Protein Info for TX73_004965 in Rhodopseudomonas palustris CGA009

Annotation: Ni/Fe-hydrogenase, b-type cytochrome subunit

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 50 100 150 200 242 transmembrane" amino acids 34 to 54 (21 residues), see Phobius details amino acids 75 to 94 (20 residues), see Phobius details amino acids 114 to 130 (17 residues), see Phobius details amino acids 142 to 166 (25 residues), see Phobius details amino acids 196 to 215 (20 residues), see Phobius details TIGR02125: Ni/Fe-hydrogenase, b-type cytochrome subunit" amino acids 26 to 235 (210 residues), 225.7 bits, see alignment E=2.3e-71 PF01292: Ni_hydr_CYTB" amino acids 27 to 232 (206 residues), 110.8 bits, see alignment E=3.4e-36

Best Hits

Swiss-Prot: 66% identical to CYBH_BRADU: Probable Ni/Fe-hydrogenase B-type cytochrome subunit (hupC) from Bradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)

KEGG orthology group: K03620, Ni/Fe-hydrogenase 1 B-type cytochrome subunit (inferred from 100% identity to rpa:RPA0964)

MetaCyc: 53% identical to hydrogenase b-type cytochrome subunit (Cupriavidus necator)
Hydrogenase (acceptor). [EC: 1.12.99.6]

Predicted SEED Role

"Ni,Fe-hydrogenase I cytochrome b subunit" in subsystem Hydrogenases or Membrane-bound Ni, Fe-hydrogenase

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.12.99.6

Use Curated BLAST to search for 1.12.99.6

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

Find the best match in UniProt

Protein Sequence (242 amino acids)

>TX73_004965 Ni/Fe-hydrogenase, b-type cytochrome subunit (Rhodopseudomonas palustris CGA009)
MTTEIARVQGAIDSAGERARSLQTVYVYQAPVRLWHWVNALLIVALCVTGYLIGSPPPSV
PGEASASFQMGYIRFIHFASGQTLIVFFILRAYWAIVGNKYSKQLFYMPITNRTWWWGMI
YEFKWYAFLVRDPKKYIGHNPLAHVAMFTFMLFMIFMMCSGMALYAEGQGIDSWQYKMFG
FMFWIFPNSQDLHTVHHLGMWAIVVFVIVHIYAAVREDILSRQSMISSIISGERLFRDDL
PD