STRINGSTRING
rlmE rlmE tgt tgt miaA miaA mnmA mnmA trmFO trmFO EAQ03367.1 EAQ03367.1 EAQ03394.1 EAQ03394.1 EAQ03406.1 EAQ03406.1 rne rne EAQ03466.1 EAQ03466.1 ksgA ksgA EAQ03534.1 EAQ03534.1 EAQ03573.1 EAQ03573.1 rnd rnd EAQ03603.1 EAQ03603.1 truA truA EAQ04558.1 EAQ04558.1 dusA dusA EAQ04635.1 EAQ04635.1 kptA kptA EAQ04648.1 EAQ04648.1 EAQ04711.1 EAQ04711.1 EAQ04903.1 EAQ04903.1 rimO rimO EAQ04924.1 EAQ04924.1 rlmJ rlmJ rsmI rsmI EAQ05130.1 EAQ05130.1 rnpA rnpA ttcA ttcA EAQ05166.1 EAQ05166.1 EAQ04091.1 EAQ04091.1 EAQ04192.1 EAQ04192.1 EAQ04441.1 EAQ04441.1 EAQ04487.1 EAQ04487.1 EAQ03719.1 EAQ03719.1 EAQ03736.1 EAQ03736.1 pnp pnp truB truB rbfA rbfA rlmN rlmN rnc rnc fmt fmt queG queG EAQ03980.1 EAQ03980.1 EAQ03988.1 EAQ03988.1 EAQ04029.1 EAQ04029.1 EAQ04031.1 EAQ04031.1 rph rph rsmG rsmG mnmG mnmG mnmE mnmE EAQ02995.1 EAQ02995.1 tsaD tsaD kptA-2 kptA-2 EAQ03077.1 EAQ03077.1 trmD trmD rimM rimM rlmH rlmH EAQ03264.1 EAQ03264.1 EAQ01131.1 EAQ01131.1 miaB miaB ybeY ybeY trmB trmB EAQ02723.1 EAQ02723.1 tadA tadA tilS tilS rsmH rsmH EAQ01010.1 EAQ01010.1 EAQ02265.1 EAQ02265.1
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query proteins and first shell of interactors
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second shell of interactors
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proteins of unknown 3D structure
filled nodes:
a 3D structure is known or predicted
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experimentally determined
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gene neighborhood
gene fusions
gene co-occurrence
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textmining
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rlmERibosomal RNA large subunit methyltransferase J; 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. (238 aa)
tgtQueuine 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 [...] (426 aa)
miaAProbable 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. (314 aa)
mnmAtRNA (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. (382 aa)
trmFOGlucose-inhibited division protein A; 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. (455 aa)
EAQ03367.1Putative Pseudouridine synthase, Rlu; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (339 aa)
EAQ03394.1RNA methyltransferase, TrmH family, group 3; COG0566 rRNA methylases; Belongs to the class IV-like SAM-binding methyltransferase superfamily. RNA methyltransferase TrmH family. (265 aa)
EAQ03406.1Hypothetical protein; COG1092 Predicted SAM-dependent methyltransferases; Belongs to the methyltransferase superfamily. (400 aa)
rneRibonuclease, Rne/Rng family protein; 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. (920 aa)
EAQ03466.1SirA family protein; COG0425 Predicted redox protein, regulator of disulfide bond formation; Belongs to the sulfur carrier protein TusA family. (80 aa)
ksgADimethyladenosine 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. (279 aa)
EAQ03534.1RNA methyltransferase, TrmH family, group 1; COG0565 rRNA methylase. (244 aa)
EAQ03573.1tRNA-dihydrouridine synthase, putative; 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. (326 aa)
rndRibonuclease 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. (385 aa)
EAQ03603.1yicC family protein; COG1561 Uncharacterized stress-induced protein. (296 aa)
truAtRNA pseudouridine synthase A; Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs. (255 aa)
EAQ04558.1Hypothetical protein; Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA; Belongs to the YqgF HJR family. (161 aa)
dusAtRNA-dihydrouridine synthase A; 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. (314 aa)
EAQ04635.1Hypothetical protein. (339 aa)
kptAHypothetical protein; Removes the 2'-phosphate from RNA via an intermediate in which the phosphate is ADP-ribosylated by NAD followed by a presumed transesterification to release the RNA and generate ADP-ribose 1''-2''- cyclic phosphate (APPR>P). May function as an ADP-ribosylase. (179 aa)
EAQ04648.1Hypothetical protein; COG1859 RNA:NAD 2'-phosphotransferase. (137 aa)
EAQ04711.1COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases; Belongs to the pseudouridine synthase RsuA family. (182 aa)
EAQ04903.1ATP-dependent helicase HrpB; COG1643 HrpA-like helicases. (816 aa)
rimORNA modification enzyme, MiaB-family protein; Catalyzes the methylthiolation of an aspartic acid residue of ribosomal protein S12; Belongs to the methylthiotransferase family. RimO subfamily. (463 aa)
EAQ04924.1Rhodanese-like protein; COG2603 Predicted ATPase; Belongs to the SelU family. (348 aa)
rlmJHypothetical protein; Specifically methylates the adenine in position 2030 of 23S rRNA. (257 aa)
rsmIHypothetical protein; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA. (288 aa)
EAQ05130.1Hypothetical protein; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit. (241 aa)
rnpARibonuclease 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. (117 aa)
ttcAHypothetical 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. (297 aa)
EAQ05166.1Ribosomal large subunit pseudouridine synthase C; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (347 aa)
EAQ04091.1Hypothetical protein. (200 aa)
EAQ04192.1Ribonuclease, Rne/Rng family protein; COG1530 Ribonucleases G and E. (353 aa)
EAQ04441.1Putative translation factor; Required for the formation of a threonylcarbamoyl group on adenosine at position 37 (t(6)A37) in tRNAs that read codons beginning with adenine. (314 aa)
EAQ04487.1Protease, putative; COG1214 Inactive homolog of metal-dependent proteases, putative molecular chaperone. (192 aa)
EAQ03719.1Methyltransferase, putative; COG0742 N6-adenine-specific methylase. (184 aa)
EAQ03736.1ATPase, AFG1 family protein; COG1485 Predicted ATPase. (359 aa)
pnpPolyribonucleotide nucleotidyltransferase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (712 aa)
truBtRNA 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. (302 aa)
rbfARibosome-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. (134 aa)
rlmNRadical SAM superfamily protein; Specifically methylates position 2 of adenine 2503 in 23S rRNA and position 2 of adenine 37 in tRNAs. m2A2503 modification seems to play a crucial role in the proofreading step occurring at the peptidyl transferase center and thus would serve to optimize ribosomal fidelity; Belongs to the radical SAM superfamily. RlmN family. (398 aa)
rncRibonuclease III; Digests double-stranded RNA. Involved in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Processes some mRNAs, and tRNAs when they are encoded in the rRNA operon. Processes pre-crRNA and tracrRNA of type II CRISPR loci if present in the organism. (226 aa)
fmtmethionyl-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. (301 aa)
queGIron-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. (349 aa)
EAQ03980.1Ribosomal large subunit pseudouridine synthase A; COG0564 Pseudouridylate synthases, 23S RNA-specific. (215 aa)
EAQ03988.1Hypothetical protein. (226 aa)
EAQ04029.123S rRNA (Uracil-5-)-methyltransferase rumA; COG2265 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. (405 aa)
EAQ04031.1polyA polymerase family protein; COG0617 tRNA nucleotidyltransferase/poly(A) polymerase; Belongs to the tRNA nucleotidyltransferase/poly(A) polymerase family. (386 aa)
rphRibonuclease 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)
rsmGGlucose-inhibited division protein B; Specifically methylates the N7 position of guanine in position 527 of 16S rRNA. (201 aa)
mnmGGlucose-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. (596 aa)
mnmEtRNA modification GTPase; 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. (426 aa)
EAQ02995.1Hypothetical protein; COG0802 Predicted ATPase or kinase. (156 aa)
tsaDO-sialoglycoprotein endopeptidase, putative; 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. (363 aa)
kptA-2Hypothetical protein; Removes the 2'-phosphate from RNA via an intermediate in which the phosphate is ADP-ribosylated by NAD followed by a presumed transesterification to release the RNA and generate ADP-ribose 1''-2''- cyclic phosphate (APPR>P). May function as an ADP-ribosylase. (179 aa)
EAQ03077.1Hypothetical protein; COG0116 Predicted N6-adenine-specific DNA methylase. (369 aa)
trmDtRNA (guanine-N1)-methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family. (263 aa)
rimM16S 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. (166 aa)
rlmHHypothetical protein; Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA; Belongs to the RNA methyltransferase RlmH family. (156 aa)
EAQ03264.1Rhodanese-like domain protein; COG1054 Predicted sulfurtransferase; Belongs to the UPF0176 family. (303 aa)
EAQ01131.1MiaB-like Radical SAM protein; COG0621 2-methylthioadenine synthetase. (417 aa)
miaBtRNA-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. (440 aa)
ybeYHypothetical protein; Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA. (164 aa)
trmBtRNA (guanine-N(7)-)-methyltransferase; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. (236 aa)
EAQ02723.1COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases; Belongs to the pseudouridine synthase RsuA family. (331 aa)
tadAHypothetical protein; Catalyzes the deamination of adenosine to inosine at the wobble position 34 of tRNA(Arg2); Belongs to the cytidine and deoxycytidylate deaminase family. (154 aa)
tilSPP-loop family protein; 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. (414 aa)
rsmHS-adenosyl-methyltransferase MraW; Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA. (331 aa)
EAQ01010.1COG0590 Cytosine/adenosine deaminases. (155 aa)
EAQ02265.1Hypothetical protein; COG0500 SAM-dependent methyltransferases. (244 aa)
Your Current Organism:
Pseudooceanicola batsensis
NCBI taxonomy Id: 252305
Other names: Oceanicola batsensis HTCC2597, Oceanicola batsensis KCTC 12145, P. batsensis HTCC2597, Pseudooceanicola batsensis HTCC2597, Pseudooceanicola batsensis KCTC 12145
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