Protein Info for Dshi_2015 in Dinoroseobacter shibae DFL-12

Annotation: binding-protein-dependent transport systems inner membrane component (RefSeq)

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 50 100 150 200 250 293 transmembrane" amino acids 12 to 31 (20 residues), see Phobius details amino acids 70 to 96 (27 residues), see Phobius details amino acids 108 to 129 (22 residues), see Phobius details amino acids 157 to 180 (24 residues), see Phobius details amino acids 205 to 227 (23 residues), see Phobius details amino acids 266 to 286 (21 residues), see Phobius details PF00528: BPD_transp_1" amino acids 107 to 292 (186 residues), 46 bits, see alignment E=2.7e-16

Best Hits

Swiss-Prot: 61% identical to UGPA_RHIME: sn-glycerol-3-phosphate transport system permease protein UgpA (ugpA) from Rhizobium meliloti (strain 1021)

KEGG orthology group: K05814, sn-glycerol 3-phosphate transport system permease protein (inferred from 100% identity to dsh:Dshi_2015)

MetaCyc: 60% identical to sn-glycerol 3-phosphate ABC transporter membrane subunit UgpA (Escherichia coli K-12 substr. MG1655)
ABC-34-RXN [EC: 7.6.2.10]; 7.6.2.10 [EC: 7.6.2.10]

Predicted SEED Role

"Glycerol-3-phosphate ABC transporter, permease protein UgpA (TC 3.A.1.1.3)" in subsystem Glycerol and Glycerol-3-phosphate Uptake and Utilization (TC 3.A.1.1.3)

Isozymes

No predicted isozymes

Use Curated BLAST to search for 7.6.2.10

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

See A8LPQ0 at UniProt or InterPro

Protein Sequence (293 amino acids)

>Dshi_2015 binding-protein-dependent transport systems inner membrane component (RefSeq) (Dinoroseobacter shibae DFL-12)
MEKRVTFKGLWLPLLLVAPQIVITALFFFYPAGQAIWQSLFIPDPFGLSMQWVGLGNFEF
LFSDPFYRASFVTTAVFSILVTVVSMGVALYLALLADRLIKGSGTYRTLLIWPYAVAPAV
AGVLWLFMFNTRVGVVTWYLGQLGYDWNHVLNEEEAMGLVVVASAWGRISYNFLFFLAGL
QAIPKSVIEAAAIDGARFWTRFRTIVFPLLSPVTFFLLVVNIIYAFFETFGVIHTITSGG
PQQATTILVYKVYSDGFVGQDLGSSAAQSVVLLVLVSILTVIQFKYVERKVHY