Protein Info for SO0988 in Shewanella oneidensis MR-1

Annotation: formate dehydrogenase, alpha subunit (NCBI ptt file)

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 1000 1100 1200 1300 1428 PF13510: Fer2_4" amino acids 1 to 88 (88 residues), 43.8 bits, see alignment 1.6e-14 PF14691: Fer4_20" amino acids 109 to 188 (80 residues), 66.9 bits, see alignment 9.8e-22 PF07992: Pyr_redox_2" amino acids 208 to 509 (302 residues), 93 bits, see alignment E=1.7e-29 PF13450: NAD_binding_8" amino acids 211 to 246 (36 residues), 31.5 bits, see alignment (E = 1.2e-10) PF13738: Pyr_redox_3" amino acids 336 to 493 (158 residues), 32.4 bits, see alignment E=4.3e-11 PF00070: Pyr_redox" amino acids 338 to 413 (76 residues), 40.3 bits, see alignment 2.7e-13 PF00037: Fer4" amino acids 644 to 662 (19 residues), 22 bits, see alignment (E = 7.7e-08) amino acids 704 to 721 (18 residues), 25.5 bits, see alignment (E = 5.9e-09) PF12838: Fer4_7" amino acids 650 to 720 (71 residues), 39.2 bits, see alignment 5.4e-13 PF04879: Molybdop_Fe4S4" amino acids 737 to 790 (54 residues), 58.6 bits, see alignment (E = 3.4e-19) TIGR01591: formate dehydrogenase, alpha subunit" amino acids 740 to 1417 (678 residues), 790.8 bits, see alignment E=4.6e-242 PF00384: Molybdopterin" amino acids 794 to 1219 (426 residues), 257.1 bits, see alignment E=1.7e-79 PF01568: Molydop_binding" amino acids 1309 to 1414 (106 residues), 89 bits, see alignment 1.5e-28

Best Hits

KEGG orthology group: K00123, formate dehydrogenase, alpha subunit [EC: 1.2.1.2] (inferred from 100% identity to son:SO_0988)

Predicted SEED Role

"Formate dehydrogenase-O, major subunit (EC 1.2.1.2)" in subsystem Formate hydrogenase (EC 1.2.1.2)

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

See Q8EI61 at UniProt or InterPro

Protein Sequence (1428 amino acids)

>SO0988 formate dehydrogenase, alpha subunit (NCBI ptt file) (Shewanella oneidensis MR-1)
MIELRIDNKIVSAEPSDNLLHAARKAGIAIPSLCDPTDASRQLDTQAHAEKQDCNLCLVQ
IENSDASLRCVKACETPAQTGMKVITQSAFLTKQRQAALNAILSDHFADCEAPCQQACPA
GVDVQRYLYHIAQGDHTQAVKVIKETLPLPLSIGRVCPAFCETECRRGLIDDPIAIRQLK
RHAADLDLADDEHGNSYQPPRLADTGKKIAIIGSGPAGLSAGYYLSNQGHNIEIFEAMPK
AGGWLRYGIPEYRLPKAILDKEIELLCRNGLTIHTQMRLGHEIHLNQLITDFDAVCLAIG
AQKAVPMHYKGSELAGCYLGVDFLKDHCLDKQLKLGKKVAVIGGGNTAIDCARTAVREGC
DVTLIYRRTRAEMPAEAYEVHEAEVEGVKFHFLTNPLENHSDADGRVQSVTFSKMTLGEA
DASGRRAPVDTGETFTEAFDTVIAAVSQAPDLSFMQDPKGQLSHGELALSRWNTLMGCEQ
TMSSGVEKLFVMGDARRGPATAVAAIGDGRKAAKAIDKMLQIGLSCDLHAHEFNSVKTIP
GSLKQAEVKSAEASSPLYPHTKRQPRLKMPELTALQRLLNYSEVELGFPADAAMQEAARC
LECACQANTDCKLRDYATDYGVESKSLATENARYFSVDKSSPFIQFDANRCISCGKCVDV
CQQQSGHCAIQFAKDSYQVLPQSISPADERRAPRVGFSASMADSHCVQCGNCVQVCPTGA
LVDARDKRQGDCTELTTASTICTYCGVGCRLDLKIDPSTNRIRHIEGNKDSVVNQGMLCV
KGRFGFDFIHSDKRLTTPLIRKNGKLQPCSWPEAIDYVAKRLTEIKQKDGSNAFASLASA
KATNEDNFVLQKFVRSVLGTNNIDHCARLCHSSTVTGLQQSIGSGAMTNDILSIKDSDVI
FILGSDTTCAHPIIASKIQQAVNLYGARLIVADPKRVGIAEKAELYVAHRPGTDVMLLNA
IMAEIIRNNWQDKDYIAKRTEGIEALYAELAKEDYSLEKAALITGVKAENIARIARTIGT
AQKTAVYYAMGITQHTTGHDNVTAISNLQLLCGNIGVSGAGINPLRGQSNVQGACDMGAL
PNYFTGYQKVTDIHARMRFESHWQTPLSGEIGVTATHMMHDIAKGKINALYVMGENPVLS
DPDQAHVLNALSQIEFLVVQDIFLTETAELAHVVLPAAAFVEKRGHFTNTERRVQRLEQA
LASPGEALPDWQIVQAIANAMGANWDYKDEAAIWAEINALTPQYRGILWERLTAGEDGQI
PQGIQWPCPDEKHPGTPIMHQGQFTRGLGLFTPVSYRLPAEMPCNEYPLTLSTGRLLEQF
HTGTLTRKTPGLDLLGAPKVMISVYDAEQLGINNGDKIRLTTRRGEIEIDAFVTKRAQAG
VLFLPFHFVEAAANKLTINALDPVAYIPEYKVCAVRVEKVTKQMCEPT