Protein Info for GFF3415 in Pseudomonas sp. DMC3

Annotation: Cation efflux system protein CusB

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 50 100 150 200 250 300 350 400 450 493 transmembrane" amino acids 7 to 26 (20 residues), see Phobius details PF19335: HMBD" amino acids 52 to 78 (27 residues), 40.7 bits, see alignment (E = 6.2e-14) PF16576: HlyD_D23" amino acids 113 to 320 (208 residues), 234.3 bits, see alignment E=3.4e-73 PF16572: HlyD_D4" amino acids 158 to 210 (53 residues), 80.3 bits, see alignment 2.6e-26 TIGR01730: efflux transporter, RND family, MFP subunit" amino acids 210 to 396 (187 residues), 130.6 bits, see alignment E=3.2e-42 PF13533: Biotin_lipoyl_2" amino acids 215 to 246 (32 residues), 24 bits, see alignment (E = 8.9e-09) PF13437: HlyD_3" amino acids 216 to 317 (102 residues), 65.6 bits, see alignment E=2.2e-21 PF11604: CusF_Ec" amino acids 420 to 487 (68 residues), 79 bits, see alignment E=6.9e-26

Best Hits

KEGG orthology group: K07798, Cu(I)/Ag(I) efflux system membrane protein CusB (inferred from 78% identity to pfo:Pfl01_2395)

Predicted SEED Role

"Cobalt/zinc/cadmium efflux RND transporter, membrane fusion protein, CzcB family" in subsystem Cobalt-zinc-cadmium resistance

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

Find the best match in UniProt

Protein Sequence (493 amino acids)

>GFF3415 Cation efflux system protein CusB (Pseudomonas sp. DMC3)
VNLKWNGVLLVGISLAFGIAGGYWFAQQRMNGVASSAQEQSLDSPDERKALYWYDPMYPQ
QKFDKPGKSPFMDMQLVPQYAGGAGDRATVSIDPSLTQNLGVRFTTVTRGIFDSSLDVTG
VLGFNERDVAVIQARTTGFVERVYAHAPGDVLKANAALADILVPEWAAAQTEFLALKRNG
DADLLSAARQRLRLTGMPAALIAQVERGGKVQPYLTLTSPIGGVLQELNVRAGMTVATGD
TLARVNGLSSVWLAVAVPESDAGSITVGQAVEARLPAFPGTMLSGKVSAILPETNPDSRT
LRVRVELPNPDGRLRPGLTAQVRLNRSTGQSVLWVPSEAVIRTGRRALVMLAEDAGRYRP
VEVHLGQESDGKTAIVKGLEEGQKVVTSGQFLLDSEASLKGIVASSEEESLPSAATSSFH
EADGQIVEINDKEVTLAHGPFKTLGMPGMTMTFPLANPALMQGLKTGDKVRVAVSQTDDG
LRVERLDKSGSQP