3EKM | pdb_00003ekm

Crystal structure of diaminopimelate epimerase form arabidopsis thaliana in complex with irreversible inhibitor DL-AziDAP

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d3ekmf1	Alpha and beta proteins (a+b)	Diaminopimelate epimerase-like	Diaminopimelate epimerase-like	Diaminopimelate epimerase	Diaminopimelate epimerase	Mouse-ear cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
E	d3ekme1	Alpha and beta proteins (a+b)	Diaminopimelate epimerase-like	Diaminopimelate epimerase-like	Diaminopimelate epimerase	Diaminopimelate epimerase	Mouse-ear cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
D	d3ekmd1	Alpha and beta proteins (a+b)	Diaminopimelate epimerase-like	Diaminopimelate epimerase-like	Diaminopimelate epimerase	Diaminopimelate epimerase	Mouse-ear cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
C	d3ekmc1	Alpha and beta proteins (a+b)	Diaminopimelate epimerase-like	Diaminopimelate epimerase-like	Diaminopimelate epimerase	Diaminopimelate epimerase	Mouse-ear cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
B	d3ekmb1	Alpha and beta proteins (a+b)	Diaminopimelate epimerase-like	Diaminopimelate epimerase-like	Diaminopimelate epimerase	Diaminopimelate epimerase	Mouse-ear cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)
A	d3ekma1	Alpha and beta proteins (a+b)	Diaminopimelate epimerase-like	Diaminopimelate epimerase-like	Diaminopimelate epimerase	Diaminopimelate epimerase	Mouse-ear cress (Arabidopsis thaliana ) [TaxId: 3702 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	CoV_NSP4_C	e3ekmF3	A: alpha arrays	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: CoV_NSP4_C	ECOD (v295.2)
E	CoV_NSP4_C	e3ekmE3	A: alpha arrays	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: CoV_NSP4_C	ECOD (v295.2)
D	CoV_NSP4_C	e3ekmD3	A: alpha arrays	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: CoV_NSP4_C	ECOD (v295.2)
C	CoV_NSP4_C	e3ekmC5	A: alpha arrays	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: CoV_NSP4_C	ECOD (v295.2)
B	CoV_NSP4_C	e3ekmB3	A: alpha arrays	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: CoV_NSP4_C	ECOD (v295.2)
A	CoV_NSP4_C	e3ekmA5	A: alpha arrays	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: CoV_NSP4_C	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.10.310.10	Alpha Beta	Roll	Diaminopimelate Epimerase	Chain A, domain 1	CATH (4.3.0)
E	3.10.310.10	Alpha Beta	Roll	Diaminopimelate Epimerase	Chain A, domain 1	CATH (4.3.0)
D	3.10.310.10	Alpha Beta	Roll	Diaminopimelate Epimerase	Chain A, domain 1	CATH (4.3.0)
C	3.10.310.10	Alpha Beta	Roll	Diaminopimelate Epimerase	Chain A, domain 1	CATH (4.3.0)
B	3.10.310.10	Alpha Beta	Roll	Diaminopimelate Epimerase	Chain A, domain 1	CATH (4.3.0)
A	3.10.310.10	Alpha Beta	Roll	Diaminopimelate Epimerase	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF01678	Diaminopimelate epimerase (DAP_epimerase)	Diaminopimelate epimerase	Diaminopimelate epimerase contains two domains of the same alpha/beta fold, both contained in this family.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Diaminopimelate epimerase, chloroplastic	isomerase activity racemase and epimerase activity diaminopimelate epimerase activity racemase and epimerase activity, acting on amino acids and derivatives amino-acid racemase activity catalytic activity	-	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle plastid organelle intracellular membrane-bounded organelle chloroplast plastid stroma chloroplast stroma

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR001653	Diaminopimelate epimerase, DapF	Family
A, B, C, D, E A, B, C, D, E, F	IPR018510	Diaminopimelate epimerase, active site	Active Site