Protein Info for PS417_21335 in Pseudomonas simiae WCS417

Annotation: sugar 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 50 100 150 200 250 300 326 signal peptide" amino acids 1 to 22 (22 residues), see Phobius details PF00532: Peripla_BP_1" amino acids 25 to 317 (293 residues), 168 bits, see alignment E=3.4e-53 PF13407: Peripla_BP_4" amino acids 26 to 289 (264 residues), 69.4 bits, see alignment E=3.8e-23

Best Hits

Swiss-Prot: 59% identical to ARAF_ECOLI: L-arabinose-binding periplasmic protein (araF) from Escherichia coli (strain K12)

KEGG orthology group: K10537, L-arabinose transport system substrate-binding protein (inferred from 83% identity to pfs:PFLU4684)

MetaCyc: 59% identical to arabinose ABC transporter periplasmic binding protein (Escherichia coli K-12 substr. MG1655)
ABC-2-RXN [EC: 7.5.2.12, 7.5.2.13]

Predicted SEED Role

"L-arabinose-binding periplasmic protein precursor AraF (TC 3.A.1.2.2)" in subsystem L-Arabinose utilization (TC 3.A.1.2.2)

Isozymes

No predicted isozymes

Use Curated BLAST to search for 7.5.2.12 or 7.5.2.13

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 A0A1N7UJJ5 at UniProt or InterPro

Protein Sequence (326 amino acids)

>PS417_21335 sugar ABC transporter substrate-binding protein (Pseudomonas simiae WCS417)
MFKKTLGTLALAMAFSSVALAEEVKIGFLVKQAEEPWFQTEWAFAEKAGKDQGFTVIKIA
VPDGEKTLSAIDTLAANGAKGFVICPPDVSLGPAIMAKAKLNNLKVLAVDDRFVDAKGKP
MEDVPYVGLDAYKIGQKQGEAMATEAKHRNWDWKDTYAVINTFDELETGKKRTDGSVEGL
KAAGLPADHILFSAQKTLDVPGSMDATNSALVKLPSGAKNLIIGGMNDSTVLGGVRATES
AGFKAANVIGVGINGTDAIEELKKSDTGFYGSMLLSPDASGYKTASAMFEWVTQGTEPAK
FTALDNVTLITRANFKEELSKIGLWK