Protein Info for Rru_A1161 in Rhodospirillum rubrum S1H

Annotation: Ni-Fe hydrogenase, small subunit (NCBI)

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 50 100 150 200 250 300 361 transmembrane" amino acids 21 to 41 (21 residues), see Phobius details amino acids 330 to 348 (19 residues), see Phobius details TIGR00391: hydrogenase (NiFe) small subunit (hydA)" amino acids 3 to 356 (354 residues), 537.5 bits, see alignment E=1.6e-165 TIGR01409: Tat (twin-arginine translocation) pathway signal sequence" amino acids 16 to 45 (30 residues), 24.4 bits, see alignment (E = 2.6e-09) PF01058: Oxidored_q6" amino acids 62 to 207 (146 residues), 89.7 bits, see alignment E=1.4e-29 PF14720: NiFe_hyd_SSU_C" amino acids 227 to 308 (82 residues), 106.1 bits, see alignment E=1e-34

Best Hits

Swiss-Prot: 75% identical to MBHS_RHILV: Uptake hydrogenase small subunit (hupA) from Rhizobium leguminosarum bv. viciae

KEGG orthology group: K06282, hydrogenase small subunit [EC: 1.12.99.6] (inferred from 100% identity to rru:Rru_A1161)

MetaCyc: 75% 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)

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 Q2RV83 at UniProt or InterPro

Protein Sequence (361 amino acids)

>Rru_A1161 Ni-Fe hydrogenase, small subunit (NCBI) (Rhodospirillum rubrum S1H)
MGETETFYEVIRRQGISRRGFLKFCGVTAAGLGLGAGGAARIAQALETKPRVPVIWLHGL
ECTCCSESFIRSAHPLVSDVVLSMLSLDYDDTLMAAAGHQAEAILAETRETYRGRYILAV
EGNAPLANDGFFCMPGGRPFVDTLKEMAADSAAVIAWGSCASWGCVQAAKPNPTGAVPID
QVITGKPLIKVPGCPPIAEVMTGVISYLLTFDRFPELDLQGRPKMFYSQRIHDKCYRRGH
FDAGQFVEAFDDDAARRGHCLYKMGCKGPTTYNACSTTGWNEGTSFPIQSGHGCLGCSED
GFWDKGPFYERLSTINQFGIEANADIVGGTAAGVVAAGVAAHAGVTVARRLMSKNENKDK
E