Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

9BK3

Crystal structure of Lactate dehydrogenase in complex with 4-((4-(1-methyl-1H-imidazole-2-carbonyl)phenyl)amino)-4-oxo-2-(4-(trifluoromethyl)phenyl)butanoic acid (R-enantiomer, orthorhombic P form)

This is a non-PDB format compatible entry.

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003824	molecular_function	catalytic activity
A	0004457	molecular_function	lactate dehydrogenase activity
A	0004459	molecular_function	L-lactate dehydrogenase (NAD+) activity
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0005737	cellular_component	cytoplasm
A	0005739	cellular_component	mitochondrion
A	0005829	cellular_component	cytosol
A	0006089	biological_process	lactate metabolic process
A	0006096	biological_process	glycolytic process
A	0016020	cellular_component	membrane
A	0016491	molecular_function	oxidoreductase activity
A	0016616	molecular_function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
A	0019661	biological_process	glucose catabolic process to lactate via pyruvate
A	0019752	biological_process	carboxylic acid metabolic process
A	0035686	cellular_component	sperm fibrous sheath
A	0042802	molecular_function	identical protein binding
A	0042867	biological_process	pyruvate catabolic process
A	0045296	molecular_function	cadherin binding
A	0070062	cellular_component	extracellular exosome
A	1990204	cellular_component	oxidoreductase complex
B	0003824	molecular_function	catalytic activity
B	0004457	molecular_function	lactate dehydrogenase activity
B	0004459	molecular_function	L-lactate dehydrogenase (NAD+) activity
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005737	cellular_component	cytoplasm
B	0005739	cellular_component	mitochondrion
B	0005829	cellular_component	cytosol
B	0006089	biological_process	lactate metabolic process
B	0006096	biological_process	glycolytic process
B	0016020	cellular_component	membrane
B	0016491	molecular_function	oxidoreductase activity
B	0016616	molecular_function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
B	0019661	biological_process	glucose catabolic process to lactate via pyruvate
B	0019752	biological_process	carboxylic acid metabolic process
B	0035686	cellular_component	sperm fibrous sheath
B	0042802	molecular_function	identical protein binding
B	0042867	biological_process	pyruvate catabolic process
B	0045296	molecular_function	cadherin binding
B	0070062	cellular_component	extracellular exosome
B	1990204	cellular_component	oxidoreductase complex
C	0003824	molecular_function	catalytic activity
C	0004457	molecular_function	lactate dehydrogenase activity
C	0004459	molecular_function	L-lactate dehydrogenase (NAD+) activity
C	0005515	molecular_function	protein binding
C	0005634	cellular_component	nucleus
C	0005737	cellular_component	cytoplasm
C	0005739	cellular_component	mitochondrion
C	0005829	cellular_component	cytosol
C	0006089	biological_process	lactate metabolic process
C	0006096	biological_process	glycolytic process
C	0016020	cellular_component	membrane
C	0016491	molecular_function	oxidoreductase activity
C	0016616	molecular_function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
C	0019661	biological_process	glucose catabolic process to lactate via pyruvate
C	0019752	biological_process	carboxylic acid metabolic process
C	0035686	cellular_component	sperm fibrous sheath
C	0042802	molecular_function	identical protein binding
C	0042867	biological_process	pyruvate catabolic process
C	0045296	molecular_function	cadherin binding
C	0070062	cellular_component	extracellular exosome
C	1990204	cellular_component	oxidoreductase complex
D	0003824	molecular_function	catalytic activity
D	0004457	molecular_function	lactate dehydrogenase activity
D	0004459	molecular_function	L-lactate dehydrogenase (NAD+) activity
D	0005515	molecular_function	protein binding
D	0005634	cellular_component	nucleus
D	0005737	cellular_component	cytoplasm
D	0005739	cellular_component	mitochondrion
D	0005829	cellular_component	cytosol
D	0006089	biological_process	lactate metabolic process
D	0006096	biological_process	glycolytic process
D	0016020	cellular_component	membrane
D	0016491	molecular_function	oxidoreductase activity
D	0016616	molecular_function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
D	0019661	biological_process	glucose catabolic process to lactate via pyruvate
D	0019752	biological_process	carboxylic acid metabolic process
D	0035686	cellular_component	sperm fibrous sheath
D	0042802	molecular_function	identical protein binding
D	0042867	biological_process	pyruvate catabolic process
D	0045296	molecular_function	cadherin binding
D	0070062	cellular_component	extracellular exosome
D	1990204	cellular_component	oxidoreductase complex

Functional Information from PROSITE/UniProt

site_id	PS00064
Number of Residues	7
Details	L_LDH L-lactate dehydrogenase active site. LGEHGDS

Chain	Residue	Details
A	LEU189-SER195

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	ACT_SITE: Proton acceptor

Chain	Residue	Details
A	HIS192
B	HIS192
C	HIS192
D	HIS192

site_id	SWS_FT_FI2
Number of Residues	8
Details	BINDING: BINDING => ECO:0000269\|PubMed:11276087

Chain	Residue	Details
A	GLY28
A	ARG98
B	GLY28
B	ARG98
C	GLY28
C	ARG98
D	GLY28
D	ARG98

site_id	SWS_FT_FI3
Number of Residues	16
Details	BINDING:

Chain	Residue	Details
A	ARG105
C	ASN137
C	ARG168
C	THR247
D	ARG105
D	ASN137
D	ARG168
D	THR247
A	ASN137
A	ARG168
A	THR247
B	ARG105
B	ASN137
B	ARG168
B	THR247
C	ARG105

site_id	SWS_FT_FI4
Number of Residues	4
Details	MOD_RES: N-acetylalanine => ECO:0000269\|Ref.10, ECO:0007744\|PubMed:19413330, ECO:0007744\|PubMed:22223895

Chain	Residue	Details
A	ALA1
B	ALA1
C	ALA1
D	ALA1

site_id	SWS_FT_FI5
Number of Residues	12
Details	MOD_RES: N6-succinyllysine; alternate => ECO:0000250\|UniProtKB:P06151

Chain	Residue	Details
A	LYS4
D	LYS4
D	LYS117
D	LYS317
A	LYS117
A	LYS317
B	LYS4
B	LYS117
B	LYS317
C	LYS4
C	LYS117
C	LYS317

site_id	SWS_FT_FI6
Number of Residues	4
Details	MOD_RES: Phosphotyrosine => ECO:0007744\|PubMed:19690332

Chain	Residue	Details
A	TYR9
B	TYR9
C	TYR9
D	TYR9

site_id	SWS_FT_FI7
Number of Residues	12
Details	MOD_RES: N6-acetyllysine => ECO:0007744\|PubMed:19608861

Chain	Residue	Details
A	LYS13
D	LYS13
D	LYS80
D	LYS125
A	LYS80
A	LYS125
B	LYS13
B	LYS80
B	LYS125
C	LYS13
C	LYS80
C	LYS125

site_id	SWS_FT_FI8
Number of Residues	4
Details	MOD_RES: Phosphothreonine => ECO:0007744\|PubMed:23186163

Chain	Residue	Details
A	THR17
B	THR17
C	THR17
D	THR17

site_id	SWS_FT_FI9
Number of Residues	4
Details	MOD_RES: N6-acetyllysine; alternate => ECO:0007744\|PubMed:19608861

Chain	Residue	Details
A	LYS56
B	LYS56
C	LYS56
D	LYS56

site_id	SWS_FT_FI10
Number of Residues	12
Details	MOD_RES: N6-acetyllysine => ECO:0000250\|UniProtKB:P06151

Chain	Residue	Details
A	LYS223
D	LYS223
D	LYS231
D	LYS242
A	LYS231
A	LYS242
B	LYS223
B	LYS231
B	LYS242
C	LYS223
C	LYS231
C	LYS242

site_id	SWS_FT_FI11
Number of Residues	4
Details	MOD_RES: Phosphotyrosine => ECO:0000250\|UniProtKB:P06151

Chain	Residue	Details
A	TYR238
B	TYR238
C	TYR238
D	TYR238

site_id	SWS_FT_FI12
Number of Residues	8
Details	MOD_RES: Phosphothreonine => ECO:0000250\|UniProtKB:P04642

Chain	Residue	Details
A	THR308
A	THR321
B	THR308
B	THR321
C	THR308
C	THR321
D	THR308
D	THR321

site_id	SWS_FT_FI13
Number of Residues	4
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:23186163, ECO:0007744\|PubMed:24275569

Chain	Residue	Details
A	SER309
B	SER309
C	SER309
D	SER309

site_id	SWS_FT_FI14
Number of Residues	8
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate => ECO:0007744\|PubMed:28112733

Chain	Residue	Details
A	LYS56
B	LYS56
C	LYS56
D	LYS56

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)