Protein Info for AMB_RS08335 in Magnetospirillum magneticum AMB-1

Annotation: nickel-dependent hydrogenase large subunit

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 50 100 150 200 250 300 350 400 450 500 567 PF00374: NiFeSe_Hases" amino acids 39 to 553 (515 residues), 712.2 bits, see alignment E=2.2e-218

Best Hits

Swiss-Prot: 59% identical to MBHM_SHIFL: Hydrogenase-2 large chain (hybC) from Shigella flexneri

KEGG orthology group: K06281, hydrogenase large subunit [EC: 1.12.99.6] (inferred from 100% identity to mag:amb1647)

MetaCyc: 59% identical to hydrogenase 2 large subunit (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"Uptake hydrogenase large subunit (EC 1.12.99.6)" in subsystem Hydrogenases or Membrane-bound Ni, Fe-hydrogenase (EC 1.12.99.6)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.12.99.6

Use Curated BLAST to search for 1.12.99.6

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

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

Search 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 Q2W6S4 at UniProt or InterPro

Protein Sequence (567 amino acids)

>AMB_RS08335 nickel-dependent hydrogenase large subunit (Magnetospirillum magneticum AMB-1)
MSKRITIDPITRIEGHLRIDVEVDGGKVTKAWSSGQMWRGVELILLGRDPRDAWAITQRI
CGVCTTVHAMTSVRAVENALNLEVPVNAQFIRNMIISAHAIHDHIVHFYHLSALDWVDVV
SALKADPVKTAQLAESLSDWPLNGRHVMTQTLEKLKTFVGSGQLGPFTNGYWGHPAMKLS
PEVNLLAVAHYLQALDAQRHANKIVTLLGSKSPHIQNVAVGGVSNPIATDSQSVLTVERL
LALKPHMDALTDFINKVYLVDIAAIGAFYAEWTKYGAGVTNYLSCPDFPMDSKGTQFLVP
GGYIPNADLAQYKPITAFGDAYLRDGVEEGVKHAWYEYSKPGPLHPYKGETKPAYTDFQD
DGKYSWLKAPTFYGKRAQVGPLASVLAGVAAGHQPTIGYATKVLDTASSLLGSKIPLAAL
HSTIGRHAARAVRSGVMAEVMVQNWQALIDNIGKGDTKTFNKPTFPKGEVMGYGFHEAPR
GLLSHWTVIRDGKIANYQCVVPSTWNAGPRDDSDNIGPYEASLMDNPIADAELPLEVLRT
VHSFDPCLACAVHVVEDNKEVVQVKAL