Protein Info for SO3956 in Shewanella oneidensis MR-1

Annotation: carbohydrate isomerase, KpsF/GutQ family (NCBI ptt file)

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 50 100 150 200 250 300 325 PF01380: SIS" amino acids 42 to 173 (132 residues), 106.2 bits, see alignment E=1.1e-34 TIGR00393: sugar isomerase, KpsF/GutQ family" amino acids 46 to 315 (270 residues), 367.3 bits, see alignment E=2.6e-114 PF00571: CBS" amino acids 221 to 258 (38 residues), 22 bits, see alignment 1.7e-08 amino acids 269 to 322 (54 residues), 36 bits, see alignment 7.4e-13

Best Hits

Swiss-Prot: 60% identical to KDSD_YERPE: Arabinose 5-phosphate isomerase KdsD (kdsD) from Yersinia pestis

KEGG orthology group: K06041, arabinose-5-phosphate isomerase [EC: 5.3.1.13] (inferred from 100% identity to son:SO_3956)

MetaCyc: 58% identical to D-arabinose 5-phosphate isomerase KdsD (Escherichia coli K-12 substr. MG1655)
Arabinose-5-phosphate isomerase. [EC: 5.3.1.13]

Predicted SEED Role

"Arabinose 5-phosphate isomerase (EC 5.3.1.13)" in subsystem KDO2-Lipid A biosynthesis (EC 5.3.1.13)

MetaCyc Pathways

Isozymes

No predicted isozymes

Use Curated BLAST to search for 5.3.1.13

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 Q8EAF0 at UniProt or InterPro

Protein Sequence (325 amino acids)

>SO3956 carbohydrate isomerase, KpsF/GutQ family (NCBI ptt file) (Shewanella oneidensis MR-1)
MVDQSQLRQWGCKVIDIEKSALDNLYQYVDSAEFAQACELILNCSGKVIVMGMGKSGHIG
NKISATLASTGTPAFFVHPGEASHGDLGVLSDNDIILAISNSGESSEILALMPVIQRKAI
PVIAMTGKPESTMARLAKIHLCIEVPEEACPLGLAPTSSTTATLVMGDAMAIALLQAKGF
TRDDFAMSHPGGALGRKLLLKVSNVMHCGDDLPLVKHDICITDALYEISKKGLGMTAIID
EQNKLVGIFTDGDLRRVIDAQVNLRTTPIADVMTRNCVTITENVLAAQALQVMDSRNING
LIVIDKENHPVGALNMLDMVKAGVI