Protein Info for DvMF_1217 in Desulfovibrio vulgaris Miyazaki F

Annotation: formate dehydrogenase, alpha 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

1 100 200 300 400 500 600 700 800 900 1008 signal peptide" amino acids 1 to 36 (36 residues), see Phobius details TIGR01553: formate dehydrogenase-N alpha subunit" amino acids 3 to 1004 (1002 residues), 1473.1 bits, see alignment E=0 TIGR01409: Tat (twin-arginine translocation) pathway signal sequence" amino acids 3 to 35 (33 residues), 17.8 bits, see alignment (E = 3.2e-07) PF04879: Molybdop_Fe4S4" amino acids 44 to 97 (54 residues), 58.9 bits, see alignment 6e-20 PF00384: Molybdopterin" amino acids 106 to 290 (185 residues), 59.3 bits, see alignment E=5.3e-20 amino acids 365 to 582 (218 residues), 29.2 bits, see alignment E=7.6e-11 PF01568: Molydop_binding" amino acids 881 to 998 (118 residues), 65.3 bits, see alignment E=7.4e-22

Best Hits

Swiss-Prot: 53% identical to FDNGA_DESVH: Formate dehydrogenase 2 subunit alpha (cytochrome c-553) (fdnG-3) from Desulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / DSM 644 / NCIMB 8303)

KEGG orthology group: K00123, formate dehydrogenase, alpha subunit [EC: 1.2.1.2] (inferred from 100% identity to dvm:DvMF_1217)

MetaCyc: 87% identical to formate dehydrogenase 1 alpha subunit (Desulfovibrio vulgaris)
1.2.1.2-RXN [EC: 1.17.1.9]

Predicted SEED Role

"Formate dehydrogenase O alpha subunit (EC 1.2.1.2) @ selenocysteine-containing" (EC 1.2.1.2)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.2.1.2

Use Curated BLAST to search for 1.17.1.9 or 1.2.1.2

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 B8DLA6 at UniProt or InterPro

Protein Sequence (1008 amino acids)

>DvMF_1217 formate dehydrogenase, alpha subunit (RefSeq) (Desulfovibrio vulgaris Miyazaki F)
MTVNRRQFLKLSAGATLASAFGGLGISLAPSVARAELQKLQWAKQTTSVCCYCAVGCGLI
VHTAKNGEGRAVNVEGDPDHPINEGSLCPKGASIFQLGENNARSPKPLYRGPNSGEWKEV
EWDWALTEIAKRVKKTRDESFQLANAAGEKVNRTEAIASFGSAAMDNEECWAYQVILRSL
GLVFIEHQARIUHSPTVPALAESFGRGAMTNHWNDLANSDCVLIMGSNAAENHPISFKWV
LRAQDKGATLIHVDPRFTRTSAKCDIYAPIRSGADIPFLGGLIKYILENKLYFEEYVREY
TNASLIVGEKFSFKDGLFSGYDADKRKYDKSQWAFELDENGVPRRDPSLKHPRCVFNLMK
KHYERYTVDKVADITGTPKDLILKVYKAYAATGKPDKAGTIMYAMGWTQHSVGVQNIRAM
AMIQLLLGNIGVAGGGVNALRGESNVQGSTDQGLLAHIWPAYNPAPNSKQTTLDAYNAAT
PQSKDPMSVNWWQNRPKYVASYLKALYPDLAPADAYDIMPRLDASKPATYYFWLNIFDKM
DKGDVKGCFAWGMNPACGGANANKNRRALGKLDWLVNVNIFENETSSFWKGPGMKPEEIG
TEVFFLPCAVSIEKEGSVANSGRWMQWRYRGPKPWGQTKPDGDIMLEMMHKIRDLYAKEG
GVHADPILKLNIKDWEEHNEFSPAKTAKLMNGYFLKDTEVGGKQFKAGQQVPSFAFLTAD
GSTCSGNWLHAGSFTDAGNMMARRDTAQTPEQARIGLFPNWSFCWPVNRRIIYNRASVDK
TGKPWNPAKAVIEWKDGKWVGDVVDGGGDPGTKHPFIMQTHGFGALYGPGREEGPFPEHY
EPLECPVSKNPFSKQLHNPVAFKIEGEKAAVCDPKFPFIGTTYRVTEHWQTGLMTRRCAW
LVEAEPEIFAEVSKELAKLRGIKNGDRVKVSSLRGSLEAVAIVTERIKPYKVMGAEIHMV
GLPWHYGWMVPRNGGDTANLLTPSAGDPNTGIPETKAFMVDIRKVGGK