Protein Info for GFF1487 in Xanthobacter sp. DMC5

Annotation: sn-glycerol-3-phosphate-binding periplasmic protein UgpB

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 50 100 150 200 250 300 350 400 450 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details PF01547: SBP_bac_1" amino acids 47 to 347 (301 residues), 76.9 bits, see alignment E=2.9e-25 PF13416: SBP_bac_8" amino acids 53 to 363 (311 residues), 82.6 bits, see alignment E=4.4e-27

Best Hits

Swiss-Prot: 44% identical to UGPB_PECAS: sn-glycerol-3-phosphate-binding periplasmic protein UgpB (ugpB) from Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672)

KEGG orthology group: K05813, sn-glycerol 3-phosphate transport system substrate-binding protein (inferred from 52% identity to azl:AZL_006680)

MetaCyc: 45% identical to sn-glycerol 3-phosphate ABC transporter periplasmic binding protein (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, periplasmic glycerol-3-phosphate-binding protein (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)

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 (450 amino acids)

>GFF1487 sn-glycerol-3-phosphate-binding periplasmic protein UgpB (Xanthobacter sp. DMC5)
MNRRELLAGTAASAGLALMPGLALAQGAPASAPVQITFWHAMAGPLGEELKRLCDAFNAA
QKAVVVEPVFKGTYPETMTAAIAAFRAGKAPHLVQMYEVGTGSMLAAGAAVKQVWQLAEE
TGVRLDPAIYMPAVRSYYSLPDGRMASMPFNSSTPIMWCNKDLFERAGLDPERPPETWEQ
VVTAAEALRSKGGVKVGVTTAWPTWVHLECFGAIHDVPFATKANGFEGLDAELVFNSPAM
RGHITRLLEMAKAGTFTYAGRGAAGDSLFPAGETGISFNSSGVRAAVVRDARFRPMAAQL
PYDPAVRATPNNSIIGGASLWTMTAPDRTAAEYKAVASFLAFLARPDTDASWHQRTGYVP
VTLAGAGLSLAQGYYARNPGADIPIRQLNRGEVTINSKGLRLGRLTEIRAIIEEEFETAL
QGKQDAGTALDTAVARGNKVLREFEKSVSR