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Protein

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

Gene

ispD

Organism
Neisseria gonorrhoeae (strain ATCC 700825 / FA 1090)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate (MEP).UniRule annotation

Catalytic activityi

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

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.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. 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)LengthDescriptionGraphical viewFeature identifierActions
Sitei17 – 171Transition state stabilizerUniRule annotation
Sitei24 – 241Transition state stabilizerUniRule annotation
Sitei158 – 1581Positions MEP for the nucleophilic attackUniRule annotation
Sitei212 – 2121Positions MEP for the nucleophilic attackUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, Transferase

Keywords - Biological processi

Isoprene biosynthesis

Enzyme and pathway databases

BioCyciNGON242231:GI2G-900-MONOMER.
UniPathwayiUPA00056; UER00093.

Names & Taxonomyi

Protein namesi
Recommended name:
2-C-methyl-D-erythritol 4-phosphate cytidylyltransferaseUniRule annotation (EC:2.7.7.60UniRule annotation)
Alternative name(s):
4-diphosphocytidyl-2C-methyl-D-erythritol synthaseUniRule annotation
MEP cytidylyltransferaseUniRule annotation
Short name:
MCTUniRule annotation
Gene namesi
Name:ispDUniRule annotation
Ordered Locus Names:NGO0972
OrganismiNeisseria gonorrhoeae (strain ATCC 700825 / FA 1090)
Taxonomic identifieri242231 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaNeisserialesNeisseriaceaeNeisseria
Proteomesi
  • UP000000535 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 2292292-C-methyl-D-erythritol 4-phosphate cytidylyltransferasePRO_0000237799Add
BLAST

Structurei

Secondary structure

1
229
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi5 – 106Combined sources
Helixi34 – 4310Combined sources
Beta strandi50 – 545Combined sources
Helixi62 – 687Combined sources
Beta strandi72 – 754Combined sources
Helixi82 – 9615Combined sources
Beta strandi97 – 993Combined sources
Beta strandi103 – 1075Combined sources
Helixi117 – 12711Combined sources
Beta strandi134 – 1396Combined sources
Beta strandi144 – 15613Combined sources
Beta strandi161 – 17111Combined sources
Helixi172 – 1809Combined sources
Helixi190 – 1956Combined sources
Turni196 – 1983Combined sources
Beta strandi202 – 2054Combined sources
Helixi216 – 22510Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1VGWX-ray2.35A/B/C/D/E/F2-229[»]
1VGZX-ray3.00A/B2-229[»]
ProteinModelPortaliQ5F829.
SMRiQ5F829. Positions 1-227.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ5F829.

Family & Domainsi

Sequence similaritiesi

Belongs to the IspD family.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000218564.
KOiK00991.
OMAiQAYTPQM.
OrthoDBiEOG6J48RZ.

Family and domain databases

Gene3Di3.90.550.10. 1 hit.
HAMAPiMF_00108. IspD.
InterProiIPR001228. IspD.
IPR018294. ISPD_synthase_CS.
IPR029044. Nucleotide-diphossugar_trans.
[Graphical view]
PfamiPF01128. IspD. 1 hit.
[Graphical view]
SUPFAMiSSF53448. SSF53448. 1 hit.
TIGRFAMsiTIGR00453. ispD. 1 hit.
PROSITEiPS01295. ISPD. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5F829-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKRKNIALIP AAGIGVRFGA DKPKQYVEIG SKTVLEHVLG IFERHEAVDL
60 70 80 90 100
TVVVVSPEDT FADKVQTAFP QVRVWKNGGQ TRAETVRNGV AKLLETGLAA
110 120 130 140 150
ETDNILVHDA ARCCLPSEAL ARLIEQAGNA AEGGILAVPV ADTLKRAESG
160 170 180 190 200
QISATVDRSG LWQAQTPQLF QAGLLHRALA AENLGGITDE ASAVEKLGVR
210 220
PLLIQGDARN LKLTQPQDAY IVRLLLNAV
Length:229
Mass (Da):24,467
Last modified:March 15, 2005 - v1
Checksum:i49E86A75051231A9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE004969 Genomic DNA. Translation: AAW89658.1.
RefSeqiWP_003693342.1. NC_002946.2.
YP_208070.1. NC_002946.2.

Genome annotation databases

EnsemblBacteriaiAAW89658; AAW89658; NGO_0972.
GeneIDi3281402.
KEGGingo:NGO_0972.
PATRICi20335138. VBINeiGon24812_1138.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE004969 Genomic DNA. Translation: AAW89658.1.
RefSeqiWP_003693342.1. NC_002946.2.
YP_208070.1. NC_002946.2.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1VGWX-ray2.35A/B/C/D/E/F2-229[»]
1VGZX-ray3.00A/B2-229[»]
ProteinModelPortaliQ5F829.
SMRiQ5F829. Positions 1-227.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAW89658; AAW89658; NGO_0972.
GeneIDi3281402.
KEGGingo:NGO_0972.
PATRICi20335138. VBINeiGon24812_1138.

Phylogenomic databases

HOGENOMiHOG000218564.
KOiK00991.
OMAiQAYTPQM.
OrthoDBiEOG6J48RZ.

Enzyme and pathway databases

UniPathwayiUPA00056; UER00093.
BioCyciNGON242231:GI2G-900-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ5F829.

Family and domain databases

Gene3Di3.90.550.10. 1 hit.
HAMAPiMF_00108. IspD.
InterProiIPR001228. IspD.
IPR018294. ISPD_synthase_CS.
IPR029044. Nucleotide-diphossugar_trans.
[Graphical view]
PfamiPF01128. IspD. 1 hit.
[Graphical view]
SUPFAMiSSF53448. SSF53448. 1 hit.
TIGRFAMsiTIGR00453. ispD. 1 hit.
PROSITEiPS01295. ISPD. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "The complete genome sequence of Neisseria gonorrhoeae."
    Lewis L.A., Gillaspy A.F., McLaughlin R.E., Gipson M., Ducey T.F., Ownbey T., Hartman K., Nydick C., Carson M.B., Vaughn J., Thomson C., Song L., Lin S., Yuan X., Najar F., Zhan M., Ren Q., Zhu H.
    , Qi S., Kenton S.M., Lai H., White J.D., Clifton S., Roe B.A., Dyer D.W.
    Submitted (MAR-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700825 / FA 1090.

Entry informationi

Entry nameiISPD_NEIG1
AccessioniPrimary (citable) accession number: Q5F829
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2006
Last sequence update: March 15, 2005
Last modified: July 6, 2016
This is version 78 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.