HAMAP rule MF_02122

General rule information [?]

Accession	MF_02122
Dates	2-AUG-2011 (Created) 1-JUN-2023 (Last updated, Version 14)

Name	DapD_type2

Scope

Bacteria; Actinomycetota

Bacteria; Pseudomonadota

Template

P9WP21 (DAPD_MYCTU)

Triggered by

HAMAP; MF_02122 (Get profile general information and statistics)

Propagated annotation [?]

Identifier, protein and gene names [?]

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

dapD

Comments [?]

Function	Catalyzes the conversion of the cyclic tetrahydrodipicolinate (THDP) into the acyclic N-succinyl-L-2-amino-6-oxopimelate using succinyl-CoA.
Catalytic activity	RHEA:17325: (S)-2,3,4,5-tetrahydrodipicolinate + H2O + succinyl-CoA = (S)-2-succinylamino-6-oxoheptanedioate + CoA 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 [?]

Acyltransferase
Amino-acid biosynthesis
Cytoplasm
Diaminopimelate biosynthesis
Lysine biosynthesis
Transferase

case <FT:4> or <FT:5>

Magnesium
Metal-binding

end case

Gene Ontology [?]

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 [?]

NCBIfam	TIGR03535; DapD_actino; 1;
	TIGR03536; DapD_gpp; 1;

Features [?]

From: DAPD_MYCTU (P9WP21)

Key From To Description Tag Condition FTGroup

ACT_SITE 199 199 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 (Optional) 166 166 /ligand="Mg(2+)" /ligand_id="ChEBI:CHEBI:18420" /ligand_label="1" /ligand_note="ligand shared between trimeric partners D

BINDING (Optional) 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 [?]

Size range	297-401 amino acids
Related rules	None
Fusion	None
Comments	There is another family of DapD (see MF_00811).

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