Protein Info for TX73_004955 in Rhodopseudomonas palustris CGA009

Annotation: hydrogenase small 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 50 100 150 200 250 300 370 TIGR00391: hydrogenase (NiFe) small subunit (hydA)" amino acids 6 to 354 (349 residues), 553.2 bits, see alignment E=2.8e-170 TIGR01409: Tat (twin-arginine translocation) pathway signal sequence" amino acids 17 to 46 (30 residues), 21.8 bits, see alignment (E = 1.8e-08) PF01058: Oxidored_q6" amino acids 63 to 208 (146 residues), 93.8 bits, see alignment E=7.3e-31 PF14720: NiFe_hyd_SSU_C" amino acids 228 to 309 (82 residues), 111.8 bits, see alignment E=1.7e-36

Best Hits

Swiss-Prot: 86% identical to MBHS_BRADU: Uptake hydrogenase small subunit (hupA) from Bradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)

KEGG orthology group: K06282, hydrogenase small subunit [EC: 1.12.99.6] (inferred from 100% identity to rpt:Rpal_1154)

MetaCyc: 79% identical to hydrogenase small subunit (Cupriavidus necator)
Hydrogenase (acceptor). [EC: 1.12.99.6]

Predicted SEED Role

"Uptake hydrogenase small subunit precursor (EC 1.12.99.6)" in subsystem Hydrogenases or Membrane-bound Ni, Fe-hydrogenase (EC 1.12.99.6)

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 (370 amino acids)

>TX73_004955 hydrogenase small subunit (Rhodopseudomonas palustris CGA009)
MGAVTETFYEVIRRQGITRRSFVKFCSLTATSLGLGPIGATQIAHALETKPRVPVIWMHG
LECTCCSESFIRSAHPLVKDAVLSMISLDYDDTIMAAAGHQADAILEETRKKYKGQYVLA
VEGNPPLNEDGMFCIDGGRPFVEKLKEMAEDSMAVIAWGSCASWGCVQAAKPNPTNATPI
DKVIRNKPVIKVPGCPPIAEVMTGVVSYIITFGRLPELDRQGRPKMFYSQRIHDKCYRRP
HFDAGQFVEEWDDDGARKGYCLYKMGCKGPTTYNACSTVRWNGGVSFPIQSGHGCIGCSE
DAFWDKGSFYDRLTTINQFGIEANADKIGATVAGVVGTAIAAHAAVTTVRNLSRRKEVPN
GNGTSNGKSA