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queG queG gidB gidB ksgA ksgA rimM rimM rluE rluE SGRA_0074 SGRA_0074 trmE trmE rluD rluD rnpA rnpA ypsC ypsC gcp gcp SGRA_1381 SGRA_1381 SGRA_1285 SGRA_1285 SGRA_1262 SGRA_1262 ruvX ruvX truC truC rsmI rsmI rluF rluF mraW mraW tilS tilS truB truB gidA gidA SGRA_0702 SGRA_0702 rimO rimO rnz rnz SGRA_0541 SGRA_0541 rluB rluB rlmN rlmN tgt tgt rsmE rsmE mnmA mnmA SGRA_4031 SGRA_4031 truA truA trmD trmD SGRA_3885 SGRA_3885 SGRA_3813 SGRA_3813 fmt fmt SGRA_3429 SGRA_3429 rluD-3 rluD-3 SGRA_3354 SGRA_3354 SGRA_3266 SGRA_3266 ybeA ybeA kptA kptA rluD-2 rluD-2 miaE miaE rsmD rsmD SGRA_2910 SGRA_2910 SGRA_2861 SGRA_2861 trmB trmB SGRA_2808 SGRA_2808 miaA miaA SGRA_2522 SGRA_2522 rnc rnc miaB miaB rbfA rbfA tadA tadA ybeY ybeY
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splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.
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query proteins and first shell of interactors
white nodes:
second shell of interactors
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empty nodes:
proteins of unknown 3D structure
filled nodes:
a 3D structure is known or predicted
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Edges represent protein-protein associations
associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.
Known Interactions
from curated databases
experimentally determined
Predicted Interactions
gene neighborhood
gene fusions
gene co-occurrence
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textmining
co-expression
protein homology
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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. (309 aa)
gidBMethyltransferase GidB; Specifically methylates the N7 position of a guanine in 16S rRNA; Belongs to the methyltransferase superfamily. RNA methyltransferase RsmG family. (210 aa)
ksgA16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; 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. (264 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. (171 aa)
rluEPseudouridine synthase; COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases; Belongs to the pseudouridine synthase RsuA family. (199 aa)
SGRA_0074tRNA-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. (330 aa)
trmEtRNA modification GTPase TrmE; Exhibits a very high intrinsic GTPase hydrolysis rate. Involved in the addition of a carboxymethylaminomethyl (cmnm) group at the wobble position (U34) of certain tRNAs, forming tRNA- cmnm(5)s(2)U34; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. TrmE GTPase family. (455 aa)
rluDRibosomal large subunit pseudouridine synthase d; COG0564 Pseudouridylate synthases, 23S RNA-specific. (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. (133 aa)
ypsCTHUMP domain-containing protein; COG0116 Predicted N6-adenine-specific DNA methylase; Belongs to the methyltransferase superfamily. (399 aa)
gcpUGMP 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. 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. (396 aa)
SGRA_1381M22 family peptidase; COG1214 Inactive homolog of metal-dependent proteases, putative molecular chaperone. (236 aa)
SGRA_1285Hypothetical protein; COG0802 Predicted ATPase or kinase. (143 aa)
SGRA_1262Hypothetical protein; COG0500 SAM-dependent methyltransferases. (391 aa)
ruvXHolliday junction resolvase; Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA; Belongs to the YqgF HJR family. (171 aa)
truCCOG0564 Pseudouridylate synthases, 23S RNA-specific. (296 aa)
rsmIUroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; Catalyzes the 2'-O-methylation of the ribose of cytidine 1402 (C1402) in 16S rRNA. (252 aa)
rluFPutative ribosomal RNA pseudouridine synthase; COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases; Belongs to the pseudouridine synthase RsuA family. (234 aa)
mraWS-adenosyl-methyltransferase MraW; Specifically methylates the N4 position of cytidine in position 1402 (C1402) of 16S rRNA. (302 aa)
tilSPutative cell-cycle 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. (444 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. (241 aa)
gidAtRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; 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. (621 aa)
SGRA_070223S 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. (501 aa)
rimOSSU ribosomal protein s12p methylthiotransferase; Catalyzes the methylthiolation of an aspartic acid residue of ribosomal protein S12; Belongs to the methylthiotransferase family. RimO subfamily. (441 aa)
rnzRibonuclease 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. (304 aa)
SGRA_0541COG3597 Uncharacterized protein/domain associated with GTPases. (242 aa)
rluBPseudouridine synthase; COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases; Belongs to the pseudouridine synthase RsuA family. (270 aa)
rlmNRibosomal RNA large subunit methyltransferase N; 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. (348 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 [...] (376 aa)
rsmE16S ribosomal RNA methyltransferase RsmE; Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit. (238 aa)
mnmAtRNA-specific 2-thiouridylase MnmA; Catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34. (391 aa)
SGRA_4031rRNA (guanine-N(2)-)-methyltransferase; Specifically methylates the guanine in position 1835 (m2G1835) of 23S rRNA. (363 aa)
truAtRNA pseudouridine synthase A; Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs. (264 aa)
trmDtRNA (guanine-N1)-methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family. (226 aa)
SGRA_3885Hypothetical protein; COG1561 Uncharacterized stress-induced protein. (287 aa)
SGRA_3813Hypothetical protein; COG1100 GTPase SAR1 and related small G proteins. (151 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. (307 aa)
SGRA_3429Putative DNA-binding protein; Specifically methylates the adenine in position 37 of tRNA(1)(Val) (anticodon cmo5UAC). (237 aa)
rluD-3Pseudouridine synthase, RluA family protein; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (345 aa)
SGRA_33545-methylaminomethyl-2-thiouridine methyltransferase. (229 aa)
SGRA_3266SUA5/yciO/yrdC domain protein; COG0009 Putative translation factor (SUA5); Belongs to the SUA5 family. (187 aa)
ybeArRNA large subunit methyltransferase; Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA; Belongs to the RNA methyltransferase RlmH family. (157 aa)
kptAPhosphate acetyltransferase; 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. (186 aa)
rluD-2Pseudouridine synthase; Responsible for synthesis of pseudouridine from uracil. Belongs to the pseudouridine synthase RluA family. (245 aa)
miaEtRNA-hydroxylase; COG4445 Hydroxylase for synthesis of 2-methylthio-cis-ribozeatin in tRNA. (200 aa)
rsmDMethyltransferase; COG0742 N6-adenine-specific methylase. (184 aa)
SGRA_2910Uroporphyrin-iii c/tetrapyrrole (corrin/porphyrin) methyltransferase; COG0313 Predicted methyltransferases. (235 aa)
SGRA_2861COG0621 2-methylthioadenine synthetase. (448 aa)
trmBtRNA (guanine-N(7)-)-methyltransferase; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. (226 aa)
SGRA_2808Sua5/YciO/YrdC/YwlC family protein; COG0009 Putative translation factor (SUA5); Belongs to the SUA5 family. (207 aa)
miaAtRNA 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. (302 aa)
SGRA_2522Putative rhodanese-related sulfurtransferase; COG1054 Predicted sulfurtransferase; Belongs to the UPF0176 family. (408 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. (252 aa)
miaB(dimethylallyl)adenosine tRNA methylthiotransferase; 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. (483 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. (135 aa)
tadACmp/dcmp deaminase zinc-binding protein; Catalyzes the deamination of adenosine to inosine at the wobble position 34 of tRNA(Arg2); Belongs to the cytidine and deoxycytidylate deaminase family. (152 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. (145 aa)
Your Current Organism:
Saprospira grandis
NCBI taxonomy Id: 984262
Other names: S. grandis str. Lewin, Saprospira grandis str. Lewin, Saprospira grandis strain Lewin
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