SMTL ID : 4ajo.1

rat LDHA in complex with 2-((4-(4-((3-((2-methyl-1,3-benzothiazol-6yl) amino)-3-oxo-propyl)amino)-4-oxo-butyl)phenyl)methyl)propanedioic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

homo-tetramer

Ligands

4 x 88N: {4-[4-({3-[(2-METHYL-1,3-BENZOTHIAZOL-6-YL)AMINO]-3-OXOPROPYL}AMINO)-4-OXOBUTYL]BENZYL}PROPANEDIOIC ACID(Non-covalent)

88N.1: 21 residues within 4Å: Chain A: G.26, G.28, V.30, D.51, V.52, T.94, A.95, G.96, Q.99, R.105, I.115, F.118, I.119, V.135, N.137, L.164, R.168, H.192, A.237, T.247, I.251 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:V.30, A:A.95, A:F.118, A:I.251 Hydrogen bonds: A:D.51, A:G.96, A:G.96, A:Q.99, A:N.137 Water bridges: A:G.28, A:A.29, A:N.137, A:R.168 Salt bridges: A:R.105, A:R.105, A:R.168, A:H.192, A:H.192 88N.3: 23 residues within 4Å: Chain B: G.26, G.28, V.30, D.51, V.52, T.94, A.95, G.96, R.98, Q.99, R.105, I.115, F.118, I.119, V.135, N.137, L.164, R.168, H.192, A.237, T.247, I.251 Ligands: DMS.2 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:V.30, B:V.52, B:A.95, B:R.98, B:F.118, B:I.119, B:I.251 Hydrogen bonds: B:D.51, B:G.96, B:G.96, B:Q.99, B:N.137, B:T.247 Water bridges: B:G.28, B:V.30, B:R.98, B:N.137 Salt bridges: B:R.105, B:R.105, B:R.168, B:H.192, B:H.192 88N.6: 22 residues within 4Å: Chain C: G.26, G.28, V.30, D.51, V.52, T.94, A.95, G.96, Q.99, R.105, I.115, F.118, I.119, V.135, N.137, L.164, R.168, H.192, A.237, T.247, I.251 Ligands: DMS.5 20 PLIP interactions: 20 interactions with chain C Hydrophobic interactions: C:V.30, C:V.52, C:A.95, C:F.118, C:I.119, C:I.251 Hydrogen bonds: C:D.51, C:G.96, C:G.96, C:Q.99, C:N.137 Water bridges: C:G.28, C:V.30, C:N.137, C:T.247 Salt bridges: C:R.105, C:R.105, C:R.168, C:H.192, C:H.192 88N.8: 22 residues within 4Å: Chain D: G.26, G.28, V.30, D.51, V.52, T.94, A.95, G.96, Q.99, R.105, I.115, F.118, I.119, V.135, N.137, L.164, R.168, H.192, A.237, T.247, I.251 Ligands: GOL.7 20 PLIP interactions: 20 interactions with chain D Hydrophobic interactions: D:V.30, D:V.52, D:A.95, D:F.118, D:I.119, D:I.251 Hydrogen bonds: D:D.51, D:G.96, D:G.96, D:Q.99, D:N.137 Water bridges: D:G.28, D:A.29, D:V.30, D:T.247 Salt bridges: D:R.105, D:R.105, D:R.168, D:H.192, D:H.192

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 4 residues within 4Å: Chain B: G.96, A.97, I.115 Ligands: 88N.3 No protein-ligand interaction detected (PLIP) DMS.5: 4 residues within 4Å: Chain C: G.96, A.97, I.115 Ligands: 88N.6 No protein-ligand interaction detected (PLIP)

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 9 residues within 4Å: Chain B: G.202, N.204, G.207 Chain C: S.201, G.202, V.203, N.204, G.207, S.209 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:G.202, B:N.204, C:S.201 Water bridges: C:L.210 GOL.7: 4 residues within 4Å: Chain D: G.96, A.97, I.115 Ligands: 88N.8 1 PLIP interactions: 1 interactions with chain D Water bridges: D:G.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ward, R. et al., The Design and Synthesis of Novel Lactate Dehydrogenase a Inhibitors by Fragment-Based Lead Generation. J.Med.Chem. (2012)

Release Date

2012-03-21

Peptides

L-LACTATE DEHYDROGENASE A CHAIN: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

L-LACTATE DEHYDROGENASE A CHAIN

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