Protein Info for HSERO_RS19425 in Herbaspirillum seropedicae SmR1
Annotation: ribulose-phosphate 3-epimerase
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: 74% identical to RPE_ECOL6: Ribulose-phosphate 3-epimerase (rpe) from Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)
KEGG orthology group: K01783, ribulose-phosphate 3-epimerase [EC: 5.1.3.1] (inferred from 100% identity to hse:Hsero_3890)MetaCyc: 74% identical to ribulose-phosphate 3-epimerase (Escherichia coli K-12 substr. MG1655)
Ribulose-phosphate 3-epimerase. [EC: 5.1.3.1]
Predicted SEED Role
"Ribulose-phosphate 3-epimerase (EC 5.1.3.1)" in subsystem Calvin-Benson cycle or Conserved gene cluster associated with Met-tRNA formyltransferase or Pentose phosphate pathway or Ribitol, Xylitol, Arabitol, Mannitol and Sorbitol utilization (EC 5.1.3.1)
MetaCyc Pathways
- superpathway of glucose and xylose degradation (14/17 steps found)
- pentose phosphate pathway (non-oxidative branch) I (5/5 steps found)
- formaldehyde assimilation III (dihydroxyacetone cycle) (10/12 steps found)
- pentose phosphate pathway (7/8 steps found)
- Bifidobacterium shunt (12/15 steps found)
- heterolactic fermentation (14/18 steps found)
- pentose phosphate pathway (partial) (3/3 steps found)
- Rubisco shunt (8/10 steps found)
- pentose phosphate pathway (non-oxidative branch) II (5/6 steps found)
- Calvin-Benson-Bassham cycle (9/13 steps found)
- formaldehyde assimilation II (assimilatory RuMP Cycle) (6/9 steps found)
- ethene biosynthesis V (engineered) (17/25 steps found)
- 1-butanol autotrophic biosynthesis (engineered) (18/27 steps found)
- photosynthetic 3-hydroxybutanoate biosynthesis (engineered) (17/26 steps found)
- oxygenic photosynthesis (10/17 steps found)
KEGG Metabolic Maps
- Carbon fixation in photosynthetic organisms
- Pentose and glucuronate interconversions
- Pentose phosphate pathway
Isozymes
No predicted isozymesUse Curated BLAST to search for 5.1.3.1
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
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 D8IS20 at UniProt or InterPro
Protein Sequence (221 amino acids)
>HSERO_RS19425 ribulose-phosphate 3-epimerase (Herbaspirillum seropedicae SmR1) MPTYRIAPSILSADFARLGEEVRNVVAAGADFIHFDVMDNHYVPNLTIGPLVCEAIRPHV QVPIDVHLMVKPVDRIIPDFAKAGANLITFHPEASEHIDRSLQLIRDNGCKAGLVFNPGT PLHYLDHVMDKLDMVLIMSVNPGFGGQSFIPEALKKIAEVRRRIDESGRDILLEVDGGIK IENIAAAARAGADTFVAGSAIFGKPDYKAVIDAMRAELAQV