Protein Info for PP_3345 in Pseudomonas putida KT2440

Annotation: nickel ABC transporter ATP-binding subunit

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 50 100 150 200 256 TIGR02770: nickel import ATP-binding protein NikD" amino acids 20 to 249 (230 residues), 344.9 bits, see alignment E=9.7e-108 PF00005: ABC_tran" amino acids 22 to 173 (152 residues), 81 bits, see alignment E=6.6e-27

Best Hits

Swiss-Prot: 100% identical to NIKD_PSEPK: Nickel import ATP-binding protein NikD (nikD) from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

KEGG orthology group: K02031, peptide/nickel transport system ATP-binding protein (inferred from 100% identity to ppu:PP_3345)

Predicted SEED Role

"Nickel transport ATP-binding protein NikD (TC 3.A.1.5.3)" in subsystem Transport of Nickel and Cobalt (TC 3.A.1.5.3)

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 Q88HL1 at UniProt or InterPro

Protein Sequence (256 amino acids)

>PP_3345 nickel ABC transporter ATP-binding subunit (Pseudomonas putida KT2440)
MSPSVLEIRGLRIETQAGVLVHDVDLQLRRGEVCTLVGASGSGKSLSCLGLLDLLPPGLA
RTQGQLLLDGQPLAASSVRGRLTSLVLQNPRSAFNPVRNMASHAIETLRQRGITSAVARA
RMAHCLDAVGLADTERVLQSFAFQLSGGMLQRMMIALALMAETPFLLADEPTSDLDALSQ
ARFLDLLMELVQVHGLGVLLVTHDMGVVARCADQVAVMEAGRIVECQPAHELFQRPASAT
ARTLLHAHQVLCRSQP