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Q59334

- HEM2_CHLP8

UniProt

Q59334 - HEM2_CHLP8

Protein

Delta-aminolevulinic acid dehydratase

Gene

hemB

Organism
Chlorobaculum parvum (strain NCIB 8327) (Chlorobium vibrioforme subsp. thiosulfatophilum (strain DSM 263 / NCIB 8327))
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 84 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
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    Functioni

    Catalyzes an early step in the biosynthesis of tetrapyrroles. Binds two molecules of 5-aminolevulinate per subunit, each at a distinct site, and catalyzes their condensation to form porphobilinogen.

    Catalytic activityi

    2 5-aminolevulinate = porphobilinogen + 2 H2O.

    Enzyme regulationi

    Stimulated by magnesium, inhibited by zinc.

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei200 – 2001Schiff-base intermediate with substrate
    Binding sitei210 – 2101Substrate 1
    Binding sitei222 – 2221Substrate 1
    Metal bindingi238 – 2381Magnesium2 Publications
    Active sitei253 – 2531Schiff-base intermediate with substrate
    Binding sitei279 – 2791Substrate 2
    Binding sitei318 – 3181Substrate 2

    GO - Molecular functioni

    1. metal ion binding Source: UniProtKB-KW
    2. porphobilinogen synthase activity Source: UniProtKB-EC

    GO - Biological processi

    1. protoporphyrinogen IX biosynthetic process Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Lyase

    Keywords - Biological processi

    Heme biosynthesis, Porphyrin biosynthesis

    Keywords - Ligandi

    Magnesium, Metal-binding

    Enzyme and pathway databases

    BioCyciCPAR517417:GH95-761-MONOMER.
    UniPathwayiUPA00251; UER00318.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Delta-aminolevulinic acid dehydratase (EC:4.2.1.24)
    Short name:
    ALAD
    Short name:
    ALADH
    Alternative name(s):
    Porphobilinogen synthase
    Gene namesi
    Name:hemB
    Ordered Locus Names:Cpar_0732
    OrganismiChlorobaculum parvum (strain NCIB 8327) (Chlorobium vibrioforme subsp. thiosulfatophilum (strain DSM 263 / NCIB 8327))
    Taxonomic identifieri517417 [NCBI]
    Taxonomic lineageiBacteriaChlorobiChlorobiaChlorobialesChlorobiaceaeChlorobaculum
    ProteomesiUP000008811: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 328328Delta-aminolevulinic acid dehydratasePRO_0000140499Add
    BLAST

    Interactioni

    Subunit structurei

    Homooctamer.2 Publications

    Protein-protein interaction databases

    STRINGi517417.Cpar_0732.

    Structurei

    Secondary structure

    1
    328
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi13 – 164
    Helixi20 – 267
    Helixi33 – 353
    Beta strandi36 – 4712
    Beta strandi49 – 524
    Beta strandi55 – 628
    Helixi63 – 7513
    Beta strandi80 – 856
    Helixi95 – 984
    Helixi103 – 11412
    Beta strandi118 – 1247
    Turni127 – 1293
    Beta strandi135 – 1417
    Helixi145 – 16218
    Beta strandi165 – 1695
    Helixi176 – 18611
    Beta strandi192 – 20110
    Helixi209 – 2124
    Turni223 – 2253
    Helixi233 – 24513
    Beta strandi248 – 2547
    Helixi256 – 2583
    Helixi259 – 26911
    Beta strandi273 – 2775
    Helixi279 – 29012
    Helixi296 – 31015
    Beta strandi313 – 3175
    Helixi320 – 3278

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1W1ZX-ray2.60A/B1-328[»]
    2C1HX-ray2.60A/B1-328[»]
    ProteinModelPortaliQ59334.
    SMRiQ59334. Positions 10-328.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ59334.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the ALADH family.Curated

    Phylogenomic databases

    eggNOGiCOG0113.
    HOGENOMiHOG000020323.
    KOiK01698.
    OMAiEVLCKMA.
    OrthoDBiEOG6VXFCB.

    Family and domain databases

    Gene3Di3.20.20.70. 1 hit.
    InterProiIPR013785. Aldolase_TIM.
    IPR001731. Porphobilinogen_synth.
    [Graphical view]
    PANTHERiPTHR11458. PTHR11458. 1 hit.
    PfamiPF00490. ALAD. 1 hit.
    [Graphical view]
    PIRSFiPIRSF001415. Porphbilin_synth. 1 hit.
    PRINTSiPR00144. DALDHYDRTASE.
    SMARTiSM01004. ALAD. 1 hit.
    [Graphical view]
    PROSITEiPS00169. D_ALA_DEHYDRATASE. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q59334-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSQLDLLNIV HRPRRLRRTA ALRNLVQENT LTVNDLVFPL FVMPGTNAVE    50
    EVSSMPGSFR FTIDRAVEEC KELYDLGIQG IDLFGIPEQK TEDGSEAYND 100
    NGILQQAIRA IKKAVPELCI MTDVALDPFT PFGHDGLVKD GIILNDETVE 150
    VLQKMAVSHA EAGADFVSPS DMMDGRIGAI REALDETDHS DVGILSYAAK 200
    YASSFYGPFR DALHSAPQFG DKSTYQMNPA NTEEAMKEVE LDIVEGADIV 250
    MVKPGLAYLD IVWRTKERFD VPVAIYHVSG EYAMVKAAAA KGWIDEDRVM 300
    MESLLCMKRA GADIIFTYYA KEAAKKLR 328
    Length:328
    Mass (Da):36,395
    Last modified:November 1, 1996 - v1
    Checksum:iD31B234328ABBE7B
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U38348 Genomic DNA. Translation: AAC43975.1.
    CP001099 Genomic DNA. Translation: ACF11151.1.
    RefSeqiYP_001998351.1. NC_011027.1.

    Genome annotation databases

    EnsemblBacteriaiACF11151; ACF11151; Cpar_0732.
    GeneIDi6419660.
    KEGGicpc:Cpar_0732.
    PATRICi21364722. VBIChlPar72705_0731.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U38348 Genomic DNA. Translation: AAC43975.1 .
    CP001099 Genomic DNA. Translation: ACF11151.1 .
    RefSeqi YP_001998351.1. NC_011027.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1W1Z X-ray 2.60 A/B 1-328 [» ]
    2C1H X-ray 2.60 A/B 1-328 [» ]
    ProteinModelPortali Q59334.
    SMRi Q59334. Positions 10-328.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 517417.Cpar_0732.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACF11151 ; ACF11151 ; Cpar_0732 .
    GeneIDi 6419660.
    KEGGi cpc:Cpar_0732.
    PATRICi 21364722. VBIChlPar72705_0731.

    Phylogenomic databases

    eggNOGi COG0113.
    HOGENOMi HOG000020323.
    KOi K01698.
    OMAi EVLCKMA.
    OrthoDBi EOG6VXFCB.

    Enzyme and pathway databases

    UniPathwayi UPA00251 ; UER00318 .
    BioCyci CPAR517417:GH95-761-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei Q59334.

    Family and domain databases

    Gene3Di 3.20.20.70. 1 hit.
    InterProi IPR013785. Aldolase_TIM.
    IPR001731. Porphobilinogen_synth.
    [Graphical view ]
    PANTHERi PTHR11458. PTHR11458. 1 hit.
    Pfami PF00490. ALAD. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF001415. Porphbilin_synth. 1 hit.
    PRINTSi PR00144. DALDHYDRTASE.
    SMARTi SM01004. ALAD. 1 hit.
    [Graphical view ]
    PROSITEi PS00169. D_ALA_DEHYDRATASE. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Structure and expression of the Chlorobium vibrioforme hemB gene and characterization of its encoded enzyme, porphobilinogen synthase."
      Rhie G.-E., Avissar Y.J., Beale S.I.
      J. Biol. Chem. 271:8176-8182(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: NCIB 8327.
    3. "The X-ray structure of the plant like 5-aminolaevulinic acid dehydratase from Chlorobium vibrioforme complexed with the inhibitor laevulinic acid at 2.6 A resolution."
      Coates L., Beaven G., Erskine P.T., Beale S.I., Avissar Y.J., Gill R., Mohammed F., Wood S.P., Shoolingin-Jordan P., Cooper J.B.
      J. Mol. Biol. 342:563-570(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.6 ANGSTROMS) IN COMPLEX WITH MAGNESIUM AND LAEVULINIC ACID, ACTIVE SITE, SUBUNIT, ABSENCE OF CATALYTIC METAL COFACTOR.
    4. "Structure of Chlorobium vibrioforme 5-aminolaevulinic acid dehydratase complexed with a diacid inhibitor."
      Coates L., Beaven G., Erskine P.T., Beale S.I., Wood S.P., Shoolingin-Jordan P.M., Cooper J.B.
      Acta Crystallogr. D 61:1594-1598(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.6 ANGSTROMS) IN COMPLEX WITH MAGNESIUM AND 4,7-DIOXOSEBACIC ACID, ACTIVE SITE.

    Entry informationi

    Entry nameiHEM2_CHLP8
    AccessioniPrimary (citable) accession number: Q59334
    Secondary accession number(s): B3QMJ8
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1997
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 84 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Does not seem to have a metal requirement for activity.

    Keywords - Technical termi

    3D-structure, Complete proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3