HAMAP rule MF_00012
General rule information
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| Accession | MF_00012 |
| Dates | 1-JUN-2001 (Created)
1-JUN-2023 (Last updated, Version 39) |
| Name | IlvD |
| Scope(s) |
Bacteria Archaea |
| Template(s) | P05791 (ILVD_ECOLI); P9WKJ5 (ILVD_MYCTU); [ Recover all ] |
| Triggered by |
HAMAP; MF_00012 (Get profile general information and statistics) |
Propagated annotation
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Identifier, protein and gene names
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| Identifier | ILVD |
| Protein name | RecName: Full=Dihydroxy-acid dehydratase; Short=DAD; EC=4.2.1.9; |
| Gene name | Name=ilvD; |
Comments
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| FUNCTION | Functions in the biosynthesis of branched-chain amino acids. Catalyzes the dehydration of (2R,3R)-2,3-dihydroxy-3-methylpentanoate (2,3-dihydroxy-3-methylvalerate) into 2-oxo-3-methylpentanoate (2-oxo- 3-methylvalerate) and of (2R)-2,3-dihydroxy-3-methylbutanoate (2,3- dihydroxyisovalerate) into 2-oxo-3-methylbutanoate (2-oxoisovalerate), the penultimate precursor to L-isoleucine and L-valine, respectively. |
| CATALYTIC ACTIVITY | Reaction=(2R)-2,3-dihydroxy-3-methylbutanoate = 3-methyl-2-oxobutanoate + H2O; Xref=Rhea:RHEA:24809, ChEBI:CHEBI:11851, ChEBI:CHEBI:15377, ChEBI:CHEBI:49072; EC=4.2.1.9; PhysiologicalDirection=left-to-right; Xref=Rhea:RHEA:24810; |
| CATALYTIC ACTIVITY | Reaction=(2R,3R)-2,3-dihydroxy-3-methylpentanoate = (S)-3-methyl-2- oxopentanoate + H2O; Xref=Rhea:RHEA:27694, ChEBI:CHEBI:15377, ChEBI:CHEBI:35146, ChEBI:CHEBI:49258; EC=4.2.1.9; PhysiologicalDirection=left-to-right; Xref=Rhea:RHEA:27695; |
| COFACTOR | Name=[2Fe-2S] cluster; Xref=ChEBI:CHEBI:190135; Note=Binds 1 [2Fe-2S] cluster per subunit. This cluster acts as a Lewis acid cofactor. |
| COFACTOR | Name=Mg(2+); Xref=ChEBI:CHEBI:18420; |
| PATHWAY | Amino-acid biosynthesis; L-isoleucine biosynthesis; L- isoleucine from 2-oxobutanoate: step 3/4. |
| PATHWAY | Amino-acid biosynthesis; L-valine biosynthesis; L-valine from pyruvate: step 3/4. |
| SUBUNIT | Homodimer. |
| SIMILARITY | Belongs to the IlvD/Edd family. |
Keywords
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| Amino-acid biosynthesis |
| Branched-chain amino acid biosynthesis |
| Lyase |
| Metal-binding |
| Iron |
| Iron-sulfur |
| 2Fe-2S |
| Magnesium |
Gene Ontology
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| GO:0000287; Molecular function:magnesium ion binding |
| GO:0004160; Molecular function:dihydroxy-acid dehydratase activity |
| GO:0051537; Molecular function:2 iron, 2 sulfur cluster binding |
| GO:0009097; Biological process:isoleucine biosynthetic process |
| GO:0009099; Biological process:valine biosynthetic process |
Cross-references
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| Pfam | PF00920; ILVD_EDD; 1; |
| NCBIfam | TIGR00110; IlvD; 1; |
| PROSITE | PS00886; ILVD_EDD_1; 1; |
| PROSITE | PS00887; ILVD_EDD_2; 1; |
Features
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| From: ILVD_MYCTU (P9WKJ5) | ||||||||||||
| Key | From | To | Description | Tag | Condition | FTGroup | ||||||
| ACT_SITE | 491 | 491 | /note="Proton acceptor" | S | ||||||||
| BINDING | 64 | 64 | /ligand="[2Fe-2S] cluster" /ligand_id="ChEBI:CHEBI:190135" |
C | ||||||||
| BINDING | 96 | 96 | /ligand="Mg(2+)" /ligand_id="ChEBI:CHEBI:18420" |
D | ||||||||
| BINDING | 122 | 122 | /ligand="[2Fe-2S] cluster" /ligand_id="ChEBI:CHEBI:190135" |
C | ||||||||
| BINDING | 138 | 138 | /ligand="Mg(2+)" /ligand_id="ChEBI:CHEBI:18420" |
D | ||||||||
| BINDING | 139 | 139 | /ligand="Mg(2+)" /ligand_id="ChEBI:CHEBI:18420" /note="via carbamate group" |
K | ||||||||
| BINDING | 195 | 195 | /ligand="[2Fe-2S] cluster" /ligand_id="ChEBI:CHEBI:190135" |
C | ||||||||
| BINDING | 465 | 465 | /ligand="Mg(2+)" /ligand_id="ChEBI:CHEBI:18420" |
E | ||||||||
| MOD_RES | 139 | 139 | /note="N6-carboxylysine" | K | ||||||||
Additional information
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| Size range | 547-629 amino acids |
| Related rules |
None |
| Fusion | Nter: None Cter: None |