Protein Info for Psyr_2960 in Pseudomonas syringae pv. syringae B728a

Annotation: Binding-protein-dependent transport systems inner membrane component

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 50 100 150 200 250 310 transmembrane" amino acids 53 to 73 (21 residues), see Phobius details amino acids 117 to 141 (25 residues), see Phobius details amino acids 149 to 169 (21 residues), see Phobius details amino acids 175 to 193 (19 residues), see Phobius details amino acids 230 to 257 (28 residues), see Phobius details amino acids 279 to 301 (23 residues), see Phobius details PF00528: BPD_transp_1" amino acids 131 to 305 (175 residues), 105.4 bits, see alignment E=1.6e-34

Best Hits

Swiss-Prot: 40% identical to DPPC_BACPE: Dipeptide transport system permease protein DppC (dppC) from Bacillus pseudofirmus (strain OF4)

KEGG orthology group: K02034, peptide/nickel transport system permease protein (inferred from 100% identity to psb:Psyr_2960)

MetaCyc: 34% identical to nickel ABC transporter membrane subunit NikC (Escherichia coli K-12 substr. MG1655)
7.2.2.i [EC: 7.2.2.i]; 7.2.2.- [EC: 7.2.2.i]

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 7.2.2.i

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 Q4ZS78 at UniProt or InterPro

Protein Sequence (310 amino acids)

>Psyr_2960 Binding-protein-dependent transport systems inner membrane component (Pseudomonas syringae pv. syringae B728a)
MTIFDNRLARLARLVVSSETIAGKTAPALQWRRRSSLSRIVEATRPLLRRPGFLLAVAIV
AFALLAALAPNLLSSYAPYATSPADKLTAPNAAHWFGTDELGRDLYTRVVHGSSLSVQAA
LLAVGIAMAGGLSLGVISGFAGGRIDAVIMRLIDVLLALPGLLLALAIVTAIGFGTLPVA
IAVGVGIIPGFARTTRAEVLRVKTLPYVEAARLGGASWTRTLLRHILPNAWGPVAVLATL
DFGAAILATAGLSFLGFGAEPPAAEWGTLIANGRHFLMTAPWVSLLPGLFVVGVVFSFNH
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