Protein Info for Shew_1764 in Shewanella loihica PV-4

Annotation: nickel-dependent hydrogenase, large subunit (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 50 100 150 200 250 300 350 400 450 500 568 PF27537: HoxH" amino acids 4 to 32 (29 residues), 39.4 bits, see alignment (E = 5.2e-14) PF00374: NiFeSe_Hases" amino acids 40 to 548 (509 residues), 679.6 bits, see alignment E=3.5e-208

Best Hits

Swiss-Prot: 62% identical to MBHL_WOLSU: Quinone-reactive Ni/Fe-hydrogenase large chain (hydB) from Wolinella succinogenes (strain ATCC 29543 / DSM 1740 / LMG 7466 / NCTC 11488 / FDC 602W)

KEGG orthology group: K05922, quinone-reactive Ni/Fe-hydrogenase large subunit [EC: 1.12.5.1] (inferred from 100% identity to slo:Shew_1764)

Predicted SEED Role

"Quinone-reactive Ni/Fe-hydrogenase large chain (EC 1.12.5.1)" in subsystem Hydrogenases (EC 1.12.5.1)

MetaCyc Pathways

Isozymes

Compare fitness of predicted isozymes for: 1.12.5.1

Use Curated BLAST to search for 1.12.5.1

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 A3QDT2 at UniProt or InterPro

Protein Sequence (568 amino acids)

>Shew_1764 nickel-dependent hydrogenase, large subunit (RefSeq) (Shewanella loihica PV-4)
MSKRVVIDPITRIEGHLRIEVEVDENNVVQKAWSSSTLWRGIEVILKGRTPMDVGLIVQR
ICGVCTYSHYRCGTEAVENALGVKIPLNAKYLRSLMQTSLYMHDHIVHFYHLHGLDWVDV
VSALSADPAAAAQVALKYTHNPIAAGEGELRAVQERVKGFVETGKLGPFANAYWGNGTYK
FTPEQNLIALSHYLKALEVQRVAAEMLAIFGGKQPHPQSLVVGGVTSVRDMLSPARLQEW
KQKHAIVADFINRAYKADIVMAAEAFGGEPSVLGGVNVKNFLATNDFVLADGQYMFDQGV
IMNGDLANVTDINPDLIKEDVSHAWYDASEPQHPYEGTTIPNYTGFVERDTVYGKLPTLD
GDGKYSWVKSPRYQGEPVEVGPLSSLLVSYARGNKVVVEAVNGLLEATGLPVEALFTTLG
RTAARMLQTVIVAEQGLKTFDALINNLLVDEATYVKPEIDPSKEYVGHAMIEAPRGMLSH
WIRIKNGLVENYQAVVPTTWNAGPVDAAGKVGPYEASLLGLKLEDPTKPLEVIRIIHSFD
PCMACSVHVMDYKGQDLGEFRIDPNGNN