5NFR | pdb_00005nfr

Crystal structure of malate dehydrogenase from Plasmodium falciparum (PfMDH)


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

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
Pd5nfrp1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Pd5nfrp2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Od5nfro1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Od5nfro2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Nd5nfrn1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Nd5nfrn2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Md5nfrm1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Md5nfrm2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Ld5nfrl1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Ld5nfrl2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Kd5nfrk1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Kd5nfrk2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Jd5nfrj1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Jd5nfrj2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Id5nfri1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Id5nfri2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Hd5nfrh1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Hd5nfrh2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Gd5nfrg1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Gd5nfrg2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Fd5nfrf1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Fd5nfrf2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Ed5nfre1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Ed5nfre2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Dd5nfrd1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Dd5nfrd2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Cd5nfrc1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Cd5nfrc2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Bd5nfrb1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Bd5nfrb2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Ad5nfra1 Alpha and beta proteins (a/b) NAD(P)-binding Rossmann-fold domains NAD(P)-binding Rossmann-fold domains automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)
Ad5nfra2 Alpha and beta proteins (a+b) LDH C-terminal domain-like LDH C-terminal domain-like automated matches automated matches (Plasmodium falciparum 3D7 ) [TaxId: 36329 ], SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
PSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
OSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
NSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
MSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
LSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
JSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
ISCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
HSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2B (2022-06-29)
ASCOP2 FamilyLDH/MDH-like 8059749 4000045 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyLDH/MDH/AglA-like 8059750 3000039 SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
PUQ_cone5nfrP1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
OUQ_cone5nfrO1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
NUQ_cone5nfrN1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
MUQ_cone5nfrM1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
LUQ_cone5nfrL1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
KUQ_cone5nfrK1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
JUQ_cone5nfrJ1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
IUQ_cone5nfrI1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
HUQ_cone5nfrH1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
GUQ_cone5nfrG1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
FUQ_cone5nfrF1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
EUQ_cone5nfrE1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
DUQ_cone5nfrD1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
CUQ_cone5nfrC1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
BUQ_cone5nfrB1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: UQ_conECOD (v294.1)
APkinasee5nfrA1 A: a/b three-layered sandwichesX: Protein kinase/SAICAR synthase/ATP-graspH: Protein kinase/SAICAR synthase/ATP-graspT: Protein kinaseF: PkinaseECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
P3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
P3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
O3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
O3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
N3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
N3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
M3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
M3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
L3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
L3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
K3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
K3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
J3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
J3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
I3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
I3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
H3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
H3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
G3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
G3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
F3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
F3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
E3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
E3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
D3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
D3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
C3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
C3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
B3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
B3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)
A3.40.50.720 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like DomainCATH (4.3.0)
A3.90.110.10 Alpha Beta Alpha-Beta Complex L-2-Hydroxyisocaproate Dehydrogenase Chain A, domain 2CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C, D, E
PF02866lactate/malate dehydrogenase, alpha/beta C-terminal domain (Ldh_1_C)lactate/malate dehydrogenase, alpha/beta C-terminal domainL-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
PF00056lactate/malate dehydrogenase, NAD binding domain (Ldh_1_N)lactate/malate dehydrogenase, NAD binding domainL-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

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C, D, E
IPR001236Lactate/malate dehydrogenase, N-terminalDomain
A, B, C, D, E
IPR036291NAD(P)-binding domain superfamilyHomologous Superfamily
A, B, C, D, E
IPR011275Malate dehydrogenase, type 3Family
A, B, C, D, E
IPR015955Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminalHomologous Superfamily
A, B, C, D, E
IPR022383Lactate/malate dehydrogenase, C-terminalDomain
A, B, C, D, E
IPR001557L-lactate/malate dehydrogenaseFamily