P56140 (HEM3_HELPY) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Porphobilinogen deaminase
Short name=PBG
EC=2.5.1.61

Alternative name(s):
Hydroxymethylbilane synthase
Short name=HMBS
Pre-uroporphyrinogen synthase

Gene names

Name:	hemC
Ordered Locus Names:	HP_0237

Organism

Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

Taxonomic identifier

85962 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Epsilonproteobacteria › Campylobacterales › Helicobacteraceae › Helicobacter

Protein attributes

Sequence length	306 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Tetrapolymerization of the monopyrrole PBG into the hydroxymethylbilane pre-uroporphyrinogen in several discrete steps. HAMAP MF_00260
Catalytic activity	4 porphobilinogen + H2O = hydroxymethylbilane + 4 NH3. HAMAP MF_00260
Cofactor	Binds 1 dipyrromethane group covalently By similarity. HAMAP MF_00260
Pathway	Porphyrin metabolism; protoporphyrin-IX biosynthesis; coproporphyrinogen-III from 5-aminolevulinate: step 2/4. HAMAP MF_00260
Subunit structure	Monomer By similarity. HAMAP MF_00260
Miscellaneous	The porphobilinogen subunits are added to the dipyrromethan group. HAMAP MF_00260
Sequence similarities	Belongs to the HMBS family.

Ontologies

Keywords
Biological process	Porphyrin biosynthesis
Molecular function	Transferase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	peptidyl-pyrromethane cofactor linkage Inferred from electronic annotation. Source: InterPro porphyrin-containing compound biosynthetic process Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	hydroxymethylbilane synthase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 306	306	Porphobilinogen deaminase HAMAP MF_00260		PRO_0000142945
Amino acid modifications
	Modified residue	239	1	S-(dipyrrolylmethanemethyl)cysteine By similarity

Sequences

	Sequence		Length	Mass (Da)
	P56140 [UniParc]. Last modified November 1, 1997. Version 1. Checksum: 583F9944464A8B46	FASTA	306	33,940
	10 20 30 40 50 60 MGNLVIGSRG SELALWQANH IKERLKKECL IESEIQIVKT KGDKILDTPL NKIGGKGLFT 70 80 90 100 110 120 KELEELLLKG AIDLAVHSLK DVPVVFEKGL DLACITKRAD VRDTFLSVKF PDLMSLPKGA 130 140 150 160 170 180 KVGTTSLRRS MQIKLKRQDL DTESLRGNVQ TRLKKLECGE FDAIILAEAG LCRLEIQGAK 190 200 210 220 230 240 YRKAFSVEEM IPSMGQGALG VEMLKNHKHF ATLQKLNDEK SAFCCRLERE FIKGLNGGCQ 250 260 270 280 290 300 IPIGVHASLM GDRVKIQAVL GLPNGKEVIT KEKQGDKTKA FDLVQELLEE FLQSGAKEIL EKAQLF

References

[1]

"The complete genome sequence of the gastric pathogen Helicobacter pylori." Tomb J.-F., White O., Kerlavage A.R., Clayton R.A., Sutton G.G., Fleischmann R.D., Ketchum K.A., Klenk H.-P., Gill S.R., Dougherty B.A., Nelson K.E., Quackenbush J., Zhou L., Kirkness E.F., Peterson S.N., Loftus B.J., Richardson D.L., Dodson R.J. , Khalak H.G., Glodek A., McKenney K., FitzGerald L.M., Lee N., Adams M.D., Hickey E.K., Berg D.E., Gocayne J.D., Utterback T.R., Peterson J.D., Kelley J.M., Cotton M.D., Weidman J.F., Fujii C., Bowman C., Watthey L., Wallin E., Hayes W.S., Borodovsky M., Karp P.D., Smith H.O., Fraser C.M., Venter J.C. Nature 388:539-547(1997) [PubMed: 9252185] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 700392 / 26695.

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Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE000511 Genomic DNA. Translation: AAD07304.1.
PIR	E64549.
RefSeq	NP_207035.1. NC_000915.1.
3D structure databases
ProteinModelPortal	P56140.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	899174.
GenomeReviews	Gene locus HP_0237 in contig AE000511_GR.
KEGG	hpy:HP0237.
NMPDR	fig|85962.1.peg.233.
PATRIC	20591699. VBIHelPyl33062_0248.
TIGR	HP_0237.
Phylogenomic databases
HOGENOM	HBG624842.
OMA	FKDVRGN.
ProtClustDB	PRK00072.
Family and domain databases
HAMAP	MF_00260. Porphobil_deam. [Tree]
InterPro	IPR000860. 4pyrrol_synth_OHMeBilane_synth. IPR022419. Porphobilin_deaminase_cofac_BS. IPR022417. Porphobilin_deaminase_N. IPR022418. Porphobilinogen_deaminase_C. [Graphical view]
Gene3D	G3DSA:3.30.160.40. Porphobil_deam. 1 hit.
KO	K01749.
PANTHER	PTHR11557. Porphobil_deam. 1 hit.
Pfam	PF01379. Porphobil_deam. 1 hit. PF03900. Porphobil_deamC. 1 hit. [Graphical view]
PIRSF	PIRSF001438. 4pyrrol_synth_OHMeBilane_synth. 1 hit.
PRINTS	PR00151. PORPHBDMNASE.
SUPFAM	SSF54782. Porphobil_deam. 1 hit.
TIGRFAMs	TIGR00212. HemC. 1 hit.
PROSITE	PS00533. PORPHOBILINOGEN_DEAM. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

HEM3_HELPY

Accession

Primary (citable) accession number: P56140

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 1, 1997
Last modified:	January 25, 2012
This is version 77 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program