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Protein

4-hydroxy-3-methylbut-2-enyl diphosphate reductase

Gene

ispH

Organism
Aquifex aeolicus (strain VF5)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Converts 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate into isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP).

Catalytic activityi

Isopentenyl diphosphate + 2 oxidized ferredoxin [iron-sulfur] cluster + H2O = (E)-4-hydroxy-3-methylbut-2-en-1-yl diphosphate + 2 reduced ferredoxin [iron-sulfur] cluster + 2 H+.1 Publication
Dimethylallyl diphosphate + 2 oxidized ferredoxin [iron-sulfur] cluster + H2O = (E)-4-hydroxy-3-methylbut-2-en-1-yl diphosphate + 2 reduced ferredoxin [iron-sulfur] cluster + 2 H+.1 Publication

Cofactori

[3Fe-4S] cluster1 PublicationNote: Binds 1 [3Fe-4S] cluster per subunit.1 Publication

Enzyme regulationi

Highly sensitive to dioxygen.1 Publication

Kineticsi

  1. KM=590 µM for 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate1 Publication

    pH dependencei

    Optimum pH is 7.0-7.5.1 Publication

    Temperature dependencei

    Optimum temperature is 60 degrees Celsius.1 Publication

    Pathwayi: dimethylallyl diphosphate biosynthesis

    This protein is involved in step 1 of the subpathway that synthesizes dimethylallyl diphosphate from (2E)-4-hydroxy-3-methylbutenyl diphosphate.
    Proteins known to be involved in this subpathway in this organism are:
    1. 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH)
    This subpathway is part of the pathway dimethylallyl diphosphate biosynthesis, which is itself part of Isoprenoid biosynthesis.
    View all proteins of this organism that are known to be involved in the subpathway that synthesizes dimethylallyl diphosphate from (2E)-4-hydroxy-3-methylbutenyl diphosphate, the pathway dimethylallyl diphosphate biosynthesis and in Isoprenoid biosynthesis.

    Pathwayi: isopentenyl diphosphate biosynthesis via DXP pathway

    This protein is involved in step 6 of the subpathway that synthesizes isopentenyl diphosphate from 1-deoxy-D-xylulose 5-phosphate.
    Proteins known to be involved in the 6 steps of the subpathway in this organism are:
    1. 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr)
    2. 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (ispD)
    3. 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE)
    4. 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF)
    5. 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin) (ispG)
    6. 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH)
    This subpathway is part of the pathway isopentenyl diphosphate biosynthesis via DXP pathway, which is itself part of Isoprenoid biosynthesis.
    View all proteins of this organism that are known to be involved in the subpathway that synthesizes isopentenyl diphosphate from 1-deoxy-D-xylulose 5-phosphate, the pathway isopentenyl diphosphate biosynthesis via DXP pathway and in Isoprenoid biosynthesis.

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Metal bindingi13Iron-sulfur (3Fe-4S)1 Publication1
    Binding sitei42SubstrateBy similarity1
    Binding sitei74SubstrateBy similarity1
    Metal bindingi96Iron-sulfur (3Fe-4S)1 Publication1
    Binding sitei124SubstrateBy similarity1
    Binding sitei165SubstrateBy similarity1
    Metal bindingi193Iron-sulfur (3Fe-4S)1 Publication1
    Binding sitei265SubstrateBy similarity1

    GO - Molecular functioni

    GO - Biological processi

    Complete GO annotation...

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Isoprene biosynthesis

    Keywords - Ligandi

    3Fe-4S, Iron, Iron-sulfur, Metal-binding, NADP

    Enzyme and pathway databases

    BRENDAi1.17.1.2. 396.
    UniPathwayiUPA00056; UER00097.
    UPA00059; UER00105.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    4-hydroxy-3-methylbut-2-enyl diphosphate reductase (EC:1.17.7.41 Publication)
    Gene namesi
    Name:ispH
    Synonyms:lytB
    Ordered Locus Names:aq_1739
    OrganismiAquifex aeolicus (strain VF5)
    Taxonomic identifieri224324 [NCBI]
    Taxonomic lineageiBacteriaAquificaeAquificalesAquificaceaeAquifex
    Proteomesi
    • UP000000798 Componenti: Chromosome

    Pathology & Biotechi

    Chemistry databases

    ChEMBLiCHEMBL2242741.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00001287661 – 2894-hydroxy-3-methylbut-2-enyl diphosphate reductaseAdd BLAST289

    Interactioni

    Subunit structurei

    Homodimer.1 Publication

    Protein-protein interaction databases

    STRINGi224324.aq_1739.

    Structurei

    Secondary structure

    1289
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Beta strandi3 – 6Combined sources4
    Helixi14 – 26Combined sources13
    Turni27 – 29Combined sources3
    Beta strandi34 – 38Combined sources5
    Beta strandi40 – 42Combined sources3
    Helixi44 – 53Combined sources10
    Beta strandi55 – 57Combined sources3
    Beta strandi68 – 71Combined sources4
    Helixi78 – 86Combined sources9
    Beta strandi90 – 93Combined sources4
    Helixi97 – 111Combined sources15
    Beta strandi115 – 120Combined sources6
    Helixi125 – 136Combined sources12
    Beta strandi141 – 146Combined sources6
    Helixi147 – 155Combined sources9
    Beta strandi157 – 163Combined sources7
    Helixi169 – 182Combined sources14
    Beta strandi183 – 189Combined sources7
    Helixi195 – 206Combined sources12
    Helixi207 – 209Combined sources3
    Beta strandi210 – 217Combined sources8
    Helixi222 – 234Combined sources13
    Beta strandi236 – 243Combined sources8
    Helixi244 – 246Combined sources3
    Helixi249 – 252Combined sources4
    Beta strandi256 – 262Combined sources7
    Helixi268 – 280Combined sources13

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    3DNFX-ray1.65A/B1-289[»]
    SMRiO67625.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiO67625.

    Family & Domainsi

    Region

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Regioni221 – 223Substrate bindingBy similarity3

    Sequence similaritiesi

    Belongs to the IspH family.Curated

    Phylogenomic databases

    eggNOGiENOG4105C48. Bacteria.
    COG0761. LUCA.
    HOGENOMiHOG000220193.
    InParanoidiO67625.
    KOiK03527.
    OMAiDDLTFMT.
    OrthoDBiPOG091H038O.

    Family and domain databases

    CDDicd13944. lytB_ispH. 1 hit.
    HAMAPiMF_00191. IspH. 1 hit.
    InterProiIPR003451. LytB/IspH.
    [Graphical view]
    PfamiPF02401. LYTB. 1 hit.
    [Graphical view]
    TIGRFAMsiTIGR00216. ispH_lytB. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    O67625-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MVDIIIAEHA GFCFGVKRAV KLAEESLKES QGKVYTLGPI IHNPQEVNRL
    60 70 80 90 100
    KNLGVFPSQG EEFKEGDTVI IRSHGIPPEK EEALRKKGLK VIDATCPYVK
    110 120 130 140 150
    AVHEAVCQLT REGYFVVLVG EKNHPEVIGT LGYLRACNGK GIVVETLEDI
    160 170 180 190 200
    GEALKHERVG IVAQTTQNEE FFKEVVGEIA LWVKEVKVIN TICNATSLRQ
    210 220 230 240 250
    ESVKKLAPEV DVMIIIGGKN SGNTRRLYYI SKELNPNTYH IETAEELQPE
    260 270 280
    WFRGVKRVGI SAGASTPDWI IEQVKSRIQE ICEGQLVSS
    Length:289
    Mass (Da):32,104
    Last modified:August 1, 1998 - v1
    Checksum:iA9D910C41727E9F4
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AE000657 Genomic DNA. Translation: AAC07596.1.
    PIRiG70449.
    RefSeqiNP_214191.1. NC_000918.1.
    WP_010881128.1. NC_000918.1.

    Genome annotation databases

    EnsemblBacteriaiAAC07596; AAC07596; aq_1739.
    GeneIDi1193340.
    KEGGiaae:aq_1739.
    PATRICi20960466. VBIAquAeo85532_1338.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AE000657 Genomic DNA. Translation: AAC07596.1.
    PIRiG70449.
    RefSeqiNP_214191.1. NC_000918.1.
    WP_010881128.1. NC_000918.1.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    3DNFX-ray1.65A/B1-289[»]
    SMRiO67625.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    STRINGi224324.aq_1739.

    Chemistry databases

    ChEMBLiCHEMBL2242741.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblBacteriaiAAC07596; AAC07596; aq_1739.
    GeneIDi1193340.
    KEGGiaae:aq_1739.
    PATRICi20960466. VBIAquAeo85532_1338.

    Phylogenomic databases

    eggNOGiENOG4105C48. Bacteria.
    COG0761. LUCA.
    HOGENOMiHOG000220193.
    InParanoidiO67625.
    KOiK03527.
    OMAiDDLTFMT.
    OrthoDBiPOG091H038O.

    Enzyme and pathway databases

    UniPathwayiUPA00056; UER00097.
    UPA00059; UER00105.
    BRENDAi1.17.1.2. 396.

    Miscellaneous databases

    EvolutionaryTraceiO67625.

    Family and domain databases

    CDDicd13944. lytB_ispH. 1 hit.
    HAMAPiMF_00191. IspH. 1 hit.
    InterProiIPR003451. LytB/IspH.
    [Graphical view]
    PfamiPF02401. LYTB. 1 hit.
    [Graphical view]
    TIGRFAMsiTIGR00216. ispH_lytB. 1 hit.
    ProtoNetiSearch...

    Entry informationi

    Entry nameiISPH_AQUAE
    AccessioniPrimary (citable) accession number: O67625
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 1, 2000
    Last sequence update: August 1, 1998
    Last modified: November 30, 2016
    This is version 103 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference 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

    Similar proteinsi

    Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
    100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
    90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
    50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.