Protein Info for MMP_RS00800 in Methanococcus maripaludis S2
Annotation: Coenzyme F420 hydrogenase/dehydrogenase beta subunit C-terminal domain
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: 68% identical to FDHB_METJA: Formate dehydrogenase subunit beta (fdhB) from Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)
KEGG orthology group: K00125, formate dehydrogenase, beta subunit [EC: 1.2.1.2] (inferred from 100% identity to mmp:MMP0139)MetaCyc: 63% identical to formate dehydrogenase beta subunit (Methanococcus maripaludis)
RXN-18529 [EC: 1.8.98.6]; 1.2.1.2-RXN [EC: 1.8.98.6, 1.17.1.9]
Predicted SEED Role
"Formate dehydrogenase beta subunit (EC 1.2.1.2)" in subsystem Formate dehydrogenase (EC 1.2.1.2)
MetaCyc Pathways
- coenzyme B/coenzyme M regeneration V (formate-dependent) (1/1 steps found)
- formate oxidation to CO2 (1/1 steps found)
- oxalate degradation VI (1/4 steps found)
- oxalate degradation III (1/5 steps found)
- superpathway of C1 compounds oxidation to CO2 (3/12 steps found)
- purine nucleobases degradation I (anaerobic) (2/15 steps found)
- purine nucleobases degradation II (anaerobic) (5/24 steps found)
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 or 1.8.98.6
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 (archaea)
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 F1SVF6 at UniProt or InterPro
Protein Sequence (375 amino acids)
>MMP_RS00800 Coenzyme F420 hydrogenase/dehydrogenase beta subunit C-terminal domain (Methanococcus maripaludis S2) MSYYLVQSTDEDILKHAECGGAVTAFFKYLLDKKLVDGVLALKKGEDVYDGLPYLVNDSK ELVETCGSLHCAPTMFGNMISKHLKDMNLAVSVKPCDAMAIVELEKRHQIDKDKLYTIGL NCGGTVPPQTAKKMIELFYDVDPEDVIKEEIDKGKFIIELKDGSEKSVKIDELEEEGYGR RTNCQRCELKVPRNSDLACGNWGTEKGWTFVEVGSEKGEELLKNAQKEGYINVKAPSEKA LEIRGKIEKSMINLGKKFQKEQLDEKYPEPEKWDEYWSRCIKCYGCRDVCPICFCKECAL GEDYLDKGTIPPDPIMFQGIRLSHMSFSCINCGQCEDVCPVEIPLAKIYHRAQLKIRETT GFVPGIDDSMPFLYK