Protein Info for Atu1879 in Agrobacterium fabrum C58

Annotation: ABC transporter, substrate binding protein (amino acid)

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 50 100 150 200 257 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details TIGR01096: lysine-arginine-ornithine-binding periplasmic protein" amino acids 7 to 250 (244 residues), 260.1 bits, see alignment E=1.1e-81 PF00497: SBP_bac_3" amino acids 29 to 251 (223 residues), 150.8 bits, see alignment E=2.7e-48 PF10613: Lig_chan-Glu_bd" amino acids 72 to 121 (50 residues), 37.3 bits, see alignment 4.1e-13 PF09084: NMT1" amino acids 112 to 179 (68 residues), 24 bits, see alignment E=5e-09

Best Hits

Swiss-Prot: 40% identical to HISJ_SALTY: Histidine-binding periplasmic protein (hisJ) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

KEGG orthology group: K02030, polar amino acid transport system substrate-binding protein (inferred from 100% identity to atu:Atu1879)

Predicted SEED Role

"Lysine-arginine-ornithine-binding periplasmic protein precursor (TC 3.A.1.3.1)" in subsystem Arginine and Ornithine Degradation (TC 3.A.1.3.1)

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 A9CII3 at UniProt or InterPro

Protein Sequence (257 amino acids)

>Atu1879 ABC transporter, substrate binding protein (amino acid) (Agrobacterium fabrum C58)
MPISTRLLAAVSIAAISLLSGAALAQDKIVIGTEGAYPPFNNLEADGTLTGFDIDIAKAL
CEQMKAECTFVTNDWDGIIPALQAKKFDAIIASMSITPERLQKVDFSKKYYNTPPAIAVP
KDSPIKSIDDLKGKSLGAQGSTTHSNYAEKHFPDADVKMYPTADEYKLDIANGRIDAVID
DIVVLSEWLKTDAGKCCKILTPLKVDPEINGNGAGIAVRKGDTALADKFTAAIAGIRASG
KYQEINKKYFDFDVYGD