Porphobilinogen synthase - Desulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / NCIMB 8303)

Preferred order of sections

Names and origin

Protein names

Submitted name:
Porphobilinogen synthase EMBL AAS95336.1
EC=4.2.1.24 EMBL AAS95336.1

Gene names

Name:	hemB EMBL AAS95336.1
Ordered Locus Names:	DVU_0856

Organism

Desulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / NCIMB 8303)

Taxonomic identifier

882 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Deltaproteobacteria › Desulfovibrionales › Desulfovibrionaceae › Desulfovibrio

Protein attributes

Sequence length	330 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Subunit structure	Homooctamer By similarity. PIRSR PIRSR001415-3
Sequence similarities	Belongs to the ALADH family. RuleBase RU004161

Ontologies

Keywords
Ligand	Magnesium PIRSR PIRSR001415-5 Metal-binding PIRSR PIRSR001415-3 Zinc PIRSR PIRSR001415-3
Molecular function	Lyase EMBL AAS95336.1
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	tetrapyrrole biosynthetic process Inferred from electronic annotation. Source: InterPro
Molecular function	metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW porphobilinogen synthase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Sites

Active site

200

1

Schiff-base intermediate with substrate By similarity PIRSR PIRSR001415-1

Active site

253

1

Schiff-base intermediate with substrate By similarity PIRSR PIRSR001415-1

Metal binding

121

1

Zinc; catalytic By similarity PIRSR PIRSR001415-3

Metal binding

123

1

Zinc; catalytic By similarity PIRSR PIRSR001415-3

Metal binding

131

1

Zinc; catalytic By similarity PIRSR PIRSR001415-3

Metal binding

238

1

Magnesium By similarity PIRSR PIRSR001415-5

Binding site

210

1

Substrate 1 By similarity PIRSR PIRSR001415-2

Binding site

222

1

Substrate 1 By similarity PIRSR PIRSR001415-2

Binding site

279

1

Substrate 2 By similarity PIRSR PIRSR001415-2

Binding site

318

1

Substrate 2 By similarity PIRSR PIRSR001415-2

Sequences

Sequence

Length

Mass (Da)

Tools

Q72DS3 [UniParc].

Last modified July 5, 2004. Version 1.
Checksum: 358019948577A3C8
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FASTA

330

36,418

        10         20         30         40         50         60 
MGDFFRGRRL RRTAALRELV RENVVCAADL IMPYFVVETD EPAFRKEIGA MPGQFQLSLQ 

        70         80         90        100        110        120 
ELEKQVEAAV AKGLRAVILF GIPKVKDYKG SEAYNKDGIV QQAVRLLKKR WPALVVVTDV 

       130        140        150        160        170        180 
CLCEYTDHGH CGLVRQGDTS GEVHNDPTLS LLTKAAVSHA EAGADIVAPS DMMDGRVQAI 

       190        200        210        220        230        240 
RAGLDANGFS HIPVMSYAVK YASSFYGPFR EAAESTPQFG DRKTYQMDPA NSREAMREAA 

       250        260        270        280        290        300 
ADVDEDADFL IVKPAGPYLD IIRQVRDNFD LPVVAYQVSG EYSMIRAAGI NGWINEEAVI 

       310        320        330 
MESLLGMKRA GCDLIITYFT EELLAKGLVR

« Hide

References

[1]

"The genome sequence of the anaerobic, sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough."
Heidelberg J.F., Seshadri R., Haveman S.A., Hemme C.L., Paulsen I.T., Kolonay J.F., Eisen J.A., Ward N., Methe B., Brinkac L.M., Daugherty S.C., Deboy R.T., Dodson R.J., Durkin A.S., Madupu R., Nelson W.C., Sullivan S.A., Fouts D.

Fraser C.M.
Nat. Biotechnol. 22:554-559(2004) [PubMed: 15077118] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: Hildenborough / ATCC 29579 / NCIMB 8303.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE017285 Genomic DNA. Translation: AAS95336.1.
RefSeq	YP_010077.1. NC_002937.3.
3D structure databases
HSSP	HSSP built from PDB template 1B4K based on UniProtKB Q59643.
ProteinModelPortal	Q72DS3.
SMR	Q72DS3. Positions 5-324.
ModBase	Search...
Protein-protein interaction databases
STRING	Q72DS3.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	2794185.
GenomeReviews	Gene locus DVU_0856 in contig AE017285_GR.
KEGG	dvu:DVU0856.
NMPDR	fig\|882.1.peg.852.
PATRIC	32061626. VBIDesVul119526_0800.
TIGR	DVU_0856.
Phylogenomic databases
eggNOG	COG0113.
HOGENOM	HBG285270.
OMA	ADLCFCE.
PhylomeDB	Q72DS3.
ProtClustDB	PRK09283.
Family and domain databases
InterPro	IPR013785. Aldolase_TIM. IPR001731. Porphobilinogen_synth. [Graphical view]
Gene3D	G3DSA:3.20.20.70. Aldolase_TIM. 1 hit.
KO	K01698.
PANTHER	PTHR11458. AlaD_dehydratase. 1 hit.
Pfam	PF00490. ALAD. 1 hit. [Graphical view]
PIRSF	PIRSF001415. Porphbilin_synth. 1 hit.
PRINTS	PR00144. DALDHYDRTASE.
SMART	SM01004. ALAD. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

Q72DS3_DESVH

Accession

Primary (citable) accession number: Q72DS3

Entry history

Integrated into UniProtKB/TrEMBL:	July 5, 2004
Last sequence update:	July 5, 2004
Last modified:	January 25, 2012
This is version 51 of the entry and version 1 of the sequence. [Complete history]

Entry status

Unreviewed (UniProtKB/TrEMBL)

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Sites

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Phylogenomic databases

Family and domain databases

Entry information