Protein Info for GFF3719 in Xanthobacter sp. DMC5

Annotation: tRNA-2-methylthio-N(6)-dimethylallyladenosine synthase

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 300 350 400 450 488 TIGR01574: tRNA-i(6)A37 thiotransferase enzyme MiaB" amino acids 32 to 468 (437 residues), 480.3 bits, see alignment E=6.3e-148 PF00919: UPF0004" amino acids 32 to 132 (101 residues), 109.8 bits, see alignment E=8.4e-36 TIGR00089: radical SAM methylthiotransferase, MiaB/RimO family" amino acids 32 to 468 (437 residues), 479 bits, see alignment E=1.3e-147 PF04055: Radical_SAM" amino acids 184 to 357 (174 residues), 95.3 bits, see alignment E=7.3e-31 PF01938: TRAM" amino acids 412 to 468 (57 residues), 36.9 bits, see alignment 4e-13

Best Hits

Swiss-Prot: 90% identical to MIAB_XANP2: tRNA-2-methylthio-N(6)-dimethylallyladenosine synthase (miaB) from Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2)

KEGG orthology group: K06168, bifunctional enzyme involved in thiolation and methylation of tRNA (inferred from 90% identity to xau:Xaut_1810)

MetaCyc: 51% identical to isopentenyl-adenosine A37 tRNA methylthiolase (Escherichia coli K-12 substr. MG1655)
RXN0-5063 [EC: 2.8.4.3]

Predicted SEED Role

"tRNA-i(6)A37 methylthiotransferase" in subsystem Ribosomal protein S12p Asp methylthiotransferase or tRNA processing

Isozymes

No predicted isozymes

Use Curated BLAST to search for 2.8.4.3

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Compare to protein structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

Find the best match in UniProt

Protein Sequence (488 amino acids)

>GFF3719 tRNA-2-methylthio-N(6)-dimethylallyladenosine synthase (Xanthobacter sp. DMC5)
MKGATRAGVTIASRPHAKIDGDRTGDMHEPRKLYVKSFGCQMNVYDSHRMADTLAREGFV
ETQDPAEADLVILNTCHIREKAAEKVYSELGRLRKQKQEAGSDTMIAVAGCVAQAEGAEI
MRRAPVVDVVVGPQSYHRLPELLAEAKAGKRVVDTEFPAEDKFDHLPAPTRAATRSRGPA
AFVTVQEGCDKFCTFCVVPYTRGAEVSRPVTKILDEAARLLDQGVREITLIGQNVNAFHG
EGPDGKVWSLARLMERLAQMKGLARLRYTTSHPRDMGEDLIAAHRDLPQLMPYLHLPVQS
GSDRILAAMNRKHGRDLFLSLIEKMRDARPDLALSSDFIVGFPGETDRDFEDTLDLVREV
GFASAYSFKYSSRPGTPAAEHDAQVAEEVKTERLAELQKLLEASKAAFDAACRGRTFDIL
LEKPGRQPGQLIGRSPYLQSVVVNDPPAGIGELLTVTITDVGPNSLAGVPAEIPLSPALS
RPLAAMEA