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Protein

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

Gene

ispE

Organism
Gluconacetobacter diazotrophicus (strain ATCC 49037 / DSM 5601 / PAl5)
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 (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)LengthDescriptionGraphical viewFeature identifierActions
Active sitei17 – 171UniRule annotation
Active sitei154 – 1541UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi111 – 12111ATPUniRule annotationAdd
BLAST

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

BioCyciGDIA272568:GJPS-738-MONOMER.
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
Ordered Locus Names:GDI0728, Gdia_1283
OrganismiGluconacetobacter diazotrophicus (strain ATCC 49037 / DSM 5601 / PAl5)
Taxonomic identifieri272568 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodospirillalesAcetobacteraceaeGluconacetobacter
Proteomesi
  • UP000000736 Componenti: Chromosome
  • UP000001176 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 3053054-diphosphocytidyl-2-C-methyl-D-erythritol kinasePRO_0000335715Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi272568.GDI_0728.

Structurei

3D structure databases

ProteinModelPortaliA9HAC0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105CTR. Bacteria.
COG1947. LUCA.
HOGENOMiHOG000019600.
KOiK00919.
OMAiELAMIMQ.
OrthoDBiEOG62VNQ2.

Family and domain databases

Gene3Di3.30.230.10. 1 hit.
3.30.70.890. 1 hit.
HAMAPiMF_00061. IspE.
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.

A9HAC0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTDPTGTGTL HESAHAKINL YLHVTGRRPD GYHLLDSLAV FAGAADRLTL
60 70 80 90 100
RPGAAGQGEA VALDIAGAFG AGLVADTDSN LVLQAARRLR AEMGVTDRLA
110 120 130 140 150
PMRIVLEKSL PVASGIGGGS ADAAAALRLL LRAWPGEALP RARLMALAVE
160 170 180 190 200
LGADVPVCID QRAARMGGVG ERLAPAPALP NCGMMLVNCG EAVPTPAVFR
210 220 230 240 250
ARAPVFTPAA SLPSAWPDVG AMVRDLAALT NDLQDAACEL CPTIRTVLQV
260 270 280 290 300
LDAAPGCRLA RMSGSGATCF ALFDSPQGAR DAMTAVERPG WWVWAGGLHG

MPAET
Length:305
Mass (Da):31,481
Last modified:February 5, 2008 - v1
Checksum:iBF9839CBF565F43E
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti51 – 511R → H in ACI51065 (PubMed:21304715).Curated
Sequence conflicti62 – 621A → V in ACI51065 (PubMed:21304715).Curated
Sequence conflicti139 – 1391L → P in ACI51065 (PubMed:21304715).Curated
Sequence conflicti163 – 1631A → P in ACI51065 (PubMed:21304715).Curated
Sequence conflicti228 – 2281A → V in ACI51065 (PubMed:21304715).Curated
Sequence conflicti278 – 2781G → A in ACI51065 (PubMed:21304715).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM889285 Genomic DNA. Translation: CAP54671.1.
CP001189 Genomic DNA. Translation: ACI51065.1.
RefSeqiWP_012223358.1. NC_010125.1.
WP_012553689.1. NC_011365.1.

Genome annotation databases

EnsemblBacteriaiACI51065; ACI51065; Gdia_1283.
CAP54671; CAP54671; GDI0728.
KEGGigdi:GDI0728.
gdj:Gdia_1283.
PATRICi22050944. VBIGluDia203729_1277.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM889285 Genomic DNA. Translation: CAP54671.1.
CP001189 Genomic DNA. Translation: ACI51065.1.
RefSeqiWP_012223358.1. NC_010125.1.
WP_012553689.1. NC_011365.1.

3D structure databases

ProteinModelPortaliA9HAC0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272568.GDI_0728.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACI51065; ACI51065; Gdia_1283.
CAP54671; CAP54671; GDI0728.
KEGGigdi:GDI0728.
gdj:Gdia_1283.
PATRICi22050944. VBIGluDia203729_1277.

Phylogenomic databases

eggNOGiENOG4105CTR. Bacteria.
COG1947. LUCA.
HOGENOMiHOG000019600.
KOiK00919.
OMAiELAMIMQ.
OrthoDBiEOG62VNQ2.

Enzyme and pathway databases

UniPathwayiUPA00056; UER00094.
BioCyciGDIA272568:GJPS-738-MONOMER.

Family and domain databases

Gene3Di3.30.230.10. 1 hit.
3.30.70.890. 1 hit.
HAMAPiMF_00061. IspE.
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...

Publicationsi

  1. "Complete genome sequence of the sugarcane nitrogen-fixing endophyte Gluconacetobacter diazotrophicus Pal5."
    Bertalan M., Albano R., de Padua V., Rouws L., Rojas C., Hemerly A., Teixeira K., Schwab S., Araujo J., Oliveira A., Franca L., Magalhaes V., Alqueres S., Cardoso A., Almeida W., Loureiro M.M., Nogueira E., Cidade D.
    , Oliveira D., Simao T., Macedo J., Valadao A., Dreschsel M., Freitas F., Vidal M., Guedes H., Rodrigues E., Meneses C., Brioso P., Pozzer L., Figueiredo D., Montano H., Junior J., de Souza Filho G., Martin Quintana Flores V., Ferreira B., Branco A., Gonzalez P., Guillobel H., Lemos M., Seibel L., Macedo J., Alves-Ferreira M., Sachetto-Martins G., Coelho A., Santos E., Amaral G., Neves A., Pacheco A.B., Carvalho D., Lery L., Bisch P., Rossle S.C., Urmenyi T., Rael Pereira A., Silva R., Rondinelli E., von Kruger W., Martins O., Baldani J.I., Ferreira P.C.
    BMC Genomics 10:450-450(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 49037 / DSM 5601 / PAl5.
  2. "Two genome sequences of the same bacterial strain, Gluconacetobacter diazotrophicus PAl 5, suggest a new standard in genome sequence submission."
    Giongo A., Tyler H.L., Zipperer U.N., Triplett E.W.
    Stand. Genomic Sci. 2:309-317(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 49037 / DSM 5601 / PAl5.

Entry informationi

Entry nameiISPE_GLUDA
AccessioniPrimary (citable) accession number: A9HAC0
Secondary accession number(s): B5ZHI5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: February 5, 2008
Last modified: January 20, 2016
This is version 57 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.