SMTL ID : 1rsd.1

DHNA complex with 3-(5-Amino-7-hydroxy-[1,2,3]triazolo[4,5-d]pyrimidin-2-yl)-N-[2-(2-hydroxymethyl-phenylsulfanyl)-benzyl]-benzamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-octamer

Ligands

8 x PSB: 3-(5-AMINO-7-HYDROXY-[1,2,3]TRIAZOLO[4,5-D]PYRIMIDIN-2-YL)-N-[2-(2-(HYDROXYMETHYL-PHENYLSULFANYL)-BENZYL]-BENZAMIDE(Non-covalent)

PSB.1: 14 residues within 4Å: Chain A: A.18, N.71, L.72, L.73, E.74, K.100, P.104, I.105, P.106 Chain D: T.51, V.52, H.53, Y.54 Chain G: Y.15 13 PLIP interactions: 5 interactions with chain A, 8 interactions with chain D Hydrophobic interactions: A:A.18, A:P.106, D:Y.54 Hydrogen bonds: A:A.18, A:L.73, D:T.51, D:V.52, D:Y.54 Salt bridges: A:E.74 pi-Stacking: D:H.53, D:Y.54, D:Y.54 pi-Cation interactions: D:H.53 PSB.2: 14 residues within 4Å: Chain B: A.18, N.71, L.72, L.73, E.74, K.100, P.104, I.105, P.106 Chain C: T.51, V.52, H.53, Y.54 Chain H: Y.15 13 PLIP interactions: 5 interactions with chain B, 8 interactions with chain C Hydrophobic interactions: B:A.18, B:P.106, C:Y.54 Hydrogen bonds: B:A.18, B:L.73, C:T.51, C:V.52, C:Y.54 Salt bridges: B:E.74 pi-Stacking: C:H.53, C:Y.54, C:Y.54 pi-Cation interactions: C:H.53 PSB.3: 14 residues within 4Å: Chain A: T.51, V.52, H.53, Y.54 Chain C: A.18, N.71, L.72, L.73, E.74, K.100, P.104, I.105, P.106 Chain E: Y.15 13 PLIP interactions: 5 interactions with chain C, 8 interactions with chain A Hydrophobic interactions: C:A.18, C:P.106, A:Y.54 Hydrogen bonds: C:A.18, C:L.73, A:T.51, A:V.52, A:Y.54 Salt bridges: C:E.74 pi-Stacking: A:H.53, A:Y.54, A:Y.54 pi-Cation interactions: A:H.53 PSB.4: 14 residues within 4Å: Chain B: T.51, V.52, H.53, Y.54 Chain D: A.18, N.71, L.72, L.73, E.74, K.100, P.104, I.105, P.106 Chain F: Y.15 13 PLIP interactions: 8 interactions with chain B, 5 interactions with chain D Hydrophobic interactions: B:Y.54, D:A.18, D:P.106 Hydrogen bonds: B:T.51, B:V.52, B:Y.54, D:A.18, D:L.73 pi-Stacking: B:H.53, B:Y.54, B:Y.54 pi-Cation interactions: B:H.53 Salt bridges: D:E.74 PSB.5: 14 residues within 4Å: Chain C: Y.15 Chain E: A.18, N.71, L.72, L.73, E.74, K.100, P.104, I.105, P.106 Chain H: T.51, V.52, H.53, Y.54 13 PLIP interactions: 8 interactions with chain H, 5 interactions with chain E Hydrophobic interactions: H:Y.54, E:A.18, E:P.106 Hydrogen bonds: H:V.52, H:Y.54, H:Y.54, E:A.18, E:L.73 pi-Stacking: H:H.53, H:Y.54, H:Y.54 pi-Cation interactions: H:H.53 Salt bridges: E:E.74 PSB.6: 14 residues within 4Å: Chain D: Y.15 Chain F: A.18, N.71, L.72, L.73, E.74, K.100, P.104, I.105, P.106 Chain G: T.51, V.52, H.53, Y.54 13 PLIP interactions: 5 interactions with chain F, 8 interactions with chain G Hydrophobic interactions: F:A.18, F:P.106, G:Y.54 Hydrogen bonds: F:A.18, F:L.73, G:V.52, G:Y.54, G:Y.54 Salt bridges: F:E.74 pi-Stacking: G:H.53, G:Y.54, G:Y.54 pi-Cation interactions: G:H.53 PSB.7: 14 residues within 4Å: Chain A: Y.15 Chain E: T.51, V.52, H.53, Y.54 Chain G: A.18, N.71, L.72, L.73, E.74, K.100, P.104, I.105, P.106 13 PLIP interactions: 5 interactions with chain G, 8 interactions with chain E Hydrophobic interactions: G:A.18, G:P.106, E:Y.54 Hydrogen bonds: G:A.18, G:L.73, E:V.52, E:Y.54, E:Y.54 Salt bridges: G:E.74 pi-Stacking: E:H.53, E:Y.54, E:Y.54 pi-Cation interactions: E:H.53 PSB.8: 14 residues within 4Å: Chain B: Y.15 Chain F: T.51, V.52, H.53, Y.54 Chain H: A.18, N.71, L.72, L.73, E.74, K.100, P.104, I.105, P.106 13 PLIP interactions: 5 interactions with chain H, 8 interactions with chain F Hydrophobic interactions: H:A.18, H:P.106, F:Y.54 Hydrogen bonds: H:A.18, H:L.73, F:V.52, F:Y.54, F:Y.54 Salt bridges: H:E.74 pi-Stacking: F:H.53, F:Y.54, F:Y.54 pi-Cation interactions: F:H.53

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sanders, W.J. et al., Discovery of Potent Inhibitors of Dihydroneopterin Aldolase Using CrystaLEAD High-Throughput X-ray Crystallographic Screening and Structure-Directed Lead Optimization. J.Med.Chem. (2004)

Release Date

2004-03-30

Peptides

Dihydroneopterin aldolase: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

Dihydroneopterin aldolase

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