Protein Info for GFF2342 in Variovorax sp. SCN45

Annotation: ABC transporter, ATP-binding protein (cluster 5, nickel/peptides/opines)

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 50 100 150 200 250 300 329 PF00005: ABC_tran" amino acids 24 to 181 (158 residues), 116.5 bits, see alignment E=2.2e-37 PF13304: AAA_21" amino acids 149 to 216 (68 residues), 28.2 bits, see alignment E=2.9e-10 TIGR01727: oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain" amino acids 231 to 316 (86 residues), 84.5 bits, see alignment E=2.1e-28 PF08352: oligo_HPY" amino acids 232 to 297 (66 residues), 67.7 bits, see alignment E=1.4e-22

Best Hits

Swiss-Prot: 52% identical to DPPD_BACSU: Dipeptide transport ATP-binding protein DppD (dppD) from Bacillus subtilis (strain 168)

KEGG orthology group: K02031, peptide/nickel transport system ATP-binding protein (inferred from 96% identity to vpe:Varpa_5005)

MetaCyc: 48% identical to murein tripeptide ABC transporter / oligopeptide ABC transporter ATP binding subunit OppD (Escherichia coli K-12 substr. MG1655)
3.6.3.23-RXN [EC: 7.4.2.6]; 7.4.2.6 [EC: 7.4.2.6]

Predicted SEED Role

"Oligopeptide transport ATP-binding protein OppD (TC 3.A.1.5.1)" in subsystem ABC transporter oligopeptide (TC 3.A.1.5.1) (TC 3.A.1.5.1)

Isozymes

No predicted isozymes

Use Curated BLAST to search for 7.4.2.6

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 (329 amino acids)

>GFF2342 ABC transporter, ATP-binding protein (cluster 5, nickel/peptides/opines) (Variovorax sp. SCN45)
MPLLQVKDLHIELQTQRGPAEAVRGIDFTLERGETLGIVGESGCGKSITVMSLMGLLPST
AKVTGSIRFDGTELVGRDEKDMCQIRGNRIGMIFQEPMTALNPVHTIARQVGEPLRLHRG
LSKADARKEVLALLERVGIPDAASRLDAYPHQFSGGQRQRIGIAMALACGPDLLIADEPT
TALDVTIQKQILELIQSLVAERGMALILISHDLGVIAQTVSKMLVMYGGSVVESGPTEAV
FARRAHPYTQGLFAARPAIGAPRGLRLATIKGSVPELVDLPKGCPFAGRCSYTVDACHTT
RPPATMLPHDHAVRCIRLEEIATEVAAAP