Protein Info for HMPREF1078_RS02520 in Parabacteroides merdae CL09T00C40

Annotation: NADH-ubiquinone oxidoreductase-F iron-sulfur binding region domain-containing protein

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 50 100 150 200 250 300 350 400 450 500 550 597 PF01512: Complex1_51K" amino acids 159 to 330 (172 residues), 150.5 bits, see alignment E=1.6e-47 PF10531: SLBB" amino acids 354 to 402 (49 residues), 30 bits, see alignment 1.6e-10 PF10589: NADH_4Fe-4S" amino acids 442 to 525 (84 residues), 107.4 bits, see alignment E=1.2e-34 PF13237: Fer4_10" amino acids 543 to 589 (47 residues), 29.7 bits, see alignment 2.4e-10 PF00037: Fer4" amino acids 543 to 565 (23 residues), 32.4 bits, see alignment (E = 2.6e-11) amino acids 573 to 595 (23 residues), 26.4 bits, see alignment (E = 2.1e-09) PF13187: Fer4_9" amino acids 548 to 594 (47 residues), 28 bits, see alignment 8.3e-10 PF12838: Fer4_7" amino acids 548 to 593 (46 residues), 33.9 bits, see alignment 1.6e-11

Best Hits

Swiss-Prot: 68% identical to HNDC_DESFR: NADP-reducing hydrogenase subunit HndC (hndC) from Desulfovibrio fructosivorans

KEGG orthology group: K00335, NADH dehydrogenase I subunit F [EC: 1.6.5.3] (inferred from 92% identity to pdi:BDI_1043)

MetaCyc: 70% identical to NADH-dependent hydrogenase beta subunit (Caldanaerobacter subterraneus tengcongensis)
Hydrogen dehydrogenase. [EC: 1.12.1.2]

Predicted SEED Role

"NAD-reducing hydrogenase subunit HoxF (EC 1.12.1.2)" in subsystem Hydrogenases (EC 1.12.1.2)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.12.1.2, 1.6.5.3

Use Curated BLAST to search for 1.12.1.2 or 1.6.5.3

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 (597 amino acids)

>HMPREF1078_RS02520 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region domain-containing protein (Parabacteroides merdae CL09T00C40)
MAQYNSYILVCGGTGCRASQSELILQNLKEAVERHKLQDIVQVIRTGCFGFCEKGPIVKM
VPDNTFYVQVKPTDAEDIVREHLVKGRKVERLLYVNPETNEQVPDSKHINFYKKQLRIAL
RNCGFINPENIDEYIARDGYVALGRALTEMTPESVIKEIMDSGLRGRGGGGFPTGLKWQI
TRKVKAPQKYVVCNADEGDPGAFMDRSILEGDPHSIVEAMAINGYCTGATKGLVYIRAEY
PLAVERLKIAIRQAKEYGLLGENIFGTDFSFDIEIRYGAGAFVCGEETALIHSMEGLRGE
ATVKPPFPSEQGYKGCPTNVNNVETYANVPVILLKGAEWFSSIGTEKSKGTKVFALAGKV
NNVGLIEVPMGTTLREVIFGIGGGIKDGKKFKAVQTGGPSGGCLTEKHLDLPIDYDNLLA
AGSMMGSGGMIVMDEDDCMVAMAKFYLDFTVEESCGKCAPCRIGNKRLHEMLQKITSGNG
TIEDLERLRNLAGVIKDTALCGLGQTSPNPVLSTMDNFYDEYLAHVKEKRCPSHQCRELT
QYFINPEKCKGCTLCARMCPVNAITGDKKVPHVIDPQTCIRCGSCIERCKFGAIYVH