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Protein

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

Gene

ispD2

Organism
Listeria monocytogenes serotype 4b (strain F2365)
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).By similarity

Catalytic activityi

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

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 (dxr)
  2. 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase 1 (ispD1), Putative 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase 2 (ispD2)
  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
Sitei14 – 141Transition state stabilizerBy similarity
Sitei22 – 221Transition state stabilizerBy similarity
Sitei159 – 1591Positions MEP for the nucleophilic attackBy similarity
Sitei216 – 2161Positions MEP for the nucleophilic attackBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, Transferase

Keywords - Biological processi

Isoprene biosynthesis

Enzyme and pathway databases

UniPathwayiUPA00056; UER00093.

Names & Taxonomyi

Protein namesi
Recommended name:
Putative 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase 2 (EC:2.7.7.60)
Alternative name(s):
4-diphosphocytidyl-2C-methyl-D-erythritol synthase 2
MEP cytidylyltransferase 2
Short name:
MCT 2
Gene namesi
Name:ispD2
Ordered Locus Names:LMOf2365_1100
OrganismiListeria monocytogenes serotype 4b (strain F2365)
Taxonomic identifieri265669 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesListeriaceaeListeria

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 237237Putative 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase 2PRO_0000075586Add
BLAST

Structurei

Secondary structure

1
237
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 76Combined sources
Helixi22 – 243Combined sources
Beta strandi25 – 273Combined sources
Helixi32 – 4110Combined sources
Beta strandi47 – 537Combined sources
Helixi55 – 573Combined sources
Helixi58 – 6811Combined sources
Beta strandi74 – 785Combined sources
Helixi83 – 9715Combined sources
Beta strandi105 – 1106Combined sources
Helixi118 – 13013Combined sources
Beta strandi132 – 1398Combined sources
Beta strandi144 – 1463Combined sources
Beta strandi148 – 1525Combined sources
Helixi159 – 1613Combined sources
Beta strandi162 – 17211Combined sources
Helixi173 – 1819Combined sources
Helixi185 – 1906Combined sources
Helixi194 – 2007Combined sources
Beta strandi206 – 2094Combined sources
Helixi220 – 23314Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3F1CX-ray2.30A/B2-236[»]
ProteinModelPortaliQ720Y7.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ720Y7.

Family & Domainsi

Sequence similaritiesi

Belongs to the IspD family.Curated

Phylogenomic databases

HOGENOMiHOG000218563.
KOiK00991.
OMAiNDRFDKI.
OrthoDBiEOG6FFS8T.

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.
PROSITEiPS01295. ISPD. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q720Y7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIYAQILAGG KGTRMGNVSM PKQFLPLNGK PIIVHTVEKF ILNTRFDKIL
60 70 80 90 100
ISSPKEWMNH AEDNIKKYIS DDRIVVIEGG EDRNETIMNG IRFVEKTYGL
110 120 130 140 150
TDDDIIVTHD AVRPFLTHRI IEENIDAALE TGAVDTVIEA LDTIVESSNH
160 170 180 190 200
EVITDIPVRD HMYQGQTPQS FNMKKVFNHY QNLTPEKKQI LTDACKICLL
210 220 230
AGDDVKLVKG EIFNIKITTP YDLKVANAII QERIAND
Length:237
Mass (Da):26,793
Last modified:July 5, 2004 - v1
Checksum:i72A1EEA5300BE053
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017262 Genomic DNA. Translation: AAT03877.1.
RefSeqiWP_003724626.1. NC_002973.6.

Genome annotation databases

EnsemblBacteriaiAAT03877; AAT03877; LMOf2365_1100.
KEGGilmf:LMOf2365_1100.
PATRICi20323436. VBILisMon105049_1107.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017262 Genomic DNA. Translation: AAT03877.1.
RefSeqiWP_003724626.1. NC_002973.6.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3F1CX-ray2.30A/B2-236[»]
ProteinModelPortaliQ720Y7.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

DNASUi2799328.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAT03877; AAT03877; LMOf2365_1100.
KEGGilmf:LMOf2365_1100.
PATRICi20323436. VBILisMon105049_1107.

Phylogenomic databases

HOGENOMiHOG000218563.
KOiK00991.
OMAiNDRFDKI.
OrthoDBiEOG6FFS8T.

Enzyme and pathway databases

UniPathwayiUPA00056; UER00093.

Miscellaneous databases

EvolutionaryTraceiQ720Y7.

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.
PROSITEiPS01295. ISPD. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: F2365.

Entry informationi

Entry nameiISPD2_LISMF
AccessioniPrimary (citable) accession number: Q720Y7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 31, 2004
Last sequence update: July 5, 2004
Last modified: November 11, 2015
This is version 73 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

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.