Protein Info for GFF4755 in Xanthobacter sp. DMC5

Annotation: Inner membrane ABC transporter permease protein YdcV

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 50 100 150 200 267 transmembrane" amino acids 12 to 37 (26 residues), see Phobius details amino acids 70 to 94 (25 residues), see Phobius details amino acids 106 to 130 (25 residues), see Phobius details amino acids 137 to 160 (24 residues), see Phobius details amino acids 182 to 204 (23 residues), see Phobius details amino acids 238 to 257 (20 residues), see Phobius details PF00528: BPD_transp_1" amino acids 83 to 254 (172 residues), 52.8 bits, see alignment E=2.2e-18

Best Hits

KEGG orthology group: K02053, putative spermidine/putrescine transport system permease protein (inferred from 58% identity to mrd:Mrad2831_1250)

Predicted SEED Role

"Spermidine Putrescine ABC transporter permease component potC (TC_3.A.1.11.1)" in subsystem Polyamine Metabolism

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 (267 amino acids)

>GFF4755 Inner membrane ABC transporter permease protein YdcV (Xanthobacter sp. DMC5)
MLRDWQTLSFNALFGLLSLISVIVLAGPTLVILILSFTGEEALHFPPASYSLRWYAALID
ANELQAALWVSLKVAVISVSACVVLGVAAALGIARSEGAVARGLETLFLSPLILPALAFG
FAALMLFSILGMRPSTLTLAIGHIVVCVPFVLRTTLASLAQLDPALLDASRSLGASRLHT
FRTVTLPLISPGVASGAFIAFMASFDNVPVSLFLQDARTQVLPIYLWDIIQNQLDSRAAS
ACGVIIIATVLMMVLMERVAGFSRFMK