Protein Info for GFF2439 in Methylophilus sp. DMC18

Annotation: Putative formate dehydrogenase

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 900 963 PF13510: Fer2_4" amino acids 32 to 107 (76 residues), 81.1 bits, see alignment E=2.2e-26 PF10588: NADH-G_4Fe-4S_3" amino acids 114 to 153 (40 residues), 60.3 bits, see alignment (E = 4.7e-20) PF22117: Fer4_Nqo3" amino acids 175 to 237 (63 residues), 29.2 bits, see alignment 3.9e-10 PF13237: Fer4_10" amino acids 175 to 233 (59 residues), 25.7 bits, see alignment 4.1e-09 PF12838: Fer4_7" amino acids 179 to 235 (57 residues), 34.6 bits, see alignment 9.8e-12 PF00037: Fer4" amino acids 219 to 235 (17 residues), 24.4 bits, see alignment (E = 8.6e-09) PF04879: Molybdop_Fe4S4" amino acids 250 to 301 (52 residues), 58.1 bits, see alignment 3e-19 TIGR01591: formate dehydrogenase, alpha subunit" amino acids 254 to 930 (677 residues), 921.4 bits, see alignment E=1.3e-281 PF00384: Molybdopterin" amino acids 306 to 737 (432 residues), 243.4 bits, see alignment E=1.7e-75 PF01568: Molydop_binding" amino acids 822 to 927 (106 residues), 106.7 bits, see alignment E=3.1e-34

Best Hits

KEGG orthology group: K00123, formate dehydrogenase, alpha subunit [EC: 1.2.1.2] (inferred from 74% identity to axy:AXYL_05191)

Predicted SEED Role

"NAD-dependent formate dehydrogenase alpha subunit" in subsystem Formate hydrogenase

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.2.1.2

Use Curated BLAST to search for 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

Find the best match in UniProt

Protein Sequence (963 amino acids)

>GFF2439 Putative formate dehydrogenase (Methylophilus sp. DMC18)
MDDIKYSSSQPQSLKYDPDKDYGTPKSDSAVMVTLNIDGVDVTVPEGSSIMHAAQLGGVT
VPKLCATDSLEPFGSCRLCLVEIEGRRGYPASCTTPVAPGLKVKTQTPKLADVRRGVMEL
YISDHPLDCLTCGANGDCELQDMAGAVGLREVRYGYEGENHLGQAKDESNPYFTFDPSKC
IVCSRCVRACEETQGTFALTIQGRGFDSKVSAGNKDFLESECVSCGACVQACPTATLMEK
TVIEAGTPEHKVTTTCAYCGVGCSFDAEMKGEQVVRMTPSKAGGANHGHSCVKGRFAWGY
ATHADRITTPMIRKSIHDPWQKVSWDEAINYAASEIQRIQQTYGKEAVGGITSSRCTNEE
VYVTQKLIRAVFGVNNVDTCARVCHSPTGYGLKQTLGESAGTQTFDSVMKSDVIFVMGAN
PTDGHPVFGSMMKRRLREGAKLIIVDPREIDLVANSPHIRADYHLKLRPGTNVAMISAIS
HVIVAEGLVQEDFVKARCEWDSYVAWRDFAAKPENSPEALEKELGVPAKEVREAARLYAT
GGNAAIYYGLGVTEHSQGSTAVMGIANLAMATGNVGREGVGVNPLRGQNNVQGSCDMGSM
PHEFPGYRHVSDDETRAQFEQAWGVKLSADPGLRIPNMLDLAAEGSFKAVYCVGEDIAQS
DPDTQHVTHALENMECVIVQDLFLNETAKFAHVFFPGASFLEKNGTFTNAERRISPVRKV
MTPKNGMEDWEITARFSTALGYPMHYAHASEIMDEIAALTPTFAGVSFKKLDELGSIQWP
CNDEAPEGTPTMHVDAFVRGKGKFFVTQYVPTTERVNQKYPLILTTGRILSQYNVGAQTR
RTQNVVWHHEDVIEIHPHDAEDRGIVEGDWVGITSRAGQTVLRAKITERVQPGVVYTTFH
HPESGANVITTDNSDWATNCPEYKVTAVQVSKVNQLSDWQKQYRSFSDTQIELSGMDPQT
VVS