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Protein

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

Gene

ispH

Organism
Yersinia pestis
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate (HMBPP) into a mixture of isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). Acts in the terminal step of the DOXP/MEP pathway for isoprenoid precursor biosynthesis.UniRule annotation

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+.UniRule annotation
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+.UniRule annotation

Cofactori

[4Fe-4S] clusterUniRule annotationNote: Binds 1 [4Fe-4S] cluster per subunit.UniRule annotation

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.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH), 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.UniRule annotation
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), 1-deoxy-D-xylulose 5-phosphate reductoisomerase (dxr)
  2. 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (ispD), 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (ispD)
  3. 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE), 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE)
  4. 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF)
  5. 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin) (ispG), 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin) (ispG)
  6. 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH), 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 bindingi12Iron-sulfur (4Fe-4S)UniRule annotation1
Binding sitei41SubstrateUniRule annotation1
Binding sitei74SubstrateUniRule annotation1
Metal bindingi97Iron-sulfur (4Fe-4S)UniRule annotation1
Binding sitei125SubstrateUniRule annotation1
Active sitei127Proton donorUniRule annotation1
Binding sitei168SubstrateUniRule annotation1
Metal bindingi198Iron-sulfur (4Fe-4S)UniRule annotation1
Binding sitei270SubstrateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionOxidoreductase
Biological processIsoprene biosynthesis
Ligand4Fe-4S, Iron, Iron-sulfur, Metal-binding

Enzyme and pathway databases

UniPathwayiUPA00056; UER00097.
UPA00059; UER00105.

Names & Taxonomyi

Protein namesi
Recommended name:
4-hydroxy-3-methylbut-2-enyl diphosphate reductaseUniRule annotation (EC:1.17.7.4UniRule annotation)
Short name:
HMBPP reductaseUniRule annotation
Gene namesi
Name:ispHUniRule annotation
Synonyms:lytB
Ordered Locus Names:YPO0477, y3697, YP_3702
OrganismiYersinia pestis
Taxonomic identifieri632 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesYersiniaceaeYersinia
Proteomesi
  • UP000000815 Componenti: Chromosome
  • UP000001019 Componenti: Chromosome
  • UP000002490 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001289031 – 3174-hydroxy-3-methylbut-2-enyl diphosphate reductaseAdd BLAST317

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

IntActiP58680. 4 interactors.
STRINGi187410.y3697.

Structurei

3D structure databases

SMRiP58680.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni226 – 228Substrate bindingUniRule annotation3

Sequence similaritiesi

Belongs to the IspH family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C48. Bacteria.
COG0761. LUCA.
HOGENOMiHOG000220192.
KOiK03527.

Family and domain databases

CDDicd13944. lytB_ispH. 1 hit.
HAMAPiMF_00191. IspH. 1 hit.
InterProiView protein in InterPro
IPR003451. LytB/IspH.
PANTHERiPTHR30426. PTHR30426. 1 hit.
PfamiView protein in Pfam
PF02401. LYTB. 1 hit.
TIGRFAMsiTIGR00216. ispH_lytB. 1 hit.

Sequencei

Sequence statusi: Complete.

P58680-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQILLANPRG FCAGVDRAIS IVERAIEMYG APIYVRHEVV HNRYVVESLC
60 70 80 90 100
ERGAIFIEEI SEVPDGSILI FSAHGVSQAV RAEARSRNLT MLFDATCPLV
110 120 130 140 150
TKVHMEVARA SRKGKEAILI GHAGHPEVEG TMGQYSNPNG GMYLVESPDD
160 170 180 190 200
VWQLNVKDEN NLCFMTQTTL SVDDTSAVID ALNTRFPKIV GPRKDDICYA
210 220 230 240 250
TTNRQEAVRN LANDADIVLV VGSKNSSNSN RLAELVQRMG KPAYLIDSAA
260 270 280 290 300
DIQEFWLQGA KCIGVTAGAS APDILVQQVI ARLKDLGAGE SIELSGREEN
310
IVFEVPKELR VEVKQID
Length:317
Mass (Da):34,709
Last modified:January 31, 2002 - v1
Checksum:iC40E953DCBA12168
GO

Sequence cautioni

The sequence AAM87245 differs from that shown. Reason: Erroneous initiation.Curated
The sequence AAS63850 differs from that shown. Reason: Erroneous initiation.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL590842 Genomic DNA. Translation: CAL19157.1.
AE009952 Genomic DNA. Translation: AAM87245.1. Different initiation.
AE017042 Genomic DNA. Translation: AAS63850.1. Different initiation.
PIRiAC0059.
RefSeqiWP_002210506.1. NZ_LT605019.1.
YP_002345550.1. NC_003143.1.

Genome annotation databases

EnsemblBacteriaiAAM87245; AAM87245; y3697.
AAS63850; AAS63850; YP_3702.
GeneIDi1173322.
KEGGiype:YPO0477.
ypk:y3697.
ypm:YP_3702.
PATRICifig|214092.21.peg.725.

Similar proteinsi

Entry informationi

Entry nameiISPH_YERPE
AccessioniPrimary (citable) accession number: P58680
Secondary accession number(s): Q0WJI8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 31, 2002
Last sequence update: January 31, 2002
Last modified: September 27, 2017
This is version 116 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families