknown function DUF111; KEGG: gbm:Gbem_3626 protein of unknown function DUF111; Belongs to the LarC family. (385 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. (875 aa) |
| | gatC | glutamyl-tRNA(Gln) amidotransferase, C subunit; Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl- tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp- tRNA(Asn) or phospho-Glu-tRNA(Gln); Belongs to the GatC family. (95 aa) |
| | gatA | glutamyl-tRNA(Gln) amidotransferase, A subunit; Allows the formation of correctly charged Gln-tRNA(Gln) through the transamidation of misacylated Glu-tRNA(Gln) in organisms which lack glutaminyl-tRNA synthetase. The reaction takes place in the presence of glutamine and ATP through an activated gamma-phospho-Glu- tRNA(Gln). (485 aa) |
| | gatB | glutamyl-tRNA(Gln) amidotransferase, B subunit; Allows the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl- tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp- tRNA(Asn) or phospho-Glu-tRNA(Gln); Belongs to the GatB/GatE family. GatB subfamily. (479 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. (925 aa) |
| | rpoD | RNA polymerase, sigma 70 subunit, RpoD subfamily; 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. (584 aa) |
| | rpsU | TIGRFAM: ribosomal protein S21; PFAM: ribosomal protein S21; KEGG: gbm:Gbem_3698 ribosomal protein S21; Belongs to the bacterial ribosomal protein bS21 family. (65 aa) |
| | prfA | Peptide chain release factor 1; Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA. (359 aa) |
| | rpmE | Ribosomal protein L31; Binds the 23S rRNA. (72 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. (415 aa) |
| | GM21_3809 | PFAM: Class I peptide chain release factor; KEGG: gbm:Gbem_3714 class I peptide chain release factor. (132 aa) |
| | GM21_3848 | TIGRFAM: RNA polymerase sigma factor, FliA/WhiG family; RNA polymerase sigma factor, sigma-70 family; PFAM: sigma-70 region 4 domain protein; sigma-70 region 2 domain protein; Sigma-70 region 4 type 2; KEGG: gbm:Gbem_3764 RNA polymerase, sigma 28 subunit, FliA/WhiG. (250 aa) |
| | rlmH | Protein of unknown function DUF163; Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA; Belongs to the RNA methyltransferase RlmH family. (154 aa) |
| | selA | L-seryl-tRNA selenium transferase; Converts seryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec) required for selenoprotein biosynthesis. (468 aa) |
| | glnS | TIGRFAM: glutaminyl-tRNA synthetase; PFAM: glutamyl-tRNA synthetase class Ic; KEGG: gbm:Gbem_3799 glutaminyl-tRNA synthetase. (565 aa) |
| | cysS | KEGG: gbm:Gbem_3800 cysteinyl-tRNA synthetase; TIGRFAM: cysteinyl-tRNA synthetase; PFAM: Cysteinyl-tRNA synthetase class Ia; Cysteinyl-tRNA synthetase class Ia DALR; tRNA synthetase class I (M); Belongs to the class-I aminoacyl-tRNA synthetase family. (480 aa) |
| | prfC | Peptide chain release factor 3; Increases the formation of ribosomal termination complexes and stimulates activities of RF-1 and RF-2. It binds guanine nucleotides and has strong preference for UGA stop codons. It may interact directly with the ribosome. The stimulation of RF-1 and RF-2 is significantly reduced by GTP and GDP, but not by GMP. Belongs to the TRAFAC class translation factor GTPase superfamily. Classic translation factor GTPase family. PrfC subfamily. (526 aa) |
| | GM21_4045 | PFAM: RNP-1 like RNA-binding protein; SMART: RNP-1 like RNA-binding protein; KEGG: gbm:Gbem_3960 RNP-1 like RNA-binding protein. (196 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. (168 aa) |
| | rnj | Beta-lactamase domain protein; An RNase that has 5'-3' exonuclease and possibly endonuclease activity. Involved in maturation of rRNA and in some organisms also mRNA maturation and/or decay. (558 aa) |
| | GM21_4137 | PFAM: Radical SAM domain protein; KEGG: gbm:Gbem_4047 radical SAM domain protein. (430 aa) |
| | rsmG | Methyltransferase GidB; Specifically methylates the N7 position of guanine in position 527 of 16S rRNA. (217 aa) |
| | mnmG | Glucose inhibited division protein A; NAD-binding protein involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA-cmnm(5)s(2)U34; Belongs to the MnmG family. (624 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. (455 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. (116 aa) |
| | rpmH | TIGRFAM: ribosomal protein L34; PFAM: ribosomal protein L34; KEGG: gbm:Gbem_4061 ribosomal protein L34; Belongs to the bacterial ribosomal protein bL34 family. (49 aa) |
