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| | 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 2 subfamily. (1041 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. (904 aa) |
| | AFG38520.1 | 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. (176 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) |
| | rpmJ | PFAM: Ribosomal protein L36; TIGRFAM: ribosomal protein L36, bacterial type; Belongs to the bacterial ribosomal protein bL36 family. (41 aa) |
| | AFG38593.1 | lysyl-tRNA synthetase (class II); PFAM: tRNA synthetases class II (D, K and N); Belongs to the class-II aminoacyl-tRNA synthetase family. (331 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) |
| | AFG38616.1 | PFAM: Putative RNA methylase family UPF0020. (349 aa) |
| | thrS | threonyl-tRNA synthetase; PFAM: Anticodon binding domain; Threonyl and Alanyl tRNA synthetase second additional domain; tRNA synthetase class II core domain (G, H, P, S and T); TIGRFAM: threonyl-tRNA synthetase; Belongs to the class-II aminoacyl-tRNA synthetase family. (605 aa) |
| | AFG38649.1 | PFAM: Helicase conserved C-terminal domain; ATP-dependent helicase C-terminal; Helicase associated domain (HA2); DEAD/DEAH box helicase; TIGRFAM: ATP-dependent helicase HrpB. (904 aa) |
| | AFG38658.1 | Dinucleotide-utilizing enzyme possibly involved in molybdopterin or thiamin biosynthesis; PFAM: ThiF family. (248 aa) |
| | leuS | PFAM: tRNA synthetases class I (I, L, M and V); Anticodon-binding domain; TIGRFAM: leucyl-tRNA synthetase, eubacterial and mitochondrial family; Belongs to the class-I aminoacyl-tRNA synthetase family. (821 aa) |
| | fusA-2 | Translation elongation factor 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. EF-G/EF- [...] (696 aa) |
| | pheT | PFAM: tRNA synthetase B5 domain; TIGRFAM: phenylalanyl-tRNA synthetase, beta subunit. (570 aa) |
| | pheS | phenylalanyl-tRNA synthetase, alpha subunit; PFAM: tRNA synthetases class II core domain (F); TIGRFAM: phenylalanyl-tRNA synthetase, alpha subunit; Belongs to the class-II aminoacyl-tRNA synthetase family. Phe-tRNA synthetase alpha subunit type 2 subfamily. (515 aa) |
| | AFG38697.1 | PFAM: Sigma-54 factor, Activator interacting domain (AID); Sigma-54 factor, core binding domain; Sigma-54, DNA binding domain; TIGRFAM: RNA polymerase sigma-54 factor. (456 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. (620 aa) |
| | rsmG | 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Specifically methylates the N7 position of a guanine in 16S rRNA; Belongs to the methyltransferase superfamily. RNA methyltransferase RsmG family. (221 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. (639 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. (459 aa) |
| | AFG38801.1 | RNA methyltransferase, RsmE family; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit. (257 aa) |
| | rpmB | PFAM: Ribosomal L28 family; TIGRFAM: ribosomal protein L28; Belongs to the bacterial ribosomal protein bL28 family. (80 aa) |
| | rpmG | PFAM: Ribosomal protein L33; TIGRFAM: ribosomal protein L33, bacterial type; Belongs to the bacterial ribosomal protein bL33 family. (57 aa) |
| | AFG38815.1 | PFAM: Biotin/lipoate A/B protein ligase family. (285 aa) |
| | proS | prolyl-tRNA synthetase, family I; 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). (479 aa) |
| | aspS-2 | aspartyl-tRNA synthetase, archaeal type; 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 2 subfamily. (431 aa) |
| | gatB | glutamyl-tRNA(Gln) and/or aspartyl-tRNA(Asn) 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. (481 aa) |
| | gatA | Amidase, Asp-tRNAAsn/Glu-tRNAGln 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). (493 aa) |
| | AFG38877.1 | glutamyl-tRNA(Gln) and/or aspartyl-tRNA(Asn) 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. (93 aa) |
| | AFG38882.1 | PFAM: Biotin/lipoate A/B protein ligase family; TIGRFAM: lipoyltransferase and lipoate-protein ligase. (333 aa) |
| | pth-2 | 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. (173 aa) |
| | AFG37614.1 | PFAM: Peptidase S26. (207 aa) |
| | AFG37604.1 | PFAM: Outer membrane protein (OmpH-like). (176 aa) |
| | nusA | Transcription termination factor NusA; Participates in both transcription termination and antitermination. (551 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. (909 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. (111 aa) |
| | truB | tRNA pseudouridine 55 synthase; 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. (309 aa) |
| | rpsO | Ribosomal protein S15; 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. (715 aa) |
| | tgt | tRNA-guanine transglycosylase, queuosine-34-forming; 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 [...] (375 aa) |
| | AFG37576.1 | PFAM: RNA pseudouridylate synthase; S4 domain; TIGRFAM: pseudouridine synthase; Belongs to the pseudouridine synthase RsuA family. (245 aa) |
| | AFG37574.1 | 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. (567 aa) |
| | rpoD | RNA polymerase sigma factor, sigma-70 family; 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. (590 aa) |
| | AFG37547.1 | tRNA nucleotidyltransferase/poly(A) polymerase; PFAM: Poly A polymerase head domain. (429 aa) |
| | AFG37539.1 | PFAM: Putative RNA methylase family UPF0020; THUMP domain; Belongs to the methyltransferase superfamily. (404 aa) |
| | fusA | Translation elongation factor 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. EF-G/EF- [...] (675 aa) |
| | AFG37536.1 | Small GTP-binding protein domain protein; PFAM: 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. (690 aa) |
| | trmB | tRNA (guanine-N(7)-)-methyltransferase; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. (222 aa) |
| | AFG37527.1 | PFAM: Sigma-70, region 4; Sigma-70 region 2; TIGRFAM: RNA polymerase sigma factor, sigma-70 family; manually curated; Belongs to the sigma-70 factor family. ECF subfamily. (160 aa) |
| | rpsU | PFAM: Ribosomal protein S21; TIGRFAM: ribosomal protein S21; Belongs to the bacterial ribosomal protein bS21 family. (72 aa) |
| | rnz | Ribonuclease Z; Zinc phosphodiesterase, which displays some tRNA 3'- processing endonuclease activity. Probably involved in tRNA maturation, by removing a 3'-trailer from precursor tRNA; Belongs to the RNase Z family. (312 aa) |
| | AFG37483.1 | Putative RNA-binding protein, snRNP like protein; PFAM: Domain of unknown function (DUF814); Fibronectin-binding protein A N-terminus (FbpA). (470 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. (764 aa) |
| | AFG37416.1 | Uncharacterized Fe-S protein; PFAM: Domain of unknown function (DUF1730); TIGRFAM: iron-sulfur cluster binding protein, putative. (374 aa) |
| | AFG37376.1 | Putative redox protein, regulator of disulfide bond formation; PFAM: SirA-like protein; Belongs to the sulfur carrier protein TusA family. (75 aa) |
| | AFG37370.1 | PFAM: Putative RNA methylase family UPF0020; THUMP domain; Belongs to the methyltransferase superfamily. (364 aa) |
| | AFG37369.1 | PFAM: tRNA (Uracil-5-)-methyltransferase; TIGRFAM: 23S rRNA (uracil-5-)-methyltransferase RumA; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. (420 aa) |
| | trmH | rRNA methylase; 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. (235 aa) |
| | AFG37363.1 | PFAM: Protein of unknown function (DUF752). (261 aa) |
| | AFG37356.1 | ClpP class periplasmic serine protease; PFAM: Peptidase family S49; TIGRFAM: signal peptide peptidase SppA, 36K type; signal peptide peptidase SppA, 67K type. (810 aa) |
| | AFG37325.1 | PFAM: TRAM domain; Radical SAM superfamily; Uncharacterized protein family UPF0004; TIGRFAM: radical SAM methylthiotransferase, MiaB/RimO family. (517 aa) |
| | AFG37303.1 | PFAM: Radical SAM superfamily; Uncharacterized protein family UPF0004; TIGRFAM: radical SAM methylthiotransferase, MiaB/RimO family. (491 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) |
| | trmD | tRNA (guanine-N1)-methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family. (234 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. (168 aa) |
| | rpsP | PFAM: Ribosomal protein S16; TIGRFAM: ribosomal protein S16; Belongs to the bacterial ribosomal protein bS16 family. (84 aa) |
| | AFG37282.1 | PFAM: Peptidase family S49; TIGRFAM: signal peptide peptidase SppA, 36K type. (549 aa) |
| | AFG37276.1 | tRNA-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. (319 aa) |
| | asnS | PFAM: tRNA synthetases class II (D, K and N); OB-fold nucleic acid binding domain; TIGRFAM: asparaginyl-tRNA synthetase. (462 aa) |
| | AFG37243.1 | PFAM: CRS1 / YhbY (CRM) domain; TIGRFAM: putative RNA-binding protein, YhbY family. (118 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. (324 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. (161 aa) |
| | truA | Pseudouridylate synthase I; Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs. (261 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. (318 aa) |
| | AFG37156.1 | PFAM: RNA polymerase Rpb6. (63 aa) |
| | prfB | Peptide chain release factor 2; Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA. (361 aa) |
| | AFG37120.1 | Hypothetical protein. (329 aa) |
| | AFG36927.1 | Hypothetical protein. (241 aa) |
| | AFG36922.1 | tRNA/rRNA cytosine-C5-methylase; PFAM: NOL1/NOP2/sun family; Belongs to the class I-like SAM-binding methyltransferase superfamily. RsmB/NOP family. (287 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. (174 aa) |
| | rpmI | PFAM: Ribosomal protein L35; TIGRFAM: ribosomal protein L35; Belongs to the bacterial ribosomal protein bL35 family. (65 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. (121 aa) |
| | AFG36893.1 | ATPase, YjeE family; PFAM: Uncharacterised P-loop hydrolase UPF0079; TIGRFAM: ATPase, YjeE family. (148 aa) |
| | AFG36892.1 | PFAM: Glycoprotease family; TIGRFAM: universal bacterial protein YeaZ. (227 aa) |
| | AFG36872.1 | PFAM: Peptidase S26; Peptidase S24-like; TIGRFAM: signal peptidase I, bacterial type; Belongs to the peptidase S26 family. (164 aa) |
| | AFG36823.1 | 16S RNA G1207 methylase RsmC; Specifically methylates the guanine in position 1835 (m2G1835) of 23S rRNA. (402 aa) |
| | AFG36771.1 | prolyl-tRNA synthetase, family II; 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). Belongs to the class-II aminoacyl-tRNA synthetase family. ProS type 1 subfamily. (565 aa) |
| | rpsI | PFAM: Ribosomal protein S9/S16; Belongs to the universal ribosomal protein uS9 family. (130 aa) |
| | rplM | Ribosomal protein L13, bacterial type; 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) |
| | AFG36715.1 | Putative metal-dependent membrane protease; PFAM: CAAX amino terminal protease family. (292 aa) |
| | AFG36700.1 | RNA polymerase sigma factor, sigma-70 family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (288 aa) |
| | rplQ | PFAM: Ribosomal protein L17; TIGRFAM: ribosomal protein L17. (177 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. (355 aa) |
| | rpsK | 30S ribosomal protein S11; Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine- Dalgarno cleft in the 70S ribosome; Belongs to the universal ribosomal protein uS11 family. (127 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. (121 aa) |
| | rplO | Ribosomal protein L15, bacterial/organelle; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family. (147 aa) |
| | rpmD | PFAM: Ribosomal protein L30p/L7e; TIGRFAM: ribosomal protein L30, bacterial/organelle; manually curated. (64 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. (162 aa) |
| | rplR | Ribosomal protein L18, bacterial type; 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. (119 aa) |
| | rplF | Ribosomal protein L6, bacterial type; 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. (185 aa) |
| | rplX | Ribosomal protein L24, bacterial/organelle; One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit. (104 aa) |
| | rplN | Ribosomal protein L14, bacterial/organelle; 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. (90 aa) |
| | rpmC | PFAM: Ribosomal L29 protein; TIGRFAM: ribosomal protein L29; Belongs to the universal ribosomal protein uL29 family. (73 aa) |
| | rplP | Ribosomal protein L16, bacterial/organelle; 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. (145 aa) |
| | rpsC | Ribosomal protein S3, bacterial type; 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. (234 aa) |
| | rplV | Ribosomal protein L22, bacterial type; 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. (120 aa) |
| | rpsS | Ribosomal protein S19, bacterial/organelle; Protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA. (93 aa) |
| | rplB | Ribosomal protein L2, bacterial/organellar; 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. (284 aa) |
| | rplW | Ribosomal protein L23; One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome; Belongs to the universal ribosomal protein uL23 family. (94 aa) |
| | rplD | 50S ribosomal protein L4, bacterial/organelle; Forms part of the polypeptide exit tunnel. (210 aa) |
| | rplC | 50S ribosomal protein L3, bacterial; 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. (207 aa) |
| | rpsJ | Ribosomal protein S10, bacterial/organelle; Involved in the binding of tRNA to the ribosomes. Belongs to the universal ribosomal protein uS10 family. (100 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. (397 aa) |
| | rpsG | Ribosomal protein S7, bacterial/organelle; 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, bacterial/organelle; 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, beta'' subunit, predominant form; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1418 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. (1166 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. (127 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. (178 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. (222 aa) |
| | rplK | 50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. (143 aa) |
| | nusG | Transcription termination/antitermination factor NusG; Participates in transcription elongation, termination and antitermination. (184 aa) |
| | lysS | PFAM: tRNA synthetases class I (K); TIGRFAM: lysyl-tRNA synthetase, archaeal and spirochete; Belongs to the class-I aminoacyl-tRNA synthetase family. (541 aa) |
| | AFG36548.1 | tRNA-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. (394 aa) |
| | mnmA | Putative tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase with PP-loop ATPase domain; Catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34. (464 aa) |
| | AFG36536.1 | Putative metal-dependent membrane protease; PFAM: CAAX amino terminal protease family. (303 aa) |
| | AFG36533.1 | Export-related chaperone CsaA; PFAM: Putative tRNA binding domain; TIGRFAM: export-related chaperone CsaA. (115 aa) |
| | AFG36446.1 | Putative ATPase of the PP-loop superfamily implicated in cell cycle control; PFAM: PP-loop family; manually curated; Belongs to the TtcA family. (261 aa) |
| | AFG36333.1 | PFAM: SpoU rRNA Methylase family. (268 aa) |
| | rsmI | Putative S-adenosylmethionine-dependent methyltransferase, YraL family; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA. (226 aa) |
| | AFG36320.1 | RRM domain-containing RNA-binding protein; PFAM: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain). (92 aa) |
| | rlmE | 23S rRNA methylase; 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. (200 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. (118 aa) |
| | rpmH | PFAM: Ribosomal protein L34; TIGRFAM: ribosomal protein L34, bacterial type; Belongs to the bacterial ribosomal protein bL34 family. (51 aa) |
| | AFG37615.1 | PFAM: Peptidase S24-like; TIGRFAM: signal peptidase I, bacterial type; Belongs to the peptidase S26 family. (325 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 [...] (149 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. (534 aa) |
| | guaA | GMP synthase (glutamine-hydrolyzing); Catalyzes the synthesis of GMP from XMP. (520 aa) |
| | nusB | Transcription antitermination factor NusB; 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. (136 aa) |
| | ybeY | Metalloprotein, YbeY/UPF0054 family; Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA. (153 aa) |
| | AFG37714.1 | Pseudouridine synthase, RluA family; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (350 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. (247 aa) |
| | rpmF | PFAM: Ribosomal L32p protein family; TIGRFAM: ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family. (61 aa) |
| | AFG37754.1 | Sua5/YciO/YrdC/YwlC family protein; Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. (320 aa) |
| | rpsD | Ribosomal protein S4, bacterial/organelle type; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit. (204 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. (537 aa) |
| | trpS | tryptophanyl-tRNA synthetase; Catalyzes the attachment of tryptophan to tRNA(Trp). Belongs to the class-I aminoacyl-tRNA synthetase family. (348 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. (312 aa) |
| | AFG37829.1 | Putative metal-dependent hydrolase related to alanyl-tRNA synthetase HxxxH domain protein; PFAM: Threonyl and Alanyl tRNA synthetase second additional domain; tRNA synthetases class II (A). (404 aa) |
| | serS | seryl-tRNA synthetase; Catalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L- seryl-tRNA(Sec), which will be further converted into selenocysteinyl- tRNA(Sec). (430 aa) |
| | 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. (356 aa) |
| | AFG37884.1 | Putative rRNA methylase SpoU family; Could methylate the ribose at the nucleotide 34 wobble position in tRNA; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. TrmL subfamily. (167 aa) |
| | AFG37915.1 | RNA polymerase sigma factor, sigma-70 family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (314 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. (602 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. (459 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. (197 aa) |
| | rplY | Ribosomal protein L25, Ctc-form; 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. (201 aa) |
| | rpmA | PFAM: Ribosomal L27 protein; TIGRFAM: ribosomal protein L27; Belongs to the bacterial ribosomal protein bL27 family. (84 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. (103 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. (586 aa) |
| | tsaD | Putative glycoprotease GCP; 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) |
| | AFG37955.1 | RNA polymerase sigma factor, sigma-70 family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (279 aa) |
| | AFG37971.1 | SAM-dependent methyltransferase, tRNA(uracil-5)-methyltransferase; PFAM: TRAM domain; tRNA (Uracil-5-)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. (388 aa) |
| | tyrS | tyrosyl-tRNA synthetase; Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two- step reaction: tyrosine is first activated by ATP to form Tyr-AMP and then transferred to the acceptor end of tRNA(Tyr); Belongs to the class-I aminoacyl-tRNA synthetase family. TyrS type 1 subfamily. (417 aa) |
| | glyQS | glycyl-tRNA synthetase, dimeric type; Catalyzes the attachment of glycine to tRNA(Gly). Belongs to the class-II aminoacyl-tRNA synthetase family. (448 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. (488 aa) |
| | AFG37987.1 | PFAM: Ribosomal protein L31; TIGRFAM: ribosomal protein L31; Belongs to the bacterial ribosomal protein bL31 family. (83 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. (593 aa) |
| | rpsT | Ribosomal protein S20; Binds directly to 16S ribosomal RNA. (89 aa) |
| | AFG38008.1 | rRNA methylase, putative, group 3; PFAM: SpoU rRNA Methylase family; RNA 2'-O ribose methyltransferase substrate binding; TIGRFAM: rRNA methylase, putative, group 3; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (247 aa) |
| | rpsB | PFAM: Ribosomal protein S2; TIGRFAM: ribosomal protein S2, bacterial type; Belongs to the universal ribosomal protein uS2 family. (320 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. (279 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. (182 aa) |
| | rplI | Ribosomal protein L9; Binds to the 23S rRNA. (204 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. (99 aa) |
| | rpsF | Ribosomal protein S6; Binds together with S18 to 16S ribosomal RNA. (93 aa) |
| | AFG38067.1 | PFAM: RNA pseudouridylate synthase; S4 domain; Belongs to the pseudouridine synthase RluA family. (399 aa) |
| | AFG38072.1 | PFAM: Poly A polymerase head domain; TIGRFAM: poly(A) polymerase; Belongs to the tRNA nucleotidyltransferase/poly(A) polymerase family. (387 aa) |
| | hisS | PFAM: Anticodon binding domain; tRNA synthetase class II core domain (G, H, P, S and T); TIGRFAM: histidyl-tRNA synthetase. (446 aa) |
| | AFG38076.1 | PFAM: Helicase conserved C-terminal domain; Helicase associated domain (HA2); DEAD/DEAH box helicase; Domain of unknown function (DUF1605); TIGRFAM: ATP-dependent helicase HrpA. (820 aa) |
| | AFG38089.1 | RNA methyltransferase, RsmE family; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit. (259 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. (557 aa) |
| | AFG38115.1 | tRNA-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. (324 aa) |
| | AFG38129.1 | 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. (262 aa) |
| | rsmH | S-adenosyl-methyltransferase MraW; Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA. (317 aa) |
| | AFG38174.1 | Hypothetical protein. (242 aa) |
| | AFG38214.1 | RRM domain-containing RNA-binding protein; PFAM: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain). (82 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. (288 aa) |
| | AFG38244.1 | Hypothetical protein. (394 aa) |
| | AFG38246.1 | PFAM: CAAX amino terminal protease family. (215 aa) |
| | AFG38255.1 | PFAM: Transcription termination factor nusG. (189 aa) |
| | AFG38264.1 | N6-adenine-specific methylase; PFAM: Conserved hypothetical protein 95; TIGRFAM: RNA methyltransferase, RsmD family. (211 aa) |
| | alaS | alanine--tRNA ligase; 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. (594 aa) |
| | AFG38341.1 | Putative sulfurtransferase; PFAM: Rhodanese-like domain. (292 aa) |
| | AFG38458.1 | TIGR00255 family protein; PFAM: YicC-like family, N-terminal region; Domain of unknown function (DUF1732); TIGRFAM: TIGR00255 family protein. (294 aa) |
| | rlmN | 23S rRNA m2A2503 methyltransferase; Specifically methylates position 2 of adenine 2503 in 23S rRNA and position 2 of adenine 37 in tRNAs; Belongs to the radical SAM superfamily. RlmN family. (359 aa) |
