2HJR | pdb_00002hjr

Crystal Structure of Cryptosporidium parvum malate dehydrogenase

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 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)
A	d2hjra1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
A	d2hjra2	Alpha and beta proteins (a+b)	LDH C-terminal domain-like	LDH C-terminal domain-like	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
B	d2hjrb1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
B	d2hjrb2	Alpha and beta proteins (a+b)	LDH C-terminal domain-like	LDH C-terminal domain-like	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
C	d2hjrc1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
C	d2hjrc2	Alpha and beta proteins (a+b)	LDH C-terminal domain-like	LDH C-terminal domain-like	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
D	d2hjrd1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
D	d2hjrd2	Alpha and beta proteins (a+b)	LDH C-terminal domain-like	LDH C-terminal domain-like	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
E	d2hjre1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
E	d2hjre2	Alpha and beta proteins (a+b)	LDH C-terminal domain-like	LDH C-terminal domain-like	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
F	d2hjrf1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
F	d2hjrf2	Alpha and beta proteins (a+b)	LDH C-terminal domain-like	LDH C-terminal domain-like	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
G	d2hjrg1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
G	d2hjrg2	Alpha and beta proteins (a+b)	LDH C-terminal domain-like	LDH C-terminal domain-like	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
H	d2hjrh1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
H	d2hjrh2	Alpha and beta proteins (a+b)	LDH C-terminal domain-like	LDH C-terminal domain-like	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
I	d2hjri1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
I	d2hjri2	Alpha and beta proteins (a+b)	LDH C-terminal domain-like	LDH C-terminal domain-like	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
J	d2hjrj1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
J	d2hjrj2	Alpha and beta proteins (a+b)	LDH C-terminal domain-like	LDH C-terminal domain-like	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
K	d2hjrk1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
K	d2hjrk2	Alpha and beta proteins (a+b)	LDH C-terminal domain-like	LDH C-terminal domain-like	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
L	d2hjrl1	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)
L	d2hjrl2	Alpha and beta proteins (a+b)	LDH C-terminal domain-like	LDH C-terminal domain-like	automated matches	automated matches	(Cryptosporidium parvum ) [TaxId: 5807 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	LDH/MDH-like	8059743	4000045	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	LDH/MDH/AglA-like	8059744	3000039	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	LDH/MDH/AglA-like	8059744	3000039	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	LDH/MDH/AglA-like	8059744	3000039	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	LDH/MDH/AglA-like	8059744	3000039	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	LDH/MDH/AglA-like	8059744	3000039	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	LDH/MDH/AglA-like	8059744	3000039	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	LDH/MDH/AglA-like	8059744	3000039	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	LDH/MDH/AglA-like	8059744	3000039	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	LDH/MDH/AglA-like	8059744	3000039	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	LDH/MDH/AglA-like	8059744	3000039	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	LDH/MDH/AglA-like	8059744	3000039	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	LDH/MDH/AglA-like	8059744	3000039	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	DNA_binding_1	e2hjrA2	A: alpha arrays	X: Globin-like	H: Globin-like	T: Globin-like	F: DNA_binding_1	ECOD (v295.2)
A	Ldh_1_C	e2hjrA3	A: alpha arrays	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Retrovirus capsid protein-C	F: Ldh_1_C	ECOD (v295.2)
B	ACR_tran	e2hjrB2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: ACR_tran	ECOD (v295.2)
B	Ldh_1_C	e2hjrB3	A: alpha arrays	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Retrovirus capsid protein-C	F: Ldh_1_C	ECOD (v295.2)
C	ACR_tran	e2hjrC2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: ACR_tran	ECOD (v295.2)
C	Ldh_1_C	e2hjrC3	A: alpha arrays	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Retrovirus capsid protein-C	F: Ldh_1_C	ECOD (v295.2)
D	ACR_tran	e2hjrD2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: ACR_tran	ECOD (v295.2)
D	Ldh_1_C	e2hjrD3	A: alpha arrays	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Retrovirus capsid protein-C	F: Ldh_1_C	ECOD (v295.2)
E	ACR_tran	e2hjrE2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: ACR_tran	ECOD (v295.2)
E	Ldh_1_C	e2hjrE3	A: alpha arrays	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Retrovirus capsid protein-C	F: Ldh_1_C	ECOD (v295.2)
F	ACR_tran	e2hjrF2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: ACR_tran	ECOD (v295.2)
F	Ldh_1_C	e2hjrF3	A: alpha arrays	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Retrovirus capsid protein-C	F: Ldh_1_C	ECOD (v295.2)
G	ACR_tran	e2hjrG2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: ACR_tran	ECOD (v295.2)
G	Ldh_1_C	e2hjrG3	A: alpha arrays	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Retrovirus capsid protein-C	F: Ldh_1_C	ECOD (v295.2)
H	ACR_tran	e2hjrH2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: ACR_tran	ECOD (v295.2)
H	Ldh_1_C	e2hjrH3	A: alpha arrays	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Retrovirus capsid protein-C	F: Ldh_1_C	ECOD (v295.2)
I	ACR_tran	e2hjrI2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: ACR_tran	ECOD (v295.2)
I	Ldh_1_C	e2hjrI3	A: alpha arrays	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Retrovirus capsid protein-C	F: Ldh_1_C	ECOD (v295.2)
J	ACR_tran	e2hjrJ2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: ACR_tran	ECOD (v295.2)
J	Ldh_1_C	e2hjrJ3	A: alpha arrays	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Retrovirus capsid protein-C	F: Ldh_1_C	ECOD (v295.2)
K	ACR_tran	e2hjrK2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: ACR_tran	ECOD (v295.2)
K	Ldh_1_C	e2hjrK3	A: alpha arrays	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Retrovirus capsid protein-C	F: Ldh_1_C	ECOD (v295.2)
L	ACR_tran	e2hjrL2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: ACR_tran	ECOD (v295.2)
L	Ldh_1_C	e2hjrL3	A: alpha arrays	X: MocoBD/DmpA-related	H: MocoBD/DmpA-related	T: Retrovirus capsid protein-C	F: Ldh_1_C	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
A	3.90.110.10	Alpha Beta	Alpha-Beta Complex	L-2-Hydroxyisocaproate Dehydrogenase	Chain A, domain 2	CATH (4.3.0)
B	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
B	3.90.110.10	Alpha Beta	Alpha-Beta Complex	L-2-Hydroxyisocaproate Dehydrogenase	Chain A, domain 2	CATH (4.3.0)
C	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
C	3.90.110.10	Alpha Beta	Alpha-Beta Complex	L-2-Hydroxyisocaproate Dehydrogenase	Chain A, domain 2	CATH (4.3.0)
D	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
D	3.90.110.10	Alpha Beta	Alpha-Beta Complex	L-2-Hydroxyisocaproate Dehydrogenase	Chain A, domain 2	CATH (4.3.0)
E	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
E	3.90.110.10	Alpha Beta	Alpha-Beta Complex	L-2-Hydroxyisocaproate Dehydrogenase	Chain A, domain 2	CATH (4.3.0)
F	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
F	3.90.110.10	Alpha Beta	Alpha-Beta Complex	L-2-Hydroxyisocaproate Dehydrogenase	Chain A, domain 2	CATH (4.3.0)
G	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
G	3.90.110.10	Alpha Beta	Alpha-Beta Complex	L-2-Hydroxyisocaproate Dehydrogenase	Chain A, domain 2	CATH (4.3.0)
H	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
H	3.90.110.10	Alpha Beta	Alpha-Beta Complex	L-2-Hydroxyisocaproate Dehydrogenase	Chain A, domain 2	CATH (4.3.0)
I	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
I	3.90.110.10	Alpha Beta	Alpha-Beta Complex	L-2-Hydroxyisocaproate Dehydrogenase	Chain A, domain 2	CATH (4.3.0)
J	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
J	3.90.110.10	Alpha Beta	Alpha-Beta Complex	L-2-Hydroxyisocaproate Dehydrogenase	Chain A, domain 2	CATH (4.3.0)
K	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
K	3.90.110.10	Alpha Beta	Alpha-Beta Complex	L-2-Hydroxyisocaproate Dehydrogenase	Chain A, domain 2	CATH (4.3.0)
L	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
L	3.90.110.10	Alpha Beta	Alpha-Beta Complex	L-2-Hydroxyisocaproate Dehydrogenase	Chain A, domain 2	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, G, H, I, J, K, L	PF02866	lactate/malate dehydrogenase, alpha/beta C-terminal domain (Ldh_1_C)	lactate/malate dehydrogenase, alpha/beta C-terminal domain	L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the in ...	L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the interconversion of malate to oxaloacetate. The enzyme participates in the citric acid cycle. L-lactate dehydrogenase is also found as a lens crystallin in bird and crocodile eyes.	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF00056	lactate/malate dehydrogenase, NAD binding domain (Ldh_1_N)	lactate/malate dehydrogenase, NAD binding domain	L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the in ...	L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the interconversion of malate to oxaloacetate. The enzyme participates in the citric acid cycle. L-lactate dehydrogenase is also found as a lens crystallin in bird and crocodile eyes. N-terminus (this family) is a Rossmann NAD-binding fold. C-terminus is an unusual alpha+beta fold.	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, G, H, I, J, K, L	Malate dehydrogenase	L-lactate dehydrogenase (NAD+) activity L-2-hydroxycarboxylate dehydrogenase (NAD+) activity oxidoreductase activity L-lactate dehydrogenase activity oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor oxidoreductase activity, acting on CH-OH group of donors lactate dehydrogenase activity catalytic activity	oxoacid metabolic process carboxylic acid metabolic process small molecule metabolic process metabolic process cellular process monocarboxylic acid metabolic process lactate metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR001236	Lactate/malate dehydrogenase, N-terminal	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR011275	Malate dehydrogenase, type 3	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR015955	Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR022383	Lactate/malate dehydrogenase, C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR001557	L-lactate/malate dehydrogenase	Family

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.