Protein Info for DvMF_0584 in Desulfovibrio vulgaris Miyazaki F

Name: hemC
Annotation: porphobilinogen deaminase (RefSeq)

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: 100% identical to HEM3_DESVM: Porphobilinogen deaminase (hemC) from Desulfovibrio vulgaris (strain Miyazaki F / DSM 19637)

KEGG orthology group: K01749, hydroxymethylbilane synthase [EC: 2.5.1.61] (inferred from 100% identity to dvm:DvMF_0584)

MetaCyc: 57% identical to hydroxymethylbilane synthase (Escherichia coli K-12 substr. MG1655)
Hydroxymethylbilane synthase. [EC: 2.5.1.61]

Predicted SEED Role

"Porphobilinogen deaminase (EC 2.5.1.61)" in subsystem Experimental tye or Heme and Siroheme Biosynthesis (EC 2.5.1.61)

MetaCyc Pathways

adenosylcobalamin biosynthesis I (anaerobic) (29/36 steps found)
tetrapyrrole biosynthesis I (from glutamate) (6/6 steps found)
adenosylcobalamin biosynthesis II (aerobic) (25/33 steps found)
dipyrromethane cofactor biosynthesis (3/4 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 2.5.1.61

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 B8DKW2 at UniProt or InterPro

Protein Sequence (317 amino acids)

>DvMF_0584 porphobilinogen deaminase (RefSeq) (Desulfovibrio vulgaris Miyazaki F)
MKKLVIATRGSKLALWQAEHVKSCIEGQHPGVSVELLVLKTRGDIILDVPLAKVGGKGLF
VKEIEEALLDGRADLAVHSMKDVPMELPEGLVLGIIPEREEPSDTFLSVHHDSLAALPHG
ATVGTSSLRRQSQLLALRPDLNVVSLRGNVDTRLRKLSEGQFDAIIMATAGMKRLGLSAP
RSEVLGPPAFLPAVGQGALGIEFRADRADLHELLAFMEHTPTRIRVEAERGFLAGLQGGC
QVPIAGHAVMTGDGTFALEGLVADLTGARVIRRTMNGVSAPDGAQARQIGLDLAAQLVAD
GAGEILAEVYGSGEAVN