Protein Info for DVU2526 in Desulfovibrio vulgaris Hildenborough JW710

Name: hynA-2
Annotation: periplasmic [NiFe] hydrogenase, large subunit, isozyme 2 (TIGR)

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

Best Hits

Swiss-Prot: 54% identical to PHNL_DESVM: Periplasmic [NiFe] hydrogenase large subunit (hydB) from Desulfovibrio vulgaris (strain Miyazaki F / DSM 19637)

KEGG orthology group: K00533, ferredoxin hydrogenase large subunit [EC: 1.12.7.2] (inferred from 100% identity to dvu:DVU2526)

MetaCyc: 54% identical to periplasmic [NiFe] hydrogenase 1 large subunit (Desulfovibrio vulgaris)
Cytochrome-c3 hydrogenase. [EC: 1.12.2.1]

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

lactate fermentation to acetate, CO₂ and hydrogen (Desulfovibrionales) (7/8 steps found)
superpathway of fermentation (Chlamydomonas reinhardtii) (7/9 steps found)
hydrogen oxidation I (aerobic) (1/1 steps found)
hydrogen production III (1/1 steps found)
hydrogen production VIII (1/1 steps found)
hydrogen production VI (1/2 steps found)
superpathway of hydrogen production (1/2 steps found)
superpathway of photosynthetic hydrogen production (2/6 steps found)
L-glutamate degradation VII (to butanoate) (4/12 steps found)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.12.7.2, 1.12.99.6

Use Curated BLAST to search for 1.12.2.1 or 1.12.7.2 or 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)

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 Q728S7 at UniProt or InterPro

Protein Sequence (549 amino acids)

>DVU2526 periplasmic [NiFe] hydrogenase, large subunit, isozyme 2 (TIGR) (Desulfovibrio vulgaris Hildenborough JW710)
MTAKAFTGPITIDPITRIEGHLKIDVDVKDGKVANAWSSAQLFRGIEMIVQGRPPEDVHH
YVQRVCGVCTTTHALTSIRAVENAIGLKPPPAAELVRLLILSTLDVHDHLVHFYHLHSLD
FFDMADALKADAVAAAKLASEVSGRETQPGDFFIVQGRLKKFVEGGQLGWLNHAYSLGGH
PAYRLSPEENLILATNYLEALKVQMKIARAMAIFSGKNPHAQTMQVGGVTCYESLRPERI
AEFRALYEDTRAFINHNYVGDLTILGKRYPEVATYGRTTNFMDFSDFFDPETGKAPFFRG
GVMWARDFKKVEEVNPEQIVEHVAHSWYVKGAPKPPYDGVTAPDYTGYDQNDRYSWAKAP
RYRGEPVETGPLARRMLAYARGEQETVRRMDAWLAACGLNKENMFSTMGRTAARMVECVV
LMNRIEGWLNDLEARIKAGPVEIFKPWKMPDKAKGVGFCAVTRGGLSHWIRIEGGKTANY
QMVVPSTWNLGPRCEAGKPSPVEESLMGNPVLDAERPVEVLRTVHSFDPCLACAVHLIHA
GDRQVIRVL