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HAMAP rule MF_01520

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General rule information [?]

PURL https://purl.expasy.org/hamap/rule/MF_01520
Accession MF_01520
Dates 28-FEB-2005 (Created)
12-MAR-2024 (Last updated, Version 35)
Name IspDF
Scope(s) Bacteria
Template(s) Q9PM68; Q46893; P62617; [ Recover all ]
Triggered by HAMAP; MF_01520 (Get profile general information and statistics)

Propagated annotation [?]

Identifier, protein and gene names [?]

Identifier ISPDF
Protein name RecName: Full=Bifunctional enzyme IspD/IspF;
                 Includes:
RecName: Full=2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase;
                 EC=2.7.7.60;
AltName: Full=4-diphosphocytidyl-2C-methyl-D-erythritol synthase;
AltName: Full=MEP cytidylyltransferase;
                 Short=MCT;
                 Includes:
RecName: Full=2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase;
                 Short=MECPP-synthase;
                 Short=MECDP-synthase;
                 Short=MECPS;
                 EC=4.6.1.12;
Gene name Name=ispDF;

Comments [?]

FUNCTIONBifunctional enzyme that catalyzes the formation of 4- diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D- erythritol 4-phosphate (MEP) (IspD), and catalyzes the conversion of 4- diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate (CDP-ME2P) to 2-C- methyl-D-erythritol 2,4-cyclodiphosphate (ME-CPP) with a corresponding release of cytidine 5-monophosphate (CMP) (IspF).
CATALYTIC ACTIVITY Reaction=2-C-methyl-D-erythritol 4-phosphate + CTP + H(+) = 4-CDP-2-C- methyl-D-erythritol + diphosphate; Xref=Rhea:RHEA:13429, ChEBI:CHEBI:15378, ChEBI:CHEBI:33019, ChEBI:CHEBI:37563, ChEBI:CHEBI:57823, ChEBI:CHEBI:58262; EC=2.7.7.60;
CATALYTIC ACTIVITY Reaction=4-CDP-2-C-methyl-D-erythritol 2-phosphate = 2-C-methyl-D- erythritol 2,4-cyclic diphosphate + CMP; Xref=Rhea:RHEA:23864, ChEBI:CHEBI:57919, ChEBI:CHEBI:58483, ChEBI:CHEBI:60377; EC=4.6.1.12;
COFACTOR Name=a divalent metal cation; Xref=ChEBI:CHEBI:60240;
PATHWAYIsoprenoid biosynthesis; isopentenyl diphosphate biosynthesis via DXP pathway; isopentenyl diphosphate from 1-deoxy-D-xylulose 5- phosphate: step 2/6.
PATHWAYIsoprenoid biosynthesis; isopentenyl diphosphate biosynthesis via DXP pathway; isopentenyl diphosphate from 1-deoxy-D-xylulose 5- phosphate: step 4/6.
SIMILARITYIn the N-terminal section; belongs to the IspD/TarI cytidylyltransferase family. IspD subfamily.
SIMILARITYIn the C-terminal section; belongs to the IspF family.

Keywords [?]

Isoprene biosynthesis
Lyase
Metal-binding
Multifunctional enzyme
Nucleotidyltransferase
Transferase

Gene Ontology [?]

GO:0008685; Molecular function:2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity
GO:0050518; Molecular function:2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
GO:0019288; Biological process:isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway

Cross-references [?]

Pfam PF01128; IspD; 1;
Pfam PF02542; YgbB; 1;
NCBIfam TIGR00453; IspD; 1;
NCBIfam TIGR00151; IspF; 1;
PROSITE PS01295; ISPD; 1;
PROSITE PS01350; ISPF; 1;

Features [?]

From: ISPDF_CAMJE (Q9PM68)
Key From To Description Tag Condition FTGroup
REGION Nter 210 /note="2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase"
REGION 211 Cter /note="2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase"
BINDING 217 219 /ligand="4-CDP-2-C-methyl-D-erythritol 2-phosphate"
/ligand_id="ChEBI:CHEBI:57919"		 D-x-H
BINDING 243 244 /ligand="4-CDP-2-C-methyl-D-erythritol 2-phosphate"
/ligand_id="ChEBI:CHEBI:57919"		 H-S
BINDING 265 267 /ligand="4-CDP-2-C-methyl-D-erythritol 2-phosphate"
/ligand_id="ChEBI:CHEBI:57919"		 D-[IL]-G
BINDING 270 274 /ligand="4-CDP-2-C-methyl-D-erythritol 2-phosphate"
/ligand_id="ChEBI:CHEBI:57919"		 [FY]-x-D-x-[DNE]
BINDING 309 315 /ligand="4-CDP-2-C-methyl-D-erythritol 2-phosphate"
/ligand_id="ChEBI:CHEBI:57919"		 [AL]-x(2)-P-[KR]-M-[LAG]
BINDING 341 344 /ligand="4-CDP-2-C-methyl-D-erythritol 2-phosphate"
/ligand_id="ChEBI:CHEBI:57919"		 [TS]-[T]-x-[ED]
BINDING 217 217 /ligand="a divalent metal cation"
/ligand_id="ChEBI:CHEBI:60240"		 D
BINDING 219 219 /ligand="a divalent metal cation"
/ligand_id="ChEBI:CHEBI:60240"		 H
BINDING 251 251 /ligand="a divalent metal cation"
/ligand_id="ChEBI:CHEBI:60240"		 H
BINDING 348 348 /ligand="4-CDP-2-C-methyl-D-erythritol 2-phosphate"
/ligand_id="ChEBI:CHEBI:57919"		 [FY]
BINDING 351 351 /ligand="4-CDP-2-C-methyl-D-erythritol 2-phosphate"
/ligand_id="ChEBI:CHEBI:57919"		 [RK]
SITE 16 16 /note="Transition state stabilizer" R
SITE 23 23 /note="Transition state stabilizer" K
SITE 139 139 /note="Positions MEP for the nucleophilic attack" [RH]
SITE 191 191 /note="Positions MEP for the nucleophilic attack" K
SITE 243 243 /note="Transition state stabilizer" [HDN]
SITE 342 342 /note="Transition state stabilizer" [TS]

Additional information [?]

Size range 359-422 amino acids
Related rules MF_00107
MF_00108
Fusion Nter: None Cter: None
Comments See MF_00108 and MF_00107 for monofunctional ispD and ispF



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