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P62615 (ISPE_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 89. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
4-diphosphocytidyl-2-C-methyl-D-erythritol kinase

Short name=CMK
EC=2.7.1.148
Alternative name(s):
4-(cytidine-5'-diphospho)-2-C-methyl-D-erythritol kinase
Gene names
Name:ispE
Synonyms:ipk, ychB
Ordered Locus Names:b1208, JW1199
OrganismEscherichia coli (strain K12) [Reference proteome] [HAMAP]
Taxonomic identifier83333 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia

Protein attributes

Sequence length283 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Catalyzes the phosphorylation of the position 2 hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol. Phosphorylates isopentenyl phosphate at low rates. Also acts on isopentenol, and, much less efficiently, dimethylallyl alcohol. Dimethylallyl monophosphate does not serve as a substrate. HAMAP-Rule MF_00061

Catalytic activity

ATP + 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol = ADP + 2-phospho-4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol. HAMAP-Rule MF_00061

Pathway

Isoprenoid biosynthesis; isopentenyl diphosphate biosynthesis via DXP pathway; isopentenyl diphosphate from 1-deoxy-D-xylulose 5-phosphate: step 3/6. HAMAP-Rule MF_00061

Subunit structure

Homodimer By similarity. HAMAP-Rule MF_00061

Sequence similarities

Belongs to the GHMP kinase family. IspE subfamily.

Caution

Was originally (Ref.1) thought to be an isopentenyl monophosphate kinase.

Sequence caution

The sequence BAA01106.1 differs from that shown. Reason: Frameshift at position 50.

Binary interactions

With

Entry

#Exp.

IntAct

Notes

glmSP171691EBI-562202,EBI-551022

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 2832834-diphosphocytidyl-2-C-methyl-D-erythritol kinase HAMAP-Rule MF_00061
PRO_0000189215

Regions

Nucleotide binding99 – 10911ATP Potential

Sites

Active site101 By similarity
Active site1411 By similarity

Experimental info

Mutagenesis2391G → R: Loss of activity. Ref.10
Mutagenesis2401T → I: Loss of activity. Ref.10
Sequence conflict208 – 27669SNDCE…GANLS → TQAYGRANTKGAPFRRTAVK CRSLGKLLLECAGKCLLRVE AVLQRDVQNRTRSQA in BAA01106. Ref.1

Secondary structure

.......................................... 283
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P62615 [UniParc].

Last modified July 19, 2004. Version 1.
Checksum: 59A2921FA05D13E1

FASTA28330,925
        10         20         30         40         50         60 
MRTQWPSPAK LNLFLYITGQ RADGYHTLQT LFQFLDYGDT ISIELRDDGD IRLLTPVEGV 

        70         80         90        100        110        120 
EHEDNLIVRA ARLLMKTAAD SGRLPTGSGA NISIDKRLPM GGGLGGGSSN AATVLVALNH 

       130        140        150        160        170        180 
LWQCGLSMDE LAEMGLTLGA DVPVFVRGHA AFAEGVGEIL TPVDPPEKWY LVAHPGVSIP 

       190        200        210        220        230        240 
TPVIFKDPEL PRNTPKRSIE TLLKCEFSND CEVIARKRFR EVDAVLSWLL EYAPSRLTGT 

       250        260        270        280 
GACVFAEFDT ESEARQVLEQ APEWLNGFVA KGANLSPLHR AML 

« Hide

References

« Hide 'large scale' references
[1]"Cloning and characterization of genes involved in the biosynthesis of delta-aminolevulinic acid in Escherichia coli."
Ikemi M., Murakami K., Hashimoto M., Murooka Y.
Gene 121:127-132(1992) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]"Characterization of the hemA-prs region of the Escherichia coli and Salmonella typhimurium chromosomes: identification of two open reading frames and implications for prs expression."
Post D.A., Hove-Jensen B., Switzer R.L.
J. Gen. Microbiol. 139:259-266(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: K12.
[3]"Expression of genes kdsA and kdsB involved in 3-deoxy-D-manno-octulosonic acid metabolism and biosynthesis of enterobacterial lipopolysaccharide is growth phase regulated primarily at the transcriptional level in Escherichia coli K-12."
Strohmaier H., Remler P., Renner W., Hoegenauer G.
J. Bacteriol. 177:4488-4500(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: K12.
[4]"Isopentenyl diphosphate biosynthesis via a mevalonate-independent pathway: isopentenyl monophosphate kinase catalyzes the terminal enzymatic step."
Lange B.M., Croteau R.
Proc. Natl. Acad. Sci. U.S.A. 96:13714-13719(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], CHARACTERIZATION.
Strain: K12 / MG1655 / ATCC 47076.
[5]"Biosynthesis of terpenoids: YchB protein of Escherichia coli phosphorylates the 2-hydroxy group of 4-diphosphocytidyl-2C-methyl-D-erythritol."
Luettgen H., Rohdich F., Herz S., Wungsintaweekul J., Hecht S., Schuhr C.A., Fellermeier M., Sagner S., Zenk M.H., Bacher A., Eisenreich W.
Proc. Natl. Acad. Sci. U.S.A. 97:1062-1067(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], CHARACTERIZATION.
[6]"Studies on the nonmevalonate pathway: conversion of 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol to its 2-phospho derivative by 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase."
Kuzuyama T., Takagi M., Kaneda K., Watanabe H., Dairi T., Seto H.
Tetrahedron Lett. 41:2925-2928(2000)
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], CHARACTERIZATION.
Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[7]"A 718-kb DNA sequence of the Escherichia coli K-12 genome corresponding to the 12.7-28.0 min region on the linkage map."
Oshima T., Aiba H., Baba T., Fujita K., Hayashi K., Honjo A., Ikemoto K., Inada T., Itoh T., Kajihara M., Kanai K., Kashimoto K., Kimura S., Kitagawa M., Makino K., Masuda S., Miki T., Mizobuchi K. expand/collapse author list , Mori H., Motomura K., Nakamura Y., Nashimoto H., Nishio Y., Saito N., Sampei G., Seki Y., Tagami H., Takemoto K., Wada C., Yamamoto Y., Yano M., Horiuchi T.
DNA Res. 3:137-155(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[8]"The complete genome sequence of Escherichia coli K-12."
Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y.
Science 277:1453-1462(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / MG1655 / ATCC 47076.
[9]"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[10]"Identification of lethal mutations in Escherichia coli genes encoding enzymes of the methylerythritol phosphate pathway."
Sauret-Gueeto S., Ramos-Valdivia A., Ibanez E., Boronat A., Rodriguez-Concepcion M.
Biochem. Biophys. Res. Commun. 307:408-415(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: MUTAGENESIS OF GLY-239 AND THR-240.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
D10264 Genomic DNA. Translation: BAA01106.1. Frameshift.
M77237 Genomic DNA. Translation: AAA24434.1.
U18555 Genomic DNA. Translation: AAC43434.1.
AJ249325 Genomic DNA. Translation: CAB64963.1.
AF179284 Genomic DNA. Translation: AAF13867.1.
AF216300 Genomic DNA. Translation: AAF29530.1.
AB037116 Genomic DNA. Translation: BAA94247.1.
U00096 Genomic DNA. Translation: AAC74292.1.
AP009048 Genomic DNA. Translation: BAA36066.1.
PIRB47706.
RefSeqNP_415726.1. NC_000913.3.
YP_489475.1. NC_007779.1.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
2WW4X-ray2.00A/B1-283[»]
ProteinModelPortalP62615.
SMRP62615. Positions 1-282.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-48028N.
IntActP62615. 1 interaction.
STRING511145.b1208.

Proteomic databases

PaxDbP62615.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAC74292; AAC74292; b1208.
BAA36066; BAA36066; BAA36066.
GeneID12931821.
945774.
KEGGecj:Y75_p1180.
eco:b1208.
PATRIC32117668. VBIEscCol129921_1256.

Organism-specific databases

EchoBASEEB1271.
EcoGeneEG11294. ispE.

Phylogenomic databases

eggNOGCOG1947.
HOGENOMHOG000019601.
KOK00919.
OMAVSTAEIF.
OrthoDBEOG62VNQ2.
PhylomeDBP62615.
ProtClustDBPRK00343.

Enzyme and pathway databases

BioCycEcoCyc:EG11294-MONOMER.
ECOL316407:JW1199-MONOMER.
MetaCyc:EG11294-MONOMER.
UniPathwayUPA00056; UER00094.

Gene expression databases

GenevestigatorP62615.

Family and domain databases

Gene3D3.30.230.10. 1 hit.
3.30.70.890. 1 hit.
HAMAPMF_00061. IspE.
InterProIPR013750. 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]
PANTHERPTHR20861:SF2. PTHR20861:SF2. 1 hit.
PfamPF08544. GHMP_kinases_C. 1 hit.
PF00288. GHMP_kinases_N. 1 hit.
[Graphical view]
PIRSFPIRSF010376. IspE. 1 hit.
SUPFAMSSF54211. SSF54211. 1 hit.
SSF55060. SSF55060. 1 hit.
TIGRFAMsTIGR00154. ispE. 1 hit.
ProtoNetSearch...

Other

PROP62615.

Entry information

Entry nameISPE_ECOLI
AccessionPrimary (citable) accession number: P62615
Secondary accession number(s): P24209
Entry history
Integrated into UniProtKB/Swiss-Prot: July 19, 2004
Last sequence update: July 19, 2004
Last modified: April 16, 2014
This is version 89 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

PATHWAY comments

Index of metabolic and biosynthesis pathways

Escherichia coli

Escherichia coli (strain K12): entries and cross-references to EcoGene