Protein Info for GFF6113 in Variovorax sp. SCN45

Annotation: Dipeptide ABC transporter, permease protein DppC (TC 3.A.1.5.2)

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 transmembrane" amino acids 37 to 58 (22 residues), see Phobius details amino acids 100 to 125 (26 residues), see Phobius details amino acids 141 to 168 (28 residues), see Phobius details amino acids 215 to 240 (26 residues), see Phobius details amino acids 259 to 284 (26 residues), see Phobius details PF12911: OppC_N" amino acids 32 to 74 (43 residues), 33 bits, see alignment 4.3e-12 PF00528: BPD_transp_1" amino acids 115 to 297 (183 residues), 91.1 bits, see alignment E=7.7e-30

Best Hits

Swiss-Prot: 51% identical to Y4TQ_SINFN: Probable peptide ABC transporter permease protein y4tQ (NGR_a01420) from Sinorhizobium fredii (strain NBRC 101917 / NGR234)

KEGG orthology group: K02034, peptide/nickel transport system permease protein (inferred from 91% identity to vpe:Varpa_1701)

MetaCyc: 37% identical to dipeptide ABC transporter membrane subunit DppC (Escherichia coli K-12 substr. MG1655)
ABC-8-RXN [EC: 7.4.2.9]

Predicted SEED Role

"Dipeptide transport system permease protein DppC (TC 3.A.1.5.2)" in subsystem ABC transporter dipeptide (TC 3.A.1.5.2) (TC 3.A.1.5.2)

Isozymes

No predicted isozymes

Use Curated BLAST to search for 7.4.2.9

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

Find the best match in UniProt

Protein Sequence (300 amino acids)

>GFF6113 Dipeptide ABC transporter, permease protein DppC (TC 3.A.1.5.2) (Variovorax sp. SCN45)
MSTVLPLNTAQAPAAPADDEAPFVPPRFRWVRKHPTLIIGALLLIAIAALSIAAPWIATH
DPQDIDPLARMQPPSAEHWFGTDALGRDVFSRAVWGGQVSMIVGATVAVLATFFGIALGL
VAGFVRWADGPVMRVMDGLMAIPGILLAIALMAVTRASLTTVIIAITVPEIPRVVRLVRS
LALTLREQLFVEAAHAVGTRLPTILVRHVLPNIVAPLVVQATFVAAAAVLTEAALSFLGV
GVPSQTPSWGNMMAEGRNFVTVAFHIILYPGLLLAATVLAINLLGDGLRDALDPRLARQL