Protein Info for GFF2848 in Xanthobacter sp. DMC5
Annotation: Apulose-4-phosphate transketolase subunit A
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: 72% identical to Y4MO_SINFN: Putative uncharacterized transketolase family protein y4mO (NGR_a02440) from Sinorhizobium fredii (strain NBRC 101917 / NGR234)
KEGG orthology group: K00615, transketolase [EC: 2.2.1.1] (inferred from 85% identity to xau:Xaut_1540)MetaCyc: 40% identical to apulose-4-phosphate transketolase subunit A (Actinobacillus succinogenes 130Z)
RXN-20930 [EC: 2.2.1.13]
Predicted SEED Role
"Transketolase, N-terminal section (EC 2.2.1.1)" in subsystem Calvin-Benson cycle or Pentose phosphate pathway (EC 2.2.1.1)
MetaCyc Pathways
- Rubisco shunt (10/10 steps found)
- Calvin-Benson-Bassham cycle (12/13 steps found)
- formaldehyde assimilation III (dihydroxyacetone cycle) (11/12 steps found)
- Bifidobacterium shunt (13/15 steps found)
- ethene biosynthesis V (engineered) (20/25 steps found)
- superpathway of glucose and xylose degradation (14/17 steps found)
- 1-butanol autotrophic biosynthesis (engineered) (21/27 steps found)
- pentose phosphate pathway (non-oxidative branch) I (5/5 steps found)
- photosynthetic 3-hydroxybutanoate biosynthesis (engineered) (20/26 steps found)
- pentose phosphate pathway (7/8 steps found)
- pentose phosphate pathway (partial) (3/3 steps found)
- oxygenic photosynthesis (13/17 steps found)
- pentose phosphate pathway (non-oxidative branch) II (5/6 steps found)
- formaldehyde assimilation II (assimilatory RuMP Cycle) (6/9 steps found)
- D-apiose degradation I (1/3 steps found)
KEGG Metabolic Maps
- Biosynthesis of alkaloids derived from shikimate pathway
- Biosynthesis of ansamycins
- Biosynthesis of phenylpropanoids
- Biosynthesis of plant hormones
- Carbon fixation in photosynthetic organisms
- Pentose phosphate pathway
Isozymes
Compare fitness of predicted isozymes for: 2.2.1.1
Use Curated BLAST to search for 2.2.1.1 or 2.2.1.13
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 (279 amino acids)
>GFF2848 Apulose-4-phosphate transketolase subunit A (Xanthobacter sp. DMC5) MTISPSNVSLERRAWNIRRHAIRMGEVQGQGYIAQALDIADVLATAYFHAMRYEPQNPEW EGRDRFLLSNGHYAIALYAALIEAGIVPEDELETYGFDDSRLPMSGMASYTPGMEMSGGS LGLGLSIAVGKCLGLKRKGSDSRVYTLFSDGELDEGSVWEAIMSAAHYKLDNLIAIVDVN NQQADGPSTSMLGFEPLAEKLAAFNWFVQRVDGNDLDAVRAAFDAAKDANGGRPSMIIAD TLMGKGIPFLEARDKNHFIRVDAHEWQLALAALDERKPA