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KKB00301.1 KKB00301.1 dusA dusA truD truD rnc rnc queH queH tcdA tcdA tmcA tmcA cmoA_2 cmoA_2 truB truB KKA99215.1 KKA99215.1 tsaB tsaB rnd rnd truA truA ychN ychN KKA99144.1 KKA99144.1 thiI thiI TusE TusE yciO yciO miaB miaB rnt rnt tgt tgt tsaE tsaE miaA miaA mnmC mnmC tilS tilS cmoB cmoB tadA tadA KKA99538.1 KKA99538.1 tsaA tsaA KKA99934.1 KKA99934.1 trmB trmB rne rne dus_3 dus_3 tusD tusD tusC tusC KKA99812.1 KKA99812.1 trmE trmE rlmN rlmN rnpA rnpA tsaD tsaD rimO rimO mnmA mnmA dusC dusC rph rph KKB00335.1 KKB00335.1 trmL trmL gidA gidA rimN rimN tusA tusA fmt fmt trmD trmD KKB00297.1 KKB00297.1 trmA trmA
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Network nodes represent proteins
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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colored nodes:
query proteins and first shell of interactors
white nodes:
second shell of interactors
Node Content
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
Others
textmining
co-expression
protein homology
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KKB00301.1tRNA (adenine-N6)-methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (237 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. (332 aa)
truDtRNA pseudouridine synthase D; Responsible for synthesis of pseudouridine from uracil-13 in transfer RNAs; Belongs to the pseudouridine synthase TruD family. (335 aa)
rncDouble-stranded RNA-binding protein; 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. (227 aa)
queHHypothetical 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). (247 aa)
tcdASulfur acceptor protein CsdL; Accepts sulfur from CsdA; Derived by automated computational analysis using gene prediction method: Protein Homology. (257 aa)
tmcAHypothetical protein; Catalyzes the formation of N(4)-acetylcytidine (ac(4)C) at the wobble position of tRNA(Met), by using acetyl-CoA as an acetyl donor and ATP (or GTP). (646 aa)
cmoA_2tRNA methyltransferase; Catalyzes the conversion of S-adenosyl-L-methionine (SAM) to carboxy-S-adenosyl-L-methionine (Cx-SAM). (241 aa)
truBPseudouridine 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. (306 aa)
KKA99215.1CCA-adding protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (425 aa)
tsaBHypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (236 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. (384 aa)
truAtRNA pseudouridine synthase A; Formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer RNAs. (272 aa)
ychNHypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (118 aa)
KKA99144.1tRNA 2-thiocytidine biosynthesis protein TtcA; Derived by automated computational analysis using gene prediction method: Protein Homology. (316 aa)
thiItRNA s(4)U8 sulfurtransferase; 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. (482 aa)
TusETransfers sulfur from TusBCD complex to MnmA; involved in thiouridation of U34 position of some tRNAs; Derived by automated computational analysis using gene prediction method: Protein Homology. (110 aa)
yciOHypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the SUA5 family. (207 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. (474 aa)
rntRibonuclease 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. (215 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 [...] (391 aa)
tsaEATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (158 aa)
miaAtRNA dimethylallyltransferase; 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)
mnmCFAD-dependent cmnm(5)s(2)U34 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 C-terminal section; belongs to the DAO family. (677 aa)
tilStRNA(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. (430 aa)
cmoBtRNA (mo5U34)-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. (321 aa)
tadAtRNA-specific 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. (161 aa)
KKA99538.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (242 aa)
tsaAHypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (237 aa)
KKA99934.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (279 aa)
trmBtRNA (guanine-N7)-methyltransferase; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. (250 aa)
rneRibonuclease 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. (936 aa)
dus_3tRNA-dihydrouridine synthase B; 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. (332 aa)
tusDSulfur transfer complex subunit TusD; In Escherichai coli the heterohexameric TusBCD complex is involved in sulfur related that results in thiouridation to U34 position in some tRNAs; Derived by automated computational analysis using gene prediction method: Protein Homology. (126 aa)
tusCSulfur relay protein TusC; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the DsrF/TusC family. (120 aa)
KKA99812.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (108 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. (452 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. 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. (389 aa)
rnpARibonuclease P; 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. (119 aa)
tsaDtRNA threonylcarbamoyladenosine biosynthesis protein 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. (344 aa)
rimORibosomal protein S12 methylthiotransferase; Catalyzes the methylthiolation of an aspartic acid residue of ribosomal protein S12; Belongs to the methylthiotransferase family. RimO subfamily. (443 aa)
mnmAtRNA 2-thiouridylase; Catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34. (383 aa)
dusCtRNA-dihydrouridine synthase C; 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. (312 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. (239 aa)
KKB00335.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (287 aa)
trmLrRNA methylase; 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. (153 aa)
gidAtRNA uridine 5-carboxymethylaminomethyl modification protein; 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)
rimNtRNA threonylcarbamoyladenosine biosynthesis protein RimN; 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. (187 aa)
tusASulfurtransferase; Sulfur carrier protein which probably makes part of a sulfur- relay system; Belongs to the sulfur carrier protein TusA family. (79 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. (319 aa)
trmDtRNA (guanine-N1)-methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family. (250 aa)
KKB00297.1tRNA (cytidine/uridine-2'-O-)-methyltransferase; Catalyzes the fromation of 2'O-methylated cytidine or 2'O-methylated uridine at position 32 in tRNA; Derived by automated computational analysis using gene prediction method: Protein Homology. (249 aa)
trmAtRNA (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). (363 aa)
Your Current Organism:
Avibacterium paragallinarum
NCBI taxonomy Id: 728
Other names: A. paragallinarum, ATCC 29545, CCUG 12835, CIP 103453, DSM 18554, Haemophilus gallinarum, Haemophilus paragallinarum, NCTC 11296
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