Protein Info for ABID97_RS04025 in Variovorax sp. OAS795

Annotation: ABC transporter substrate-binding 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 50 100 150 200 250 300 357 signal peptide" amino acids 1 to 34 (34 residues), see Phobius details PF13531: SBP_bac_11" amino acids 44 to 303 (260 residues), 58.2 bits, see alignment E=2.2e-19 PF01547: SBP_bac_1" amino acids 46 to 296 (251 residues), 39 bits, see alignment E=2e-13 PF13416: SBP_bac_8" amino acids 58 to 320 (263 residues), 105.8 bits, see alignment E=7.4e-34 PF13343: SBP_bac_6" amino acids 93 to 343 (251 residues), 80.6 bits, see alignment E=2.7e-26

Best Hits

KEGG orthology group: K02055, putative spermidine/putrescine transport system substrate-binding protein (inferred from 98% identity to vap:Vapar_0302)

Predicted SEED Role

"Spermidine/putrescine-binding periplasmic protein"

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 (357 amino acids)

>ABID97_RS04025 ABC transporter substrate-binding protein (Variovorax sp. OAS795)
MSRFQKTFFFSLRRTVLGAAAVAALAAGGAASAQTKTLYIGMNGGTMEKAYSQYVFPAFE
KLYGAKVVVVPGTSSDILAKAQANKDRPQMHVMFLDDGIMVRAIGMGLCQKQRPNPSLAE
IYPAARFKDDMASGVSLGMTGLAYNAKMFKEKGWAPPTSWMDLADPKYKGKVVFQSMSSS
SFGLHGFLMFNRIQGGNDKNVEPGFKAWPTTVGPNVLEYIPSSAKLSEMVQTGEAALFPL
TPTAVAALKTKGIPVEYAPPKEGAVVLMVGQCVIANNSEPELSQKLAEFLLSPLAQANVL
QYGAQIPTNPKAPAVGDGVQQVADINKWMKTAVTIDWDSINANRPAWNARWNKTIEK