Protein Info for DVU0856 in Desulfovibrio vulgaris Hildenborough JW710

Name: hemB
Annotation: porphobilinogen synthase (TIGR)

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: 59% identical to HEM2_BACHD: Delta-aminolevulinic acid dehydratase (hemB) from Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125)

KEGG orthology group: K01698, porphobilinogen synthase [EC: 4.2.1.24] (inferred from 100% identity to dvl:Dvul_2127)

MetaCyc: 49% identical to porphobilinogen synthase (Escherichia coli K-12 substr. MG1655)
Porphobilinogen synthase. [EC: 4.2.1.24]

Predicted SEED Role

"Porphobilinogen synthase (EC 4.2.1.24)" in subsystem Experimental tye or Heme and Siroheme Biosynthesis (EC 4.2.1.24)

MetaCyc Pathways

adenosylcobalamin biosynthesis II (aerobic) (27/33 steps found)
adenosylcobalamin biosynthesis I (anaerobic) (29/36 steps found)
tetrapyrrole biosynthesis I (from glutamate) (6/6 steps found)
tetrapyrrole biosynthesis II (from glycine) (3/4 steps found)
superpathway of heme b biosynthesis from glutamate (6/10 steps found)
superpathway of heme b biosynthesis from glycine (3/8 steps found)
superpathway of bacteriochlorophyll a biosynthesis (3/26 steps found)

KEGG Metabolic Maps

Porphyrin and chlorophyll metabolism

Isozymes

No predicted isozymes

Use Curated BLAST to search for 4.2.1.24

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search 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

See Q72DS3 at UniProt or InterPro

Protein Sequence (330 amino acids)

>DVU0856 porphobilinogen synthase (TIGR) (Desulfovibrio vulgaris Hildenborough JW710)
MGDFFRGRRLRRTAALRELVRENVVCAADLIMPYFVVETDEPAFRKEIGAMPGQFQLSLQ
ELEKQVEAAVAKGLRAVILFGIPKVKDYKGSEAYNKDGIVQQAVRLLKKRWPALVVVTDV
CLCEYTDHGHCGLVRQGDTSGEVHNDPTLSLLTKAAVSHAEAGADIVAPSDMMDGRVQAI
RAGLDANGFSHIPVMSYAVKYASSFYGPFREAAESTPQFGDRKTYQMDPANSREAMREAA
ADVDEDADFLIVKPAGPYLDIIRQVRDNFDLPVVAYQVSGEYSMIRAAGINGWINEEAVI
MESLLGMKRAGCDLIITYFTEELLAKGLVR