Your Input: | |
| | cmoA | Putative methyltransferase; Catalyzes the conversion of S-adenosyl-L-methionine (SAM) to carboxy-S-adenosyl-L-methionine (Cx-SAM). (243 aa) |
| | glyS | Glycine--tRNA ligase; KEGG: shm:Shewmr7_0008 glycyl-tRNA synthetase, beta subunit. (689 aa) |
| | glyQ | Glycine--tRNA ligase; PFAM: glycyl-tRNA synthetase, alpha subunit; KEGG: shm:Shewmr7_0009 glycyl-tRNA synthetase, alpha subunit. (301 aa) |
| | tusA | SirA family protein; Sulfur carrier protein which probably makes part of a sulfur- relay system; Belongs to the sulfur carrier protein TusA family. (81 aa) |
| | Shew_0016 | TIGRFAM: ybaK/ebsC protein; PFAM: YbaK/prolyl-tRNA synthetase associated region; KEGG: vfi:VF1792 regulatory protein. (154 aa) |
| | Shew_0099 | TIGRFAM: pseudouridine synthase Rlu family protein, TIGR01621; PFAM: pseudouridine synthase; KEGG: she:Shewmr4_0283 pseudouridine synthase Rlu family protein, TIGR01621. (224 aa) |
| | selU | tRNA 2-selenouridine synthase; Involved in the post-transcriptional modification of the uridine at the wobble position (U34) of tRNA(Lys), tRNA(Glu) and tRNA(Gln). Catalyzes the conversion of 2-thiouridine (S2U-RNA) to 2- selenouridine (Se2U-RNA). Acts in a two-step process involving geranylation of 2-thiouridine (S2U) to S-geranyl-2-thiouridine (geS2U) and subsequent selenation of the latter derivative to 2-selenouridine (Se2U) in the tRNA chain. (372 aa) |
| | trmA | tRNA (uracil-5-)-methyltransferase; Dual-specificity methyltransferase that catalyzes the formation of 5-methyluridine at position 54 (m5U54) in all tRNAs, and that of position 341 (m5U341) in tmRNA (transfer-mRNA). (365 aa) |
| | Shew_0140 | PFAM: RNP-1 like RNA-binding protein; KEGG: shm:Shewmr7_0175 RNP-1 like RNA-binding protein. (152 aa) |
| | nusG | Transcription antitermination protein nusG; Participates in transcription elongation, termination and antitermination. (180 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. (1343 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. (1404 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. (329 aa) |
| | trpS | tryptophanyl-tRNA synthetase; Catalyzes the attachment of tryptophan to tRNA(Trp). Belongs to the class-I aminoacyl-tRNA synthetase family. (332 aa) |
| | rsmI | Uroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA. (280 aa) |
| | dusB | Putative 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. DusB subfamily. (322 aa) |
| | rho | Transcription termination factor Rho; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template. (421 aa) |
| | rhlB | DEAD/DEAH box helicase domain protein; DEAD-box RNA helicase involved in RNA degradation. Has RNA- dependent ATPase activity and unwinds double-stranded RNA. Belongs to the DEAD box helicase family. RhlB subfamily. (435 aa) |
| | argS | KEGG: shm:Shewmr7_0456 arginyl-tRNA synthetase; TIGRFAM: arginyl-tRNA synthetase. (581 aa) |
| | priA | Primosomal protein N; Involved in the restart of stalled replication forks. Recognizes and binds the arrested nascent DNA chain at stalled replication forks. It can open the DNA duplex, via its helicase activity, and promote assembly of the primosome and loading of the major replicative helicase DnaB onto DNA; Belongs to the helicase family. PriA subfamily. (731 aa) |
| | Shew_0384 | Diguanylate cyclase/phosphodiesterase; PFAM: GGDEF domain containing protein; EAL domain protein; KEGG: shm:Shewmr7_0461 diguanylate cyclase/phosphodiesterase. (636 aa) |
| | Shew_0407 | TIGRFAM: ribonuclease, Rne/Rng family; PFAM: RNA binding S1 domain protein; KEGG: she:Shewmr4_3468 ribonuclease, Rne/Rng family. (500 aa) |
| | cmoM | Methyltransferase type 12; Catalyzes the methylation of 5-carboxymethoxyuridine (cmo5U) to form 5-methoxycarbonylmethoxyuridine (mcmo5U) at position 34 in tRNAs; Belongs to the class I-like SAM-binding methyltransferase superfamily. CmoM family. (284 aa) |
| | Shew_0476 | PFAM: protein of unknown function DUF88; KEGG: sfr:Sfri_3658 protein of unknown function DUF88. (265 aa) |
| | deaD | DEAD/DEAH box helicase domain protein; DEAD-box RNA helicase involved in various cellular processes at low temperature, including ribosome biogenesis, mRNA degradation and translation initiation. (599 aa) |
| | dusA | TIM-barrel protein, yjbN 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. Specifically modifies U20 and U20a in tRNAs; Belongs to the Dus family. DusA subfamily. (329 aa) |
| | orn | Exonuclease, RNase T and DNA polymerase III; 3'-to-5' exoribonuclease specific for small oligoribonucleotides; Belongs to the oligoribonuclease family. (181 aa) |
| | Shew_0562 | PFAM: protein of unknown function UPF0079; KEGG: she:Shewmr4_0594 protein of unknown function UPF0079. (157 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. (308 aa) |
| | Shew_0598 | PFAM: helicase domain protein; DbpA, RNA-binding domain protein; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases-like; KEGG: shm:Shewmr7_3275 DEAD/DEAH box helicase domain protein; Belongs to the DEAD box helicase family. (468 aa) |
| | rhlE | DEAD/DEAH box helicase domain protein; DEAD-box RNA helicase involved in ribosome assembly. Has RNA- dependent ATPase activity and unwinds double-stranded RNA. (491 aa) |
| | Shew_0707 | PFAM: YbaK/prolyl-tRNA synthetase associated region; KEGG: vpa:VPA0766 hypothetical protein. (159 aa) |
| | Shew_0768 | Methyltransferase small; Specifically methylates the adenine in position 37 of tRNA(1)(Val) (anticodon cmo5UAC). (243 aa) |
| | Shew_0783 | Ribosomal large subunit pseudouridine synthase A; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (225 aa) |
| | rlmC | 23S rRNA (uracil-5-)-methyltransferase RumB; Catalyzes the formation of 5-methyl-uridine at position 747 (m5U747) in 23S rRNA; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. RlmC subfamily. (379 aa) |
| | lysS | TIGRFAM: lysyl-tRNA synthetase; PFAM: tRNA synthetase, class II (D, K and N); nucleic acid binding, OB-fold, tRNA/helicase-type; KEGG: sdn:Sden_3127 lysyl-tRNA synthetase; Belongs to the class-II aminoacyl-tRNA synthetase family. (500 aa) |
| | Shew_0814 | PFAM: pseudouridine synthase; KEGG: cps:CPS_1154 RNA pseudouridine synthase family protein; Belongs to the pseudouridine synthase RsuA family. (182 aa) |
| | apaH | Bis(5'nucleosyl)-tetraphosphatase, ApaH; Hydrolyzes diadenosine 5',5'''-P1,P4-tetraphosphate to yield ADP; Belongs to the Ap4A hydrolase family. (274 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. (269 aa) |
| | Shew_0916 | Pseudouridine synthase; PFAM: RNA-binding S4 domain protein; pseudouridine synthase; KEGG: sdn:Sden_2876 pseudouridine synthase, Rsu; Belongs to the pseudouridine synthase RsuA family. (236 aa) |
| | valS | valyl-tRNA synthetase; Catalyzes the attachment of valine to tRNA(Val). As ValRS can inadvertently accommodate and process structurally similar amino acids such as threonine, to avoid such errors, it has a 'posttransfer' editing activity that hydrolyzes mischarged Thr-tRNA(Val) in a tRNA- dependent manner; Belongs to the class-I aminoacyl-tRNA synthetase family. ValS type 1 subfamily. (959 aa) |
| | Shew_0950 | PFAM: helicase domain protein; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases-like; KEGG: son:SO1383 ATP-dependent RNA helicase, DEAD box family; Belongs to the DEAD box helicase family. (432 aa) |
| | Shew_0969 | PFAM: FAD dependent oxidoreductase; KEGG: she:Shewmr4_2922 FAD dependent oxidoreductase. (434 aa) |
| | Shew_0977 | PFAM: FAD dependent oxidoreductase; KEGG: shm:Shewmr7_2996 FAD dependent oxidoreductase. (428 aa) |
| | rpoD | RNA polymerase, sigma 70 subunit, RpoD; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth. (616 aa) |
| | dnaG | DNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. (601 aa) |
| | tsaD | O-sialoglycoprotein endopeptidase; Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. Is involved in the transfer of the threonylcarbamoyl moiety of threonylcarbamoyl-AMP (TC-AMP) to the N6 group of A37, together with TsaE and TsaB. TsaD likely plays a direct catalytic role in this reaction; Belongs to the KAE1 / TsaD family. (337 aa) |
| | cca | Metal dependent phosphohydrolase; Catalyzes the addition and repair of the essential 3'- terminal CCA sequence in tRNAs without using a nucleic acid template. Adds these three nucleotides in the order of C, C, and A to the tRNA nucleotide-73, using CTP and ATP as substrates and producing inorganic pyrophosphate. Also shows phosphatase, 2'-nucleotidase and 2',3'-cyclic phosphodiesterase activities. These phosphohydrolase activities are probably involved in the repair of the tRNA 3'-CCA terminus degraded by intracellular RNases. (413 aa) |
| | tyrS | tyrosyl-tRNA synthetase; Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two- step reaction: tyrosine is first activated by ATP to form Tyr-AMP and then transferred to the acceptor end of tRNA(Tyr); Belongs to the class-I aminoacyl-tRNA synthetase family. TyrS type 2 subfamily. (398 aa) |
| | rppH | NUDIX hydrolase; Accelerates the degradation of transcripts by removing pyrophosphate from the 5'-end of triphosphorylated RNA, leading to a more labile monophosphorylated state that can stimulate subsequent ribonuclease cleavage; Belongs to the Nudix hydrolase family. RppH subfamily. (174 aa) |
| | Shew_1048 | RNA polymerase, sigma-24 subunit, ECF subfamily; PFAM: sigma-70 region 2 domain protein; sigma-70 region 4 domain protein; Sigma-70, region 4 type 2; KEGG: son:SO1342 RNA polymerase sigma-24 factor; Belongs to the sigma-70 factor family. ECF subfamily. (192 aa) |
| | rnc | RNAse III; Digests double-stranded RNA. Involved in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Processes some mRNAs, and tRNAs when they are encoded in the rRNA operon. Processes pre-crRNA and tracrRNA of type II CRISPR loci if present in the organism. (225 aa) |
| | rimM | 16S rRNA processing protein RimM; An accessory protein needed during the final step in the assembly of 30S ribosomal subunit, possibly for assembly of the head region. Probably interacts with S19. Essential for efficient processing of 16S rRNA. May be needed both before and after RbfA during the maturation of 16S rRNA. It has affinity for free ribosomal 30S subunits but not for 70S ribosomes; Belongs to the RimM family. (176 aa) |
| | trmD | tRNA (Guanine37-N(1)-) methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family. (248 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. (940 aa) |
| | trmB | tRNA (guanine-N(7)-)-methyltransferase; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. (238 aa) |
| | Shew_1143 | Holliday junction resolvase YqgF; Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA; Belongs to the YqgF HJR family. (139 aa) |
| | Shew_1173 | PFAM: protein of unknown function DUF88; KEGG: she:Shewmr4_1080 protein of unknown function DUF88. (157 aa) |
| | nusB | NusB antitermination factor; Involved in transcription antitermination. Required for transcription of ribosomal RNA (rRNA) genes. Binds specifically to the boxA antiterminator sequence of the ribosomal RNA (rrn) operons. (134 aa) |
| | rlmD | 23S rRNA (uracil-5-)-methyltransferase RumA; Catalyzes the formation of 5-methyl-uridine at position 1939 (m5U1939) in 23S rRNA; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. RlmD subfamily. (444 aa) |
| | truD | Pseudouridylate synthase; Responsible for synthesis of pseudouridine from uracil-13 in transfer RNAs; Belongs to the pseudouridine synthase TruD family. (355 aa) |
| | rpoS | RNA polymerase, sigma 70 subunit, RpoD 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 master transcriptional regulator of the stationary phase and the general stress response. (324 aa) |
| | alaS | alanyl-tRNA synthetase; Catalyzes the attachment of alanine to tRNA(Ala) in a two- step reaction: alanine is first activated by ATP to form Ala-AMP and then transferred to the acceptor end of tRNA(Ala). Also edits incorrectly charged Ser-tRNA(Ala) and Gly-tRNA(Ala) via its editing domain. (874 aa) |
| | csrA | Carbon storage regulator, CsrA; A key translational regulator that binds mRNA to regulate translation initiation and/or mRNA stability. Mediates global changes in gene expression, shifting from rapid growth to stress survival by linking envelope stress, the stringent response and the catabolite repression systems. Usually binds in the 5'-UTR; binding at or near the Shine-Dalgarno sequence prevents ribosome-binding, repressing translation, binding elsewhere in the 5'-UTR can activate translation and/or stabilize the mRNA. Its function is antagonized by small RNA(s). (65 aa) |
| | Shew_1231 | PFAM: sigma-70 region 2 domain protein; KEGG: she:Shewmr4_2972 RNA polymerase, sigma-24 subunit, ECF subfamily; Belongs to the sigma-70 factor family. ECF subfamily. (197 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. (373 aa) |
| | Shew_1288 | KEGG: shm:Shewmr7_1297 type IV pilus biogenesis/stability protein PilW; TIGRFAM: type IV pilus biogenesis/stability protein PilW; PFAM: TPR repeat-containing protein; Tetratricopeptide TPR_2 repeat protein; SMART: Tetratricopeptide domain protein. (262 aa) |
| | hisS | KEGG: sfr:Sfri_1117 histidyl-tRNA synthetase; TIGRFAM: histidyl-tRNA synthetase; PFAM: tRNA synthetase, class II (G, H, P and S); Anticodon-binding domain protein. (423 aa) |
| | tadA | tRNA-adenosine deaminase; Catalyzes the deamination of adenosine to inosine at the wobble position 34 of tRNA(Arg2); Belongs to the cytidine and deoxycytidylate deaminase family. (178 aa) |
| | fliA | RNA polymerase, sigma 28 subunit, FliA/WhiG family; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor controls the expression of flagella-related genes; Belongs to the sigma-70 factor family. FliA subfamily. (239 aa) |
| | gltX | glutamyl-tRNA synthetase; Catalyzes the attachment of glutamate to tRNA(Glu) in a two- step reaction: glutamate is first activated by ATP to form Glu-AMP and then transferred to the acceptor end of tRNA(Glu). (469 aa) |
| | Shew_1454 | PFAM: helicase domain protein; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases-like; KEGG: son:SO3125 ATP-dependent RNA helicase, DEAD box family; Belongs to the DEAD box helicase family. (441 aa) |
| | Shew_1460 | Pseudouridine synthase; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (217 aa) |
| | Shew_1476 | RNA polymerase, sigma-24 subunit, ECF subfamily; PFAM: sigma-70 region 2 domain protein; sigma-70 region 4 domain protein; Sigma-70, region 4 type 2; KEGG: sdn:Sden_3374 sigma-70 region 2; Belongs to the sigma-70 factor family. ECF subfamily. (212 aa) |
| | rnt | RNAse T; Trims short 3' overhangs of a variety of RNA species, leaving a one or two nucleotide 3' overhang. Responsible for the end-turnover of tRNA: specifically removes the terminal AMP residue from uncharged tRNA (tRNA-C-C-A). Also appears to be involved in tRNA biosynthesis. (257 aa) |
| | Shew_1537 | PFAM: FAD dependent oxidoreductase; KEGG: shm:Shewmr7_2193 FAD dependent oxidoreductase. (429 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. (371 aa) |
| | Shew_1562 | PFAM: pseudouridine synthase; KEGG: sfr:Sfri_2258 pseudouridine synthase, Rsu; Belongs to the pseudouridine synthase RsuA family. (264 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. (673 aa) |
| | rsmF | Putative RNA methylase, NOL1/NOP2/sun family; Specifically methylates the cytosine at position 1407 (m5C1407) of 16S rRNA. (486 aa) |
| | rne | RNAse E; Endoribonuclease that plays a central role in RNA processing and decay. Required for the maturation of 5S and 16S rRNAs and the majority of tRNAs. Also involved in the degradation of most mRNAs. Belongs to the RNase E/G family. RNase E subfamily. (1128 aa) |
| | Shew_1594 | Ribosomal large subunit pseudouridine synthase C; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (329 aa) |
| | Shew_1611 | PFAM: Exonuclease, RNase T and DNA polymerase III; Exonuclease C-terminal domain protein; KEGG: son:SO2790 exodeoxyribonuclease I. (482 aa) |
| | Shew_1682 | Ribonuclease H; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (254 aa) |
| | Shew_1767 | KEGG: shm:Shewmr7_2138 ATP-dependent helicase HrpA; TIGRFAM: ATP-dependent helicase HrpA; PFAM: helicase domain protein; helicase-associated domain protein; protein of unknown function DUF1605; SMART: AAA ATPase; DEAD-like helicases-like. (1295 aa) |
| | Shew_1781 | PFAM: Rhodanese domain protein; KEGG: she:Shewmr4_1760 rhodanese domain protein; Belongs to the UPF0176 family. (326 aa) |
| | rlmL | Putative RNA methylase; Specifically methylates the guanine in position 2445 (m2G2445) and the guanine in position 2069 (m7G2069) of 23S rRNA. Belongs to the methyltransferase superfamily. RlmKL family. (711 aa) |
| | Shew_1842 | PFAM: SirA family protein; KEGG: she:Shewmr4_2346 SirA family protein; Belongs to the sulfur carrier protein TusA family. (73 aa) |
| | Shew_1884 | PFAM: helicase domain protein; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases-like; KEGG: vpa:VP0903 RhlE; Belongs to the DEAD box helicase family. (488 aa) |
| | Shew_1891 | PFAM: Fmu (Sun) domain protein; KEGG: son:SO2215 sun protein, putative; Belongs to the class I-like SAM-binding methyltransferase superfamily. RsmB/NOP family. (418 aa) |
| | asnS | TIGRFAM: asparaginyl-tRNA synthetase; PFAM: tRNA synthetase, class II (D, K and N); nucleic acid binding, OB-fold, tRNA/helicase-type; KEGG: she:Shewmr4_2128 asparaginyl-tRNA synthetase. (466 aa) |
| | Shew_1966 | PFAM: DTW domain containing protein; KEGG: sdn:Sden_1780 hypothetical protein. (249 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. (317 aa) |
| | Shew_2005 | PFAM: FAD dependent oxidoreductase; KEGG: sfr:Sfri_0489 FAD dependent oxidoreductase. (443 aa) |
| | Shew_2015 | PFAM: DsrE family protein; KEGG: she:Shewmr4_1972 DsrE family protein. (129 aa) |
| | Shew_2016 | PFAM: DsrE family protein; KEGG: shm:Shewmr7_2005 DsrE family protein; Belongs to the DsrF/TusC family. (119 aa) |
| | Shew_2017 | KEGG: sdn:Sden_1806 DsrH like protein. (93 aa) |
| | Shew_2018 | DsrC family protein; Part of a sulfur-relay system. (107 aa) |
| | serS | seryl-tRNA synthetase; Catalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L- seryl-tRNA(Sec), which will be further converted into selenocysteinyl- tRNA(Sec). (428 aa) |
| | thrS | threonyl-tRNA synthetase; Catalyzes the attachment of threonine to tRNA(Thr) in a two- step reaction: L-threonine is first activated by ATP to form Thr-AMP and then transferred to the acceptor end of tRNA(Thr). Also edits incorrectly charged L-seryl-tRNA(Thr). (642 aa) |
| | aspS | aspartyl-tRNA synthetase; Catalyzes the attachment of L-aspartate to tRNA(Asp) in a two-step reaction: L-aspartate is first activated by ATP to form Asp- AMP and then transferred to the acceptor end of tRNA(Asp). Belongs to the class-II aminoacyl-tRNA synthetase family. Type 1 subfamily. (592 aa) |
| | rnpA | Ribonuclease P protein component; RNaseP catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus. It can also cleave other RNA substrates such as 4.5S RNA. The protein component plays an auxiliary but essential role in vivo by binding to the 5'-leader sequence and broadening the substrate specificity of the ribozyme. (120 aa) |
| | mnmE | tRNA modification GTPase trmE; Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. TrmE GTPase family. (453 aa) |
| | 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. (629 aa) |
| | rsmG | Methyltransferase GidB; Specifically methylates the N7 position of guanine in position 527 of 16S rRNA. (234 aa) |
| | Shew_3843 | PFAM: DsrE family protein; KEGG: ppr:PBPRB1553 putative uncharacterized protein involved in oxidation of intracellular sulfur. (117 aa) |
| | rlmF | Protein of unknown function DUF890; Specifically methylates the adenine in position 1618 of 23S rRNA. (398 aa) |
| | Shew_3738 | Sun protein; Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA. (427 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) |
| | tsaC | Translation factor SUA5; Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. Catalyzes the conversion of L-threonine, HCO(3)(-)/CO(2) and ATP to give threonylcarbamoyl-AMP (TC-AMP) as the acyladenylate intermediate, with the release of diphosphate. (185 aa) |
| | Shew_3672 | KEGG: shm:Shewmr7_3956 hypothetical protein. (251 aa) |
| | rlmJ | Protein of unknown function DUF519; Specifically methylates the adenine in position 2030 of 23S rRNA. (279 aa) |
| | rsmJ | Protein of unknown function DUF548; Specifically methylates the guanosine in position 1516 of 16S rRNA. (259 aa) |
| | Shew_3607 | Putative methyltransferase; Specifically methylates the guanine in position 966 of 16S rRNA in the assembled 30S particle; Belongs to the methyltransferase superfamily. RsmD family. (195 aa) |
| | rpoH | RNA polymerase, sigma 32 subunit, RpoH; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is involved in regulation of expression of heat shock genes. (285 aa) |
| | Shew_3586 | PFAM: DTW domain containing protein; KEGG: sfr:Sfri_0299 DTW domain containing protein. (200 aa) |
| | trmL | RNA methyltransferase, TrmH family, group 2; Methylates the ribose at the nucleotide 34 wobble position in the two leucyl isoacceptors tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA). Catalyzes the methyl transfer from S-adenosyl-L-methionine to the 2'-OH of the wobble nucleotide. (154 aa) |
| | dtd | D-tyrosyl-tRNA(Tyr) deacylase; An aminoacyl-tRNA editing enzyme that deacylates mischarged D-aminoacyl-tRNAs. Also deacylates mischarged glycyl-tRNA(Ala), protecting cells against glycine mischarging by AlaRS. Acts via tRNA- based rather than protein-based catalysis; rejects L-amino acids rather than detecting D-amino acids in the active site. By recycling D- aminoacyl-tRNA to D-amino acids and free tRNA molecules, this enzyme counteracts the toxicity associated with the formation of D-aminoacyl- tRNA entities in vivo and helps enforce protein L-homochirality. Belongs to the DTD family. (145 aa) |
| | trmH | tRNA guanosine-2'-O-methyltransferase; Catalyzes the 2'-O methylation of guanosine at position 18 in tRNA; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (234 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. (93 aa) |
| | Shew_3489 | PFAM: YicC N-terminal domain protein; domain of unknown function DUF1732; KEGG: she:Shewmr4_3605 hypothetical protein. (287 aa) |
| | rph | RNAse PH; Phosphorolytic 3'-5' exoribonuclease that plays an important role in tRNA 3'-end maturation. Removes nucleotide residues following the 3'-CCA terminus of tRNAs; can also add nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates, but this may not be physiologically important. Probably plays a role in initiation of 16S rRNA degradation (leading to ribosome degradation) during starvation. (237 aa) |
| | rsmH | S-adenosyl-methyltransferase MraW; Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA. (313 aa) |
| | Shew_3348 | PFAM: pseudouridine synthase; KEGG: shm:Shewmr7_0418 pseudouridine synthase. (313 aa) |
| | Shew_3324 | KEGG: sdn:Sden_3286 hypothetical protein; Belongs to the methyltransferase superfamily. (353 aa) |
| | Shew_3321 | PFAM: protein of unknown function DUF752; KEGG: chu:CHU_0640 hypothetical protein. (257 aa) |
| | Shew_3311 | 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. (495 aa) |
| | rnr | RNAse R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs. (824 aa) |
| | rlmB | RNA methyltransferase, TrmH family, group 3; Specifically methylates the ribose of guanosine 2251 in 23S rRNA. (246 aa) |
| | Shew_3283 | Restart primosome assembly protein PriB; KEGG: sdn:Sden_0516 single-strand binding protein/primosomal replication protein N. (72 aa) |
| | Shew_3278 | Primary replicative DNA helicase; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with DnaC protein, primase, and other prepriming proteins. Belongs to the helicase family. DnaB subfamily. (468 aa) |
| | Shew_3251 | PFAM: UBA/THIF-type NAD/FAD binding protein; KEGG: she:Shewmr4_3226 UBA/ThiF-type NAD/FAD binding protein. (270 aa) |
| | rsmC | 16S rRNA m(2)G 1207 methyltransferase; Specifically methylates the guanine in position 1207 of 16S rRNA in the 30S particle; Belongs to the methyltransferase superfamily. RsmC family. (342 aa) |
| | Shew_3224 | 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. (243 aa) |
| | Shew_3180 | PFAM: pseudouridine synthase; KEGG: shm:Shewmr7_0952 pseudouridine synthase, Rsu; Belongs to the pseudouridine synthase RsuA family. (238 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. (480 aa) |
| | gluQ | Glutamate--tRNA ligase; 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. (319 aa) |
| | Shew_3124 | KEGG: shm:Shewmr7_3407 ATP-dependent helicase HrpB; TIGRFAM: ATP-dependent helicase HrpB; PFAM: helicase domain protein; helicase-associated domain protein; DEAD/DEAH box helicase domain protein; Helicase ATP-dependent, C-terminal domain protein; SMART: DEAD-like helicases-like. (843 aa) |
| | queG | Putative iron-sulfur cluster binding protein; Catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr); Belongs to the QueG family. (387 aa) |
| | Shew_2975 | PFAM: RNA-binding S4 domain protein; pseudouridine synthase; KEGG: shm:Shewmr7_0788 pseudouridine synthase, Rsu; Belongs to the pseudouridine synthase RsuA family. (230 aa) |
| | Shew_2956 | RNA polymerase, sigma-24 subunit, ECF subfamily; PFAM: sigma-70 region 2 domain protein; sigma-70 region 4 domain protein; Sigma-70, region 4 type 2; KEGG: shm:Shewmr7_0791 RNA polymerase, sigma-24 subunit, ECF subfamily; Belongs to the sigma-70 factor family. ECF subfamily. (190 aa) |
| | Shew_2950 | Ribosomal large subunit pseudouridine synthase D; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (323 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. (156 aa) |
| | leuS | TIGRFAM: leucyl-tRNA synthetase; KEGG: sdn:Sden_0797 leucyl-tRNA synthetase; Belongs to the class-I aminoacyl-tRNA synthetase family. (863 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. (157 aa) |
| | miaB | tRNA-i(6)A37 thiotransferase enzyme MiaB; Catalyzes the methylthiolation of N6-(dimethylallyl)adenosine (i(6)A), leading to the formation of 2-methylthio-N6- (dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine. (474 aa) |
| | rlmG | rRNA (guanine-N(2)-)-methyltransferase; Specifically methylates the guanine in position 1835 (m2G1835) of 23S rRNA. (401 aa) |
| | Shew_2883 | Transcriptional regulator BolA; PFAM: BolA family protein; KEGG: she:Shewmr4_0932 BolA family protein; Belongs to the BolA/IbaG family. (99 aa) |
| | Shew_2836 | PFAM: protein of unknown function UPF0044; KEGG: shm:Shewmr7_1082 protein of unknown function UPF0044. (102 aa) |
| | rlmE | Ribosomal RNA methyltransferase RrmJ/FtsJ; Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit. (209 aa) |
| | nusA | NusA antitermination factor; Participates in both transcription termination and antitermination. (499 aa) |
| | rbfA | Ribosome-binding factor A; One of several proteins that assist in the late maturation steps of the functional core of the 30S ribosomal subunit. Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Required for efficient processing of 16S rRNA. May interact with the 5'-terminal helix region of 16S rRNA. (140 aa) |
| | truB | tRNA pseudouridine synthase B; Responsible for synthesis of pseudouridine from uracil-55 in the psi GC loop of transfer RNAs; Belongs to the pseudouridine synthase TruB family. Type 1 subfamily. (315 aa) |
| | pnp | Polyribonucleotide nucleotidyltransferase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (700 aa) |
| | Shew_2800 | PFAM: helicase domain protein; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases-like; KEGG: she:Shewmr4_1161 DEAD/DEAH box helicase domain protein; Belongs to the DEAD box helicase family. (408 aa) |
| | Shew_2785 | PFAM: 4Fe-4S ferredoxin, iron-sulfur binding domain protein; KEGG: shm:Shewmr7_1135 4Fe-4S ferredoxin, iron-sulfur binding domain protein. (85 aa) |
| | Shew_2777 | PFAM: helicase domain protein; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases-like; KEGG: she:Shewmr4_2752 DEAD/DEAH box helicase domain protein; Belongs to the DEAD box helicase family. (451 aa) |
| | thiI | Thiamine biosynthesis/tRNA modification protein ThiI; Catalyzes the ATP-dependent transfer of a sulfur to tRNA to produce 4-thiouridine in position 8 of tRNAs, which functions as a near-UV photosensor. Also catalyzes the transfer of sulfur to the sulfur carrier protein ThiS, forming ThiS-thiocarboxylate. This is a step in the synthesis of thiazole, in the thiamine biosynthesis pathway. The sulfur is donated as persulfide by IscS. (485 aa) |
| | rlmM | Conserved hypothetical protein; Catalyzes the 2'-O-methylation at nucleotide C2498 in 23S rRNA; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA methyltransferase RlmE family. RlmM subfamily. (363 aa) |
| | Shew_2739 | PFAM: Fmu (Sun) domain protein; KEGG: son:SO1575 NOL1/NOP2/sun family putative RNA methylase; Belongs to the class I-like SAM-binding methyltransferase superfamily. RsmB/NOP family. (475 aa) |
| | psuG | Indigoidine synthase A family protein; Catalyzes the reversible cleavage of pseudouridine 5'- phosphate (PsiMP) to ribose 5-phosphate and uracil. Functions biologically in the cleavage direction, as part of a pseudouridine degradation pathway; Belongs to the pseudouridine-5'-phosphate glycosidase family. (304 aa) |
| | Shew_2722 | KEGG: sdn:Sden_2403 hypothetical protein. (235 aa) |
| | Shew_2643 | PFAM: pseudouridine synthase; KEGG: sfr:Sfri_1262 pseudouridylate synthase. (273 aa) |
| | rnhB | RNase HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family. (208 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. (474 aa) |
| | proS | prolyl-tRNA synthetase; Catalyzes the attachment of proline to tRNA(Pro) in a two- step reaction: proline is first activated by ATP to form Pro-AMP and then transferred to the acceptor end of tRNA(Pro). As ProRS can inadvertently accommodate and process non-cognate amino acids such as alanine and cysteine, to avoid such errors it has two additional distinct editing activities against alanine. One activity is designated as 'pretransfer' editing and involves the tRNA(Pro)-independent hydrolysis of activated Ala-AMP. The other activity is designated 'posttransfer' editing and involves dea [...] (569 aa) |
| | Shew_2547 | PFAM: pseudouridine synthase; KEGG: sfr:Sfri_0787 pseudouridine synthase. (287 aa) |
| | Shew_2529 | PFAM: pseudouridine synthase; KEGG: sfr:Sfri_0886 pseudouridine synthase. (578 aa) |
| | glnS | KEGG: shm:Shewmr7_2571 glutaminyl-tRNA synthetase; TIGRFAM: glutaminyl-tRNA synthetase; PFAM: glutamyl-tRNA synthetase, class Ic. (556 aa) |
| | Shew_2514 | PFAM: tRNA--hydroxylase; KEGG: shm:Shewmr7_2569 tRNA hydroxylase. (256 aa) |
| | cysS | KEGG: sfr:Sfri_2599 cysteinyl-tRNA synthetase; TIGRFAM: cysteinyl-tRNA synthetase; PFAM: cysteinyl-tRNA synthetase, class Ia; Belongs to the class-I aminoacyl-tRNA synthetase family. (459 aa) |
| | Shew_2485 | KEGG: son:SO1817 primosomal replication protein N'', putative. (220 aa) |
| | Shew_2434 | KEGG: shm:Shewmr7_1464 hypothetical protein. (234 aa) |
| | Shew_2433 | RNA polymerase, sigma-24 subunit, ECF subfamily; PFAM: sigma-70 region 2 domain protein; sigma-70 region 4 domain protein; Sigma-70, region 4 type 2; KEGG: sdn:Sden_1522 sigma-70 region 2; Belongs to the sigma-70 factor family. ECF subfamily. (187 aa) |
| | Shew_2412 | PFAM: tRNA/rRNA methyltransferase (SpoU); KEGG: sdn:Sden_1541 tRNA/rRNA methyltransferase (SpoU). (174 aa) |
| | mnmC | FAD dependent oxidoreductase; Catalyzes the last two steps in the biosynthesis of 5- methylaminomethyl-2-thiouridine (mnm(5)s(2)U) at the wobble position (U34) in tRNA. Catalyzes the FAD-dependent demodification of cmnm(5)s(2)U34 to nm(5)s(2)U34, followed by the transfer of a methyl group from S-adenosyl-L-methionine to nm(5)s(2)U34, to form mnm(5)s(2)U34; In the N-terminal section; belongs to the methyltransferase superfamily. tRNA (mnm(5)s(2)U34)-methyltransferase family. (686 aa) |
| | Shew_2397 | KEGG: sfr:Sfri_2556 hypothetical protein; Belongs to the methyltransferase superfamily. (305 aa) |
| | Shew_2383 | PFAM: regulatory protein, TetR; KEGG: psp:PSPPH_3872 transcriptional regulator, TetR family. (218 aa) |
| | tgt | Queuine tRNA-ribosyltransferase; Catalyzes the base-exchange of a guanine (G) residue with the queuine precursor 7-aminomethyl-7-deazaguanine (PreQ1) at position 34 (anticodon wobble position) in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr). Catalysis occurs through a double-displacement mechanism. The nucleophile active site attacks the C1' of nucleotide 34 to detach the guanine base from the RNA, forming a covalent enzyme-RNA intermediate. The proton acceptor active site deprotonates the incoming PreQ1, allowing a nucleophilic attack on the C1' of the ribose to form th [...] (374 aa) |
| | 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. (252 aa) |
| | truA | tRNA pseudouridine synthase A; Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs. (261 aa) |
| | Shew_2250 | PFAM: PHP C-terminal domain protein; SMART: phosphoesterase PHP domain protein; KEGG: sdn:Sden_2449 PHP-like protein. (286 aa) |
| | Shew_2249 | Translation factor SUA5; TIGRFAM: Sua5/YciO/YrdC/YwlC family protein; PFAM: SUA5/yciO/yrdC, N-terminal domain; KEGG: shm:Shewmr7_1530 SUA5/YciO/YrdC/YwlC family protein; Belongs to the SUA5 family. (206 aa) |
| | Shew_2246 | PFAM: RNA-binding S4 domain protein; pseudouridine synthase; KEGG: shm:Shewmr7_1533 pseudouridine synthase, Rsu; Belongs to the pseudouridine synthase RsuA family. (293 aa) |
| | dusC | 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. Specifically modifies U16 in tRNAs. Belongs to the Dus family. DusC subfamily. (309 aa) |
| | pheS | KEGG: she:Shewmr4_1808 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. (336 aa) |
| | pheT | KEGG: she:Shewmr4_1809 phenylalanyl-tRNA synthetase, beta subunit; TIGRFAM: phenylalanyl-tRNA synthetase, beta subunit. (795 aa) |
| | Shew_2193 | PFAM: peptidase M22, glycoprotease; KEGG: son:SO2586 hypothetical protein. (247 aa) |
| | rnd | Ribonuclease D; Exonuclease involved in the 3' processing of various precursor tRNAs. Initiates hydrolysis at the 3'-terminus of an RNA molecule and releases 5'-mononucleotides; Belongs to the RNase D family. (368 aa) |
| | rnhA | Ribonuclease H; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (158 aa) |
| | Shew_2099 | PFAM: DTW domain containing protein; KEGG: cps:CPS_2423 hypothetical protein. (189 aa) |
| | cmoB | Putative methyltransferase; Catalyzes carboxymethyl transfer from carboxy-S-adenosyl-L- methionine (Cx-SAM) to 5-hydroxyuridine (ho5U) to form 5- carboxymethoxyuridine (cmo5U) at position 34 in tRNAs. (330 aa) |
