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Protein

2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic

Gene

ISPD

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Enzyme of the plastid non-mevalonate pathway for isoprenoid biosynthesis that catalyzes the formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate (MEP). Is essential for chloroplast development and required for pigments and gibberellins biosynthesis.3 Publications

Catalytic activityi

CTP + 2-C-methyl-D-erythritol 4-phosphate = diphosphate + 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol.

Cofactori

Mg2+2 Publications, Ni2+2 Publications, Mn2+2 PublicationsNote: Divalent metal cations. Mg2+, Ni2+ and Mn2+ are the most effective. Co2+ and Ca2+ are only minimally effective.2 Publications

Kineticsi

  1. KM=114 µM for CTP1 Publication
  2. KM=500 µM for MEP1 Publication
  1. Vmax=67 µmol/min/mg enzyme1 Publication

Pathwayi: isopentenyl diphosphate biosynthesis via DXP pathway

This protein is involved in step 2 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, chloroplastic (DXR)
  2. 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic (ISPD)
  3. 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase, chloroplastic (ISPE)
  4. 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, chloroplastic (ISPF)
  5. 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase (ferredoxin), chloroplastic (ISPG)
  6. 4-hydroxy-3-methylbut-2-enyl diphosphate reductase, chloroplastic (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
Sitei91Transition state stabilizerBy similarity1
Sitei98Transition state stabilizerBy similarity1
Sitei228Positions MEP for the nucleophilic attackBy similarity1
Sitei284Positions MEP for the nucleophilic attackBy similarity1

GO - Molecular functioni

  • 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity Source: TAIR

GO - Biological processi

  • isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway Source: TAIR

Keywordsi

Molecular functionNucleotidyltransferase, Transferase
Biological processIsoprene biosynthesis

Enzyme and pathway databases

BioCyciARA:AT2G02500-MONOMER
MetaCyc:AT2G02500-MONOMER
BRENDAi2.7.7.60 399
SABIO-RKiP69834
UniPathwayi
UPA00056;UER00093

Names & Taxonomyi

Protein namesi
Recommended name:
2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic (EC:2.7.7.60)
Alternative name(s):
4-diphosphocytidyl-2C-methyl-D-erythritol synthase
MEP cytidylyltransferase
Short name:
AtMECT
Short name:
AtMEPCT
Gene namesi
Name:ISPD
Synonyms:MCT, MECT, MEPCT
Ordered Locus Names:At2g02500
ORF Names:T8K22.20
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 2

Organism-specific databases

AraportiAT2G02500
TAIRilocus:2065264 AT2G02500

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Chloroplast, Plastid

Pathology & Biotechi

Disruption phenotypei

Albino phenotype and seedling lethal when homozygous. The phenotype is caused by an early arrest in chloroplast differentiation.1 Publication

Chemistry databases

ChEMBLiCHEMBL2285353

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 61ChloroplastSequence analysisCombined sourcesAdd BLAST61
ChainiPRO_000001647862 – 3022-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplasticAdd BLAST241

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei62N-acetylserineCombined sources1

Keywords - PTMi

Acetylation

Proteomic databases

PaxDbiP69834
PRIDEiP69834

PTM databases

iPTMnetiP69834

Expressioni

Tissue specificityi

Expressed in leaves, stems and flowers, but not in roots.2 Publications

Inductioni

Circadian-regulated with a peak in the late period of the light phase.2 Publications

Gene expression databases

ExpressionAtlasiP69834 baseline and differential
GenevisibleiP69834 AT

Interactioni

Protein-protein interaction databases

STRINGi3702.AT2G02500.1

Structurei

Secondary structure

1302
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliP69834
SMRiP69834
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP69834

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiENOG410IIH2 Eukaryota
COG1211 LUCA
HOGENOMiHOG000218563
InParanoidiP69834
KOiK00991
OMAiERQHSVY
OrthoDBiEOG09360I4J
PhylomeDBiP69834

Family and domain databases

CDDicd02516 CDP-ME_synthetase, 1 hit
Gene3Di3.90.550.10, 1 hit
HAMAPiMF_00108 IspD, 1 hit
InterProiView protein in InterPro
IPR001228 IspD
IPR034683 IspD/TarI
IPR018294 ISPD_synthase_CS
IPR029044 Nucleotide-diphossugar_trans
PfamiView protein in Pfam
PF01128 IspD, 1 hit
SUPFAMiSSF53448 SSF53448, 1 hit
TIGRFAMsiTIGR00453 ispD, 1 hit
PROSITEiView protein in PROSITE
PS01295 ISPD, 1 hit

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P69834-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAMLQTNLGF ITSPTFLCPK LKVKLNSYLW FSYRSQVQKL DFSKRVNRSY
60 70 80 90 100
KRDALLLSIK CSSSTGFDNS NVVVKEKSVS VILLAGGQGK RMKMSMPKQY
110 120 130 140 150
IPLLGQPIAL YSFFTFSRMP EVKEIVVVCD PFFRDIFEEY EESIDVDLRF
160 170 180 190 200
AIPGKERQDS VYSGLQEIDV NSELVCIHDS ARPLVNTEDV EKVLKDGSAV
210 220 230 240 250
GAAVLGVPAK ATIKEVNSDS LVVKTLDRKT LWEMQTPQVI KPELLKKGFE
260 270 280 290 300
LVKSEGLEVT DDVSIVEYLK HPVYVSQGSY TNIKVTTPDD LLLAERILSE

DS
Length:302
Mass (Da):33,937
Last modified:May 24, 2005 - v1
Checksum:i7881DC5C8CE37B06
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF230737 mRNA Translation: AAF61714.1
AB037876 mRNA Translation: BAB21592.1
AC004136 Genomic DNA Translation: AAC18936.2
CP002685 Genomic DNA Translation: AEC05588.1
CP002685 Genomic DNA Translation: ANM63324.1
AK118110 mRNA Translation: BAC42737.1
BT006120 mRNA Translation: AAP04105.1
PIRiT00613
RefSeqiNP_001325418.1, NM_001335124.1
NP_565286.1, NM_126305.3
UniGeneiAt.10212

Genome annotation databases

EnsemblPlantsiAT2G02500.1; AT2G02500.1; AT2G02500
AT2G02500.2; AT2G02500.2; AT2G02500
GeneIDi814779
GrameneiAT2G02500.1; AT2G02500.1; AT2G02500
AT2G02500.2; AT2G02500.2; AT2G02500
KEGGiath:AT2G02500

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF230737 mRNA Translation: AAF61714.1
AB037876 mRNA Translation: BAB21592.1
AC004136 Genomic DNA Translation: AAC18936.2
CP002685 Genomic DNA Translation: AEC05588.1
CP002685 Genomic DNA Translation: ANM63324.1
AK118110 mRNA Translation: BAC42737.1
BT006120 mRNA Translation: AAP04105.1
PIRiT00613
RefSeqiNP_001325418.1, NM_001335124.1
NP_565286.1, NM_126305.3
UniGeneiAt.10212

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1W77X-ray2.00A76-302[»]
2YC3X-ray1.40A76-302[»]
2YC5X-ray1.60A76-302[»]
2YCMX-ray1.80A76-302[»]
4NAIX-ray1.50A76-302[»]
4NAKX-ray1.80A76-302[»]
4NALX-ray1.80A76-302[»]
4NANX-ray1.80A76-302[»]
5MRMX-ray1.80A76-302[»]
5MRNX-ray2.00A76-302[»]
5MROX-ray1.80A76-302[»]
5MRPX-ray1.90A76-302[»]
5MRQX-ray2.20A76-302[»]
ProteinModelPortaliP69834
SMRiP69834
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi3702.AT2G02500.1

Chemistry databases

ChEMBLiCHEMBL2285353

PTM databases

iPTMnetiP69834

Proteomic databases

PaxDbiP69834
PRIDEiP69834

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT2G02500.1; AT2G02500.1; AT2G02500
AT2G02500.2; AT2G02500.2; AT2G02500
GeneIDi814779
GrameneiAT2G02500.1; AT2G02500.1; AT2G02500
AT2G02500.2; AT2G02500.2; AT2G02500
KEGGiath:AT2G02500

Organism-specific databases

AraportiAT2G02500
TAIRilocus:2065264 AT2G02500

Phylogenomic databases

eggNOGiENOG410IIH2 Eukaryota
COG1211 LUCA
HOGENOMiHOG000218563
InParanoidiP69834
KOiK00991
OMAiERQHSVY
OrthoDBiEOG09360I4J
PhylomeDBiP69834

Enzyme and pathway databases

UniPathwayi
UPA00056;UER00093

BioCyciARA:AT2G02500-MONOMER
MetaCyc:AT2G02500-MONOMER
BRENDAi2.7.7.60 399
SABIO-RKiP69834

Miscellaneous databases

EvolutionaryTraceiP69834
PROiPR:P69834

Gene expression databases

ExpressionAtlasiP69834 baseline and differential
GenevisibleiP69834 AT

Family and domain databases

CDDicd02516 CDP-ME_synthetase, 1 hit
Gene3Di3.90.550.10, 1 hit
HAMAPiMF_00108 IspD, 1 hit
InterProiView protein in InterPro
IPR001228 IspD
IPR034683 IspD/TarI
IPR018294 ISPD_synthase_CS
IPR029044 Nucleotide-diphossugar_trans
PfamiView protein in Pfam
PF01128 IspD, 1 hit
SUPFAMiSSF53448 SSF53448, 1 hit
TIGRFAMsiTIGR00453 ispD, 1 hit
PROSITEiView protein in PROSITE
PS01295 ISPD, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiISPD_ARATH
AccessioniPrimary (citable) accession number: P69834
Secondary accession number(s): O64726, Q9LL91
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 24, 2005
Last sequence update: May 24, 2005
Last modified: May 23, 2018
This is version 108 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  3. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  4. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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