Protein Info for Shew_2923 in Shewanella loihica PV-4

Annotation: tRNA-i(6)A37 thiotransferase enzyme MiaB (RefSeq)

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 50 100 150 200 250 300 350 400 474 TIGR01574: tRNA-i(6)A37 thiotransferase enzyme MiaB" amino acids 4 to 439 (436 residues), 638.5 bits, see alignment E=6.4e-196 PF00919: UPF0004" amino acids 4 to 104 (101 residues), 105.7 bits, see alignment E=1.7e-34 TIGR00089: radical SAM methylthiotransferase, MiaB/RimO family" amino acids 4 to 437 (434 residues), 504 bits, see alignment E=3.3e-155 PF04055: Radical_SAM" amino acids 151 to 325 (175 residues), 85.8 bits, see alignment E=5.8e-28 PF01938: TRAM" amino acids 378 to 439 (62 residues), 56.1 bits, see alignment E=3.9e-19

Best Hits

Swiss-Prot: 100% identical to MIAB_SHELP: tRNA-2-methylthio-N(6)-dimethylallyladenosine synthase (miaB) from Shewanella loihica (strain ATCC BAA-1088 / PV-4)

KEGG orthology group: K06168, bifunctional enzyme involved in thiolation and methylation of tRNA (inferred from 100% identity to slo:Shew_2923)

MetaCyc: 75% 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

See A3QH41 at UniProt or InterPro

Protein Sequence (474 amino acids)

>Shew_2923 tRNA-i(6)A37 thiotransferase enzyme MiaB (RefSeq) (Shewanella loihica PV-4)
MSKKLHIKTWGCQMNEYDSSKMADLLDEYQGYTLTEEAEEADVLLLNTCSIREKAQEKVF
HQLGRWKTLKDKNPNLIIGVGGCVASQEGKAIKDRAQCVDLIFGPQTLHRLPEMIEQIQQ
GGKAVIDVSFPEIEKFDRLPEPRAEGPSAFVSIMEGCSKYCSFCVVPYTRGEEVSRPVDD
VILEIAQLAEQGVREVNLLGQNVNAYRGATHDDDICTFAELLRYVAAIDGIDRIRFTTSH
PIEFTQDIIDVYEDTPELVSFLHLPVQSGSDLILTQMKRGHMAIEYKSIIRRLRKARPDI
QISSDFIVGFPGESKQDFADTMKLIEDVQFDHSFSFIYSARPGTPASDLPDDVSLDEKKE
RLAILQDRITQQAMRYSRQMLGTVQRILVEGPSVKNPMELRGRTENNRVVNFEADPKHIG
SFVDVEIVDVFTNSLRGKFIRGEDEMDLRRDLRPSDILAKHKKDDDLGVTQFIP