HAMAP rule MF_02122
General rule information
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| Accession | MF_02122 |
| Dates | 2-AUG-2011 (Created)
2-SEP-2024 (Last updated, Version 15) |
| Name | DapD_type2 |
| Scope(s) |
Bacteria Actinomycetota Pseudomonadota |
| Template(s) | P9WP21 (DAPD_MYCTU); [ Recover all ] |
| Triggered by |
HAMAP; MF_02122 (Get profile general information and statistics) |
Propagated annotation
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Identifier, protein and gene names
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| Identifier | DAPD |
| Protein name | RecName: Full=2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; EC=2.3.1.117; AltName: Full=Tetrahydrodipicolinate N-succinyltransferase; Short=THDP succinyltransferase; Short=THP succinyltransferase; AltName: Full=Tetrahydropicolinate succinylase; |
| Gene name | Name=dapD; |
Comments
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| FUNCTION | Catalyzes the conversion of the cyclic tetrahydrodipicolinate (THDP) into the acyclic N-succinyl-L-2-amino-6-oxopimelate using succinyl-CoA. |
| CATALYTIC ACTIVITY | Reaction=(S)-2,3,4,5-tetrahydrodipicolinate + succinyl-CoA + H2O = (S)- 2-succinylamino-6-oxoheptanedioate + CoA; Xref=Rhea:RHEA:17325, ChEBI:CHEBI:15377, ChEBI:CHEBI:15685, ChEBI:CHEBI:16845, ChEBI:CHEBI:57287, ChEBI:CHEBI:57292; EC=2.3.1.117; |
| PATHWAY | Amino-acid biosynthesis; L-lysine biosynthesis via DAP pathway; LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (succinylase route): step 1/3. |
| SUBUNIT | Homotrimer. |
| SUBCELLULAR LOCATION | Cytoplasm. |
| SIMILARITY | Belongs to the type 2 tetrahydrodipicolinate N- succinyltransferase family. |
Keywords
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| Acyltransferase | |
| Amino-acid biosynthesis | |
| Cytoplasm | |
| Diaminopimelate biosynthesis | |
| Lysine biosynthesis | |
| Transferase | |
| case <FT:4> or <FT:5> | |
| Magnesium | |
| Metal-binding | |
| end case | |
Gene Ontology
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| case <FT:4> or <FT:5> | |
| GO:0000287; Molecular function:magnesium ion binding | |
| end case | |
| GO:0008666; Molecular function:2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase activity | |
| GO:0009089; Biological process:lysine biosynthetic process via diaminopimelate | |
| GO:0019877; Biological process:diaminopimelate biosynthetic process | |
| GO:0005737; Cellular component:cytoplasm | |
Cross-references
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Features
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| From: DAPD_MYCTU (P9WP21) | ||||||||||||
| Key | From | To | Description | Tag | Condition | FTGroup | ||||||
| ACT_SITE | 199 | 199 | /note="Acyl-anhydride intermediate" | E | ||||||||
| BINDING | 257 | 258 | /ligand="succinyl-CoA" /ligand_id="ChEBI:CHEBI:57292" |
[ED]-[AGS] | ||||||||
| BINDING | 290 | 293 | /ligand="succinyl-CoA" /ligand_id="ChEBI:CHEBI:57292" |
R-[RQ]-x-S | ||||||||
| BINDING | 166 | 166 | /ligand="Mg(2+)" /ligand_id="ChEBI:CHEBI:18420" /ligand_label="1" /ligand_note="ligand shared between trimeric partners" |
D | ||||||||
| BINDING | 183 | 183 | /ligand="Mg(2+)" /ligand_id="ChEBI:CHEBI:18420" /ligand_label="2" /ligand_note="ligand shared between trimeric partners" |
E | ||||||||
| BINDING | 201 | 201 | /ligand="succinyl-CoA" /ligand_id="ChEBI:CHEBI:57292" |
R | ||||||||
| BINDING | 216 | 216 | /ligand="succinyl-CoA" /ligand_id="ChEBI:CHEBI:57292" |
[GA] | ||||||||
| BINDING | 219 | 219 | /ligand="succinyl-CoA" /ligand_id="ChEBI:CHEBI:57292" |
S | ||||||||
| BINDING | 242 | 242 | /ligand="succinyl-CoA" /ligand_id="ChEBI:CHEBI:57292" |
A | ||||||||
| BINDING | 265 | 265 | /ligand="succinyl-CoA" /ligand_id="ChEBI:CHEBI:57292" |
G | ||||||||
| BINDING | 277 | 277 | /ligand="succinyl-CoA" /ligand_id="ChEBI:CHEBI:57292" |
K | ||||||||
Additional information
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| Size range | 297-401 amino acids |
| Related rules |
None |
| Fusion | Nter: None Cter: None |
| Comments | There is another family of DapD (see MF_00811). |