Protein Info for GFF2363 in Variovorax sp. SCN45

Annotation: 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase (EC 4.1.2.52)

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 50 100 150 200 271 transmembrane" amino acids 227 to 241 (15 residues), see Phobius details TIGR02311: 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase" amino acids 5 to 252 (248 residues), 379.1 bits, see alignment E=4.7e-118 PF03328: HpcH_HpaI" amino acids 17 to 244 (228 residues), 187.1 bits, see alignment E=1.5e-59

Best Hits

Swiss-Prot: 60% identical to HPCH_ECOLX: 4-hydroxy-2-oxo-heptane-1,7-dioate aldolase (hpcH) from Escherichia coli

KEGG orthology group: K02510, 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [EC: 4.1.2.-] (inferred from 88% identity to vap:Vapar_1950)

MetaCyc: 60% identical to 4-hydroxy-2-ketopimelate aldolase monomer (Escherichia coli C)
4-HYDROXY-2-KETOPIMELATE-LYSIS-RXN [EC: 4.1.2.52]

Predicted SEED Role

"2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase (EC 4.1.2.n4)" (EC 4.1.2.n4)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 4.1.2.-, 4.1.2.n4

Use Curated BLAST to search for 4.1.2.- or 4.1.2.52 or 4.1.2.n4

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 (271 amino acids)

>GFF2363 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase (EC 4.1.2.52) (Variovorax sp. SCN45)
MPAQNAFKAALAARRPQVGLWLSMANPYMAEVSATTGFQWLLIDGEHAPNDLRSTLAALQ
AVAPHPVQPVVRAVQGDTALIKQLLDIGARNLLVPMVDTAEQARALVSATRYPPQGIRGV
GSAVGRASQWSARTDYLDIADDEVCLLVQAETTTALANLERICEVEGVDGVFIGPADLAA
SIGHRGRPGHPEVQAAIEAAMRTIVASGKAAGTLTSDPKLAKRYLELGCTFVAVGVDVLL
YANAARKLAADFLGSPATGAQAVAPESRGAY