Protein Info for GFF1016 in Sphingobium sp. HT1-2
Annotation: Mandelate racemase /muconate lactonizing enzyme related protein (MR/MLE)
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
Best Hits
Swiss-Prot: 80% identical to RHMD_DELAS: L-rhamnonate dehydratase (rhmD) from Delftia acidovorans (strain DSM 14801 / SPH-1)
KEGG orthology group: K12661, L-rhamnonate dehydratase [EC: 4.2.1.90] (inferred from 84% identity to bsb:Bresu_2869)MetaCyc: 97% identical to L-rhamnonate dehydratase (Sphingomonas sp. SKA58)
L-rhamnonate dehydratase. [EC: 4.2.1.90]
Predicted SEED Role
"Gluconate dehydratase (EC 4.2.1.39)" in subsystem Entner-Doudoroff Pathway (EC 4.2.1.39)
MetaCyc Pathways
- L-rhamnose degradation III (6/7 steps found)
- Entner-Doudoroff pathway III (semi-phosphorylative) (7/9 steps found)
- Entner-Doudoroff pathway II (non-phosphorylative) (5/9 steps found)
- L-rhamnose degradation II (4/8 steps found)
KEGG Metabolic Maps
Isozymes
Compare fitness of predicted isozymes for: 4.2.1.39
Use Curated BLAST to search for 4.2.1.39 or 4.2.1.90
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 (397 amino acids)
>GFF1016 Mandelate racemase /muconate lactonizing enzyme related protein (MR/MLE) (Sphingobium sp. HT1-2) VPIVTLPKIKHVRAFTVRGGGADYHDQGEGHWIDDHIATPMSKYPEYRQSRQSFGINVLG TLVVEIEAEDGTVGFAVTTGGEPAAYIVEKHLARFLEGRSPTDYEKIWDQMYFSTQYYGR KGLVINAISGVDLALWDLLGKLRQEPVYHLLGGAVRDELQFYATGARPDKAKEFGFIGGK MALHHGPAEGIEGLKKNIAELADMRSKVGDDFWLMWDCWMALDVDYATRLAIAAHELGLK WIEEAISPDDYWGYQQLKRNVPKGMLVTTGEHEATRWGFRMLMEMDCCDIIQPDVGWCGG VTELLKISALADAHGKMVVPHGSSVYSYHFVITRHNSPFAEFLMMHPGPTEVVPMFHPQL LGEPVPENGRMKVTALDKPGFGVDLNPDIAMHRPYTH