Protein Info for GFF396 in Sphingobium sp. HT1-2

Annotation: Biopolymer transport protein ExbD/TolR

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 50 100 145 transmembrane" amino acids 23 to 43 (21 residues), see Phobius details PF02472: ExbD" amino acids 17 to 137 (121 residues), 71.2 bits, see alignment E=4.5e-24

Best Hits

Swiss-Prot: 39% identical to EXBD2_XANCP: Biopolymer transport protein exbD2 (exbD2) from Xanthomonas campestris pv. campestris (strain ATCC 33913 / DSM 3586 / NCPPB 528 / LMG 568 / P 25)

KEGG orthology group: K03559, biopolymer transport protein ExbD (inferred from 70% identity to sch:Sphch_1592)

Predicted SEED Role

"Biopolymer transport protein ExbD/TolR" in subsystem Ton and Tol transport systems

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 (145 amino acids)

>GFF396 Biopolymer transport protein ExbD/TolR (Sphingobium sp. HT1-2)
MALSFAKSRGAQDDAPMGEMNTTPLIDVMLVLLIMFIITIPIQTHSVGINLPQAPVDTSL
PQPDPIKNKVTIDASGVVRWNGMAVDALTLRRYLAQTLAMPVEPELQFQPDAAARYLVVD
QTLADIRRSGVTKLGFVGNERYGQF