Protein Info for Shew_2880 in Shewanella loihica PV-4

Annotation: Na(+)-translocating NADH-quinone reductase subunit B (RefSeq)

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 50 100 150 200 250 300 350 399 transmembrane" amino acids 57 to 76 (20 residues), see Phobius details amino acids 92 to 104 (13 residues), see Phobius details amino acids 112 to 140 (29 residues), see Phobius details amino acids 154 to 182 (29 residues), see Phobius details amino acids 194 to 211 (18 residues), see Phobius details amino acids 251 to 275 (25 residues), see Phobius details amino acids 283 to 302 (20 residues), see Phobius details amino acids 314 to 332 (19 residues), see Phobius details amino acids 344 to 362 (19 residues), see Phobius details amino acids 368 to 388 (21 residues), see Phobius details TIGR01937: NADH:ubiquinone oxidoreductase, Na(+)-translocating, B subunit" amino acids 3 to 395 (393 residues), 588.9 bits, see alignment E=2.6e-181 PF03116: NQR2_RnfD_RnfE" amino acids 43 to 392 (350 residues), 338.2 bits, see alignment E=2.3e-105

Best Hits

Swiss-Prot: 74% identical to NQRB_PSEA6: Na(+)-translocating NADH-quinone reductase subunit B (nqrB) from Pseudoalteromonas atlantica (strain T6c / ATCC BAA-1087)

KEGG orthology group: K00347, Na+-transporting NADH:ubiquinone oxidoreductase subunit B [EC: 1.6.5.-] (inferred from 100% identity to slo:Shew_2880)

MetaCyc: 67% identical to Na(+)-translocating NADH-quinone reductase subunit B (Vibrio cholerae)
TRANS-RXN-214 [EC: 7.2.1.1]

Predicted SEED Role

"Na(+)-translocating NADH-quinone reductase subunit B (EC 1.6.5.-)" in subsystem Na(+)-translocating NADH-quinone oxidoreductase and rnf-like group of electron transport complexes (EC 1.6.5.-)

Isozymes

Compare fitness of predicted isozymes for: 1.6.5.-

Use Curated BLAST to search for 1.6.5.- or 7.2.1.1

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 A3QGZ8 at UniProt or InterPro

Protein Sequence (399 amino acids)

>Shew_2880 Na(+)-translocating NADH-quinone reductase subunit B (RefSeq) (Shewanella loihica PV-4)
MGLKQFFKSIEPQFEKGGKYEKWYALFEAAYTVFYTPGHVNKGRTHVRDNLDLKRMMITV
WACAFPAMFVGMYNVGLQAQDALLAGFATPDTWQTALFGLFGTELTADSGVAALMWYGAC
WFLPIYAVTFAVGGIWEVLFATVRGHEVNEGFFVTSILFALTLPATIPLWMVALGITFGV
VVAKEIFGGTGRNFLNPALAGRAFLFFAYPLNMSGDTTWVVADGFSGATALSQAAQGTLE
YGFNQAWWDAFLGFIPGSVGEVSTLAILLGGLVIIYTRIASWRIVGGVMVGMIAVSLLLN
AIGSDTNPMFAMPWYWHMVLGGFAFGMMFMATDPVSASFTNQAKWAYGILIGAMAVFIRV
INPAFPEGMMLAILFANLFAPLFDHFVVQANIKRRIARG