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Protein

4-diphosphocytidyl-2-C-methyl-D-erythritol kinase

Gene

ispE

Organism
Bradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol.UniRule annotation

Catalytic activityi

ATP + 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol = ADP + 2-phospho-4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol.UniRule annotation

Pathwayi: isopentenyl diphosphate biosynthesis via DXP pathway

This protein is involved in step 3 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)
  2. Bifunctional enzyme IspD/IspF (ispDF)
  3. 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase (ispE)
  4. Bifunctional enzyme IspD/IspF (ispDF)
  5. 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (flavodoxin) (ispG)
  6. 4-hydroxy-3-methylbut-2-enyl diphosphate reductase 2 (ispH2), 4-hydroxy-3-methylbut-2-enyl diphosphate reductase 1 (ispH1)
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
Active sitei14UniRule annotation1
Active sitei141UniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi99 – 109ATPUniRule annotationAdd BLAST11

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Kinase, Transferase

Keywords - Biological processi

Isoprene biosynthesis

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

UniPathwayiUPA00056; UER00094.

Names & Taxonomyi

Protein namesi
Recommended name:
4-diphosphocytidyl-2-C-methyl-D-erythritol kinaseUniRule annotation (EC:2.7.1.148UniRule annotation)
Short name:
CMKUniRule annotation
Alternative name(s):
4-(cytidine-5'-diphospho)-2-C-methyl-D-erythritol kinaseUniRule annotation
Gene namesi
Name:ispEUniRule annotation
Synonyms:ipk
Ordered Locus Names:blr2526
OrganismiBradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 110)
Taxonomic identifieri224911 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium
Proteomesi
  • UP000002526 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001891941 – 2974-diphosphocytidyl-2-C-methyl-D-erythritol kinaseAdd BLAST297

Interactioni

Protein-protein interaction databases

STRINGi224911.blr2526.

Structurei

3D structure databases

ProteinModelPortaliQ89S79.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the GHMP kinase family. IspE subfamily.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105CTR. Bacteria.
COG1947. LUCA.
HOGENOMiHOG000019600.
InParanoidiQ89S79.
KOiK00919.
OMAiFVLTGPF.
OrthoDBiPOG091H00XD.
PhylomeDBiQ89S79.

Family and domain databases

Gene3Di3.30.230.10. 1 hit.
3.30.70.890. 1 hit.
HAMAPiMF_00061. IspE. 1 hit.
InterProiIPR013750. GHMP_kinase_C_dom.
IPR006204. GHMP_kinase_N_dom.
IPR004424. IspE.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
[Graphical view]
PANTHERiPTHR20861:SF2. PTHR20861:SF2. 1 hit.
PfamiPF08544. GHMP_kinases_C. 1 hit.
PF00288. GHMP_kinases_N. 1 hit.
[Graphical view]
PIRSFiPIRSF010376. IspE. 1 hit.
SUPFAMiSSF54211. SSF54211. 1 hit.
SSF55060. SSF55060. 1 hit.
TIGRFAMsiTIGR00154. ispE. 1 hit.

Sequencei

Sequence statusi: Complete.

Q89S79-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSPMPALIEE GRAKVNLSLR VVGRRADGYH DLESVVAFAD CADRLTLEPG
60 70 80 90 100
GELKLATTGP LAAACGDTAD NLVFKAAKLL AEAVPNLKLG AFALDKVLPV
110 120 130 140 150
AAGIGGGSAD AAAALRLLAR LNNLSLDDPR LQKVALATGA DVPVCLYSRA
160 170 180 190 200
CDMTGVGEQL LPLALPSMPC VMVNPRVPVA TKDVFQALGL RNGELLVGAT
210 220 230 240 250
SVIGAPAWPE EGASIADWVE VLETVANDLE APAMRIEPVI GEVLEALRDS
260 270 280 290
AGVKLARMSG SGATCFAIYG APAEAHAAAE KIRRDHPGWW VHAGTLS
Length:297
Mass (Da):30,754
Last modified:June 1, 2003 - v1
Checksum:iDD77EC6137ECD817
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000040 Genomic DNA. Translation: BAC47791.1.
RefSeqiNP_769166.1. NC_004463.1.
WP_011085313.1. NC_004463.1.

Genome annotation databases

EnsemblBacteriaiBAC47791; BAC47791; BAC47791.
GeneIDi1050340.
KEGGibja:blr2526.
PATRICi21188448. VBIBraJap65052_2484.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000040 Genomic DNA. Translation: BAC47791.1.
RefSeqiNP_769166.1. NC_004463.1.
WP_011085313.1. NC_004463.1.

3D structure databases

ProteinModelPortaliQ89S79.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224911.blr2526.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAC47791; BAC47791; BAC47791.
GeneIDi1050340.
KEGGibja:blr2526.
PATRICi21188448. VBIBraJap65052_2484.

Phylogenomic databases

eggNOGiENOG4105CTR. Bacteria.
COG1947. LUCA.
HOGENOMiHOG000019600.
InParanoidiQ89S79.
KOiK00919.
OMAiFVLTGPF.
OrthoDBiPOG091H00XD.
PhylomeDBiQ89S79.

Enzyme and pathway databases

UniPathwayiUPA00056; UER00094.

Family and domain databases

Gene3Di3.30.230.10. 1 hit.
3.30.70.890. 1 hit.
HAMAPiMF_00061. IspE. 1 hit.
InterProiIPR013750. GHMP_kinase_C_dom.
IPR006204. GHMP_kinase_N_dom.
IPR004424. IspE.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
[Graphical view]
PANTHERiPTHR20861:SF2. PTHR20861:SF2. 1 hit.
PfamiPF08544. GHMP_kinases_C. 1 hit.
PF00288. GHMP_kinases_N. 1 hit.
[Graphical view]
PIRSFiPIRSF010376. IspE. 1 hit.
SUPFAMiSSF54211. SSF54211. 1 hit.
SSF55060. SSF55060. 1 hit.
TIGRFAMsiTIGR00154. ispE. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiISPE_BRADU
AccessioniPrimary (citable) accession number: Q89S79
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 16, 2004
Last sequence update: June 1, 2003
Last modified: November 2, 2016
This is version 72 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

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. 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.