Protein Info for Shew_0809 in Shewanella loihica PV-4

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 1000 1100 1200 1300 1410 PF13510: Fer2_4" amino acids 1 to 83 (83 residues), 46.3 bits, see alignment 3.5e-15 PF14691: Fer4_20" amino acids 105 to 182 (78 residues), 67.7 bits, see alignment 7.4e-22 PF07992: Pyr_redox_2" amino acids 201 to 502 (302 residues), 97.5 bits, see alignment E=9.6e-31 PF13450: NAD_binding_8" amino acids 204 to 239 (36 residues), 31.5 bits, see alignment (E = 1.7e-10) PF13738: Pyr_redox_3" amino acids 321 to 486 (166 residues), 32.1 bits, see alignment E=7.2e-11 PF00070: Pyr_redox" amino acids 331 to 406 (76 residues), 31 bits, see alignment 2.9e-10 PF13183: Fer4_8" amino acids 632 to 702 (71 residues), 29.4 bits, see alignment 9e-10 PF12838: Fer4_7" amino acids 633 to 703 (71 residues), 42.6 bits, see alignment 6.3e-14 PF13534: Fer4_17" amino acids 633 to 702 (70 residues), 24 bits, see alignment 4.4e-08 PF00037: Fer4" amino acids 688 to 705 (18 residues), 26.4 bits, see alignment (E = 4.2e-09) PF04879: Molybdop_Fe4S4" amino acids 719 to 774 (56 residues), 60 bits, see alignment (E = 1.7e-19) TIGR01591: formate dehydrogenase, alpha subunit" amino acids 723 to 1400 (678 residues), 797.9 bits, see alignment E=3.2e-244 PF00384: Molybdopterin" amino acids 777 to 1203 (427 residues), 269.4 bits, see alignment E=4.5e-83 PF01568: Molydop_binding" amino acids 1292 to 1397 (106 residues), 91.8 bits, see alignment 2.7e-29

Best Hits

KEGG orthology group: K00123, formate dehydrogenase, alpha subunit [EC: 1.2.1.2] (inferred from 68% identity to sbl:Sbal_0871)

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)

Search 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 A3QB33 at UniProt or InterPro

Protein Sequence (1410 amino acids)

>Shew_0809 formate dehydrogenase, alpha subunit (RefSeq) (Shewanella loihica PV-4)
MIELTFDGQVVKANRGEDLLTCAKAAGIAIPNLCHLGKQLDDKLAGKQDCNLCYVEVRDE
KGDFHTVKACKTQVEAQLEVITHSAALSKRRQAALKHLLSDHFADCEAPCQQACPAGVDV
QSYLLHIAQGNHKEAVKVIKQTLPLPLSIGRVCPAFCESACRRGELDEPLAIRQLKRHAA
DLDLGSEDTYVPPKAPATGKRVAIIGSGPAGISAGYYLSNSGHEVTIFESMPKAGGWLRY
GIPEYRLPKQILDREIDLLCQNGLVIQTDTRLGRDIHLKELVNQFDAVCLAIGAQKAVPM
NYPGVDLEGCYLGVDYLKDHCTDNNYHTGQKVAVIGGGNTAIDCARTALRKGAEVTLAYR
RTRDEMPAEVYEIEEAEHEGVRFYFLTNPIENHGDANGRINAITFEKMRLGEPDASGRRS
PQTTGETFTEAFDTVIPAVSQTPDMTFLEHPESQLSTGEVALTRWNTFSGCEHTMSSGVE
KLFVLGDSRTGPATAVAAVADGRKAANAIEKLLSGELSCELTPAPFNSQKQDEQKPDSRH
FPARLLQAKAKMPELAINKRLDNFDEIELGFNDEEAMLEAARCLECGCQANTECALRDYA
TEYRVDGAALDKQGHRAFTQDASTPFINFDPNRCISCGACVAMCRQQSGHQAISFEPDSY
LALPQEMAATHSRQAPRAGFSATMADSQCVQCGNCVQVCPTGALTDARDKRQGVKHELKQ
TSTVCTYCGVGCRVIIHSDPVTGEIKRVSGDSRSQVNEGMLCVKGRFGFDFINSQQRLTQ
PLLRKDGELVPVSWNEAIDYIGTELGRIKAEHGGDAIAGLASAKATNEDNYLFQKLFRSV
IGTNNIDHCARLCHASTVTALQESLGSGAMTNDIPSIKSSDLIFILGSDTEAAHPIIASK
IKQAVSQHGARLVVADPKRVSIADSAELYVRHRPGSDVMLLNAIMQEIIKQGWHDEDYID
RRVEGFDALRTEVMKDDYSLDNAAKITGVGEEEIAQLARMIGTAEKTAIYYAMGITQHTS
GHDNVTAIANLQLLCGNIGIEGAGINPLRGQSNVQGACDMGALPNYFTGYQKVTDPEVQA
AFRQAWQQEWLPDQIGLAATEMMHALAHGRLKALYVMGENPVLSDPDQAHVMQGLESAEL
LIVQDIFMTETAQLADVVLPAASFAEKPGHFTNTERRVQRLQAAIDSPGLARRDWQIITD
IAKALGADWHYEDEASIWQELTRVTPQYRGIQWQDTDPSTPKGLLGKQWPCPEPGHEGTR
LMHKERFTRGLGKMTPVGYRLPAELPCEDYPFTLSTGRLLEQFHTGTLTRKTDGLNTLGS
PRVMMSAIDADRLGVNNGDVLTLSTRRGSINIAAFVTRRAQPGVLFLPFHFAEAAANKLT
NNVLDPVAKIPEFKICAVRVEKASEAICWS