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HAMAP rule MF_00202

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General rule information [?]

Accession MF_00202
Dates 1-JUN-2001 (Created)
1-JUN-2023 (Last updated, Version 41)
Name Idi
Scope(s) Bacteria
Actinomycetota
Pseudomonadota
Archaea
Halobacteria
Template(s) Q46822 (IDI_ECOLI); [ Recover all ]
Triggered by HAMAP; MF_00202 (Get profile general information and statistics)

Propagated annotation [?]

Identifier, protein and gene names [?]

Identifier IDI
Protein name RecName: Full=Isopentenyl-diphosphate Delta-isomerase;
                 Short=IPP isomerase;
                 EC=5.3.3.2;
AltName: Full=IPP:DMAPP isomerase;
AltName: Full=Isopentenyl pyrophosphate isomerase;
Gene name Name=idi;

Comments [?]

FUNCTIONCatalyzes the 1,3-allylic rearrangement of the homoallylic substrate isopentenyl (IPP) to its highly electrophilic allylic isomer, dimethylallyl diphosphate (DMAPP).
CATALYTIC ACTIVITY Reaction=isopentenyl diphosphate = dimethylallyl diphosphate; Xref=Rhea:RHEA:23284, ChEBI:CHEBI:57623, ChEBI:CHEBI:128769; EC=5.3.3.2;
case <FT:6>
COFACTOR Name=Mg(2+); Xref=ChEBI:CHEBI:18420; Note=Binds 1 Mg(2+) ion per subunit. The magnesium ion binds only when substrate is bound.;
end case
case <FTGroup:1>
COFACTOR Name=Mn(2+); Xref=ChEBI:CHEBI:29035; Note=Binds 1 Mn(2+) ion per subunit.;
end case
PATHWAYIsoprenoid biosynthesis; dimethylallyl diphosphate biosynthesis; dimethylallyl diphosphate from isopentenyl diphosphate: step 1/1.
case <Property:PHOTOSYN>
PATHWAYPorphyrin-containing compound metabolism; chlorophyll biosynthesis.
end case
case <OC:Enterobacterales>
SUBUNITHomodimer.
end case
SUBCELLULAR LOCATIONCytoplasm.
SIMILARITYBelongs to the IPP isomerase type 1 family.

Keywords [?]

Cytoplasm
Isomerase
Isoprene biosynthesis
case <Property:PHOTOSYN>
Chlorophyll biosynthesis
Photosynthesis
end case
case <FT:6>
Magnesium
end case
case <FTGroup:1>
Manganese
end case
case <FTGroup:1> or <FT:6>
Metal-binding
end case

Gene Ontology [?]

GO:0004452; Molecular function:isopentenyl-diphosphate delta-isomerase activity
case <Property:PHOTOSYN>
GO:0015995; Biological process:chlorophyll biosynthetic process
end case
GO:0008299; Biological process:isoprenoid biosynthetic process
case <Property:PHOTOSYN>
GO:0015979; Biological process:photosynthesis
end case
GO:0005737; Cellular component:cytoplasm

Cross-references [?]

Pfam PF00293; NUDIX; 1;
NCBIfam TIGR02150; IPP_isom_1; 1;

Features [?]

From: IDI_ECOLI (Q46822)
Key From To Description Tag Condition FTGroup
ACT_SITE 67 67 C
ACT_SITE 116 116 E
BINDING 25 25 /ligand="Mn(2+)"
/ligand_id="ChEBI:CHEBI:29035"
H 1
BINDING 32 32 /ligand="Mn(2+)"
/ligand_id="ChEBI:CHEBI:29035"
H 1
BINDING 69 69 /ligand="Mn(2+)"
/ligand_id="ChEBI:CHEBI:29035"
H 1
BINDING 87 87 /ligand="Mg(2+)"
/ligand_id="ChEBI:CHEBI:18420"
E
BINDING 114 114 /ligand="Mn(2+)"
/ligand_id="ChEBI:CHEBI:29035"
E 1
BINDING 116 116 /ligand="Mn(2+)"
/ligand_id="ChEBI:CHEBI:29035"
E 1

Additional information [?]

Size range 175-213 amino acids
Related rules None
Fusion Nter: None Cter: None
Comments HALSA and HALMA putative conserved active site cysteine residue is replaced by an alanine. HALSA also possess a type-2 IDI.



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