SMTL ID : 4qac.1 (1 other biounit)

X-RAY STRUCTURE OF ACETYLCHOLINE BINDING PROTEIN (ACHBP) IN COMPLEX WITH 4-(4-methylpiperidin-1-yl)-6-(4-(trifluoromethyl)phenyl)pyrimidin-2-amine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-pentamer

Ligands

5 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 7 residues within 4Å: Chain A: R.11, V.82, S.83 Chain E: D.25, V.26, I.27, H.153 6 PLIP interactions: 4 interactions with chain E, 2 interactions with chain A Hydrogen bonds: E:I.27, A:S.83 Water bridges: E:W.90, E:H.153 Salt bridges: E:H.153, A:R.11 PO4.2: 7 residues within 4Å: Chain A: D.25, V.26, I.27, H.153 Chain B: R.11, V.82, S.83 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:D.25, A:I.27, B:S.83 Salt bridges: A:H.153, B:R.11 PO4.5: 7 residues within 4Å: Chain B: D.25, V.26, I.27, H.153 Chain C: R.11, V.82, S.83 7 PLIP interactions: 3 interactions with chain C, 4 interactions with chain B Hydrogen bonds: C:S.83, C:S.83, B:D.25, B:D.25, B:I.27 Salt bridges: C:R.11, B:H.153 PO4.9: 7 residues within 4Å: Chain C: D.25, V.26, I.27, H.153 Chain D: R.11, V.82, S.83 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:D.25, C:D.25, C:I.27, D:S.83, D:S.83 Salt bridges: C:H.153, D:R.11 PO4.10: 7 residues within 4Å: Chain D: D.25, V.26, I.27, H.153 Chain E: R.11, V.82, S.83 6 PLIP interactions: 4 interactions with chain D, 2 interactions with chain E Hydrogen bonds: D:I.27, E:S.83 Water bridges: D:W.90, D:H.153 Salt bridges: D:H.153, E:R.11

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 3 residues within 4Å: Chain A: N.74, S.76, H.77 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.74, A:S.76 NAG.6: 2 residues within 4Å: Chain B: N.74, S.76 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.76 NAG.11: 3 residues within 4Å: Chain D: N.74, S.76, H.77 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:S.76, D:S.76 NAG.13: 2 residues within 4Å: Chain E: N.74, S.76 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:N.74, E:S.76

5 x KK3: 4-(4-methylpiperidin-1-yl)-6-[4-(trifluoromethyl)phenyl]pyrimidin-2-amine(Non-covalent)

KK3.4: 12 residues within 4Å: Chain A: Y.97, S.150, W.151, T.152, Y.193, Y.200 Chain B: I.44, W.61, R.112, L.120, M.122, Y.172 11 PLIP interactions: 6 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:W.151, A:Y.200, B:I.44, B:W.61, B:W.61, B:W.61, B:Y.172 Hydrogen bonds: A:Y.97 pi-Stacking: A:W.151, A:W.151 pi-Cation interactions: A:Y.200 KK3.7: 13 residues within 4Å: Chain B: Y.97, S.150, W.151, T.152, Y.193, Y.200 Chain C: I.44, W.61, R.112, L.120, Y.121, M.122, Y.172 13 PLIP interactions: 4 interactions with chain C, 9 interactions with chain B Hydrophobic interactions: C:I.44, C:W.61, C:M.122, C:Y.172, B:Y.97, B:W.151, B:Y.200 Hydrogen bonds: B:Y.97, B:Y.97, B:Y.193 pi-Stacking: B:W.151, B:W.151 pi-Cation interactions: B:Y.200 KK3.8: 13 residues within 4Å: Chain C: Y.97, S.150, W.151, T.152, Y.193, C.196, Y.200 Chain D: I.44, W.61, R.112, L.120, M.122, Y.172 13 PLIP interactions: 4 interactions with chain D, 9 interactions with chain C Hydrophobic interactions: D:I.44, D:W.61, D:W.61, D:Y.172, C:Y.97, C:W.151, C:Y.200 Hydrogen bonds: C:Y.97, C:Y.97 pi-Stacking: C:W.151, C:W.151, C:Y.200 pi-Cation interactions: C:Y.200 KK3.12: 14 residues within 4Å: Chain D: Y.97, S.150, W.151, T.152, Y.193, C.196, Y.200 Chain E: I.44, W.61, R.112, L.120, Y.121, M.122, Y.172 10 PLIP interactions: 3 interactions with chain E, 7 interactions with chain D Hydrophobic interactions: E:I.44, E:W.61, E:Y.172, D:Y.97, D:W.151, D:Y.200 Hydrogen bonds: D:Y.97 pi-Stacking: D:W.151, D:W.151 pi-Cation interactions: D:Y.200 KK3.14: 13 residues within 4Å: Chain A: I.44, W.61, R.112, L.120, M.122, Y.172 Chain E: Y.97, S.150, W.151, T.152, Y.193, C.196, Y.200 11 PLIP interactions: 8 interactions with chain E, 3 interactions with chain A Hydrophobic interactions: E:Y.97, E:W.151, E:W.151, E:Y.200, A:I.44, A:W.61, A:Y.172 Hydrogen bonds: E:Y.97 pi-Stacking: E:W.151, E:W.151 pi-Cation interactions: E:Y.200

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kaczanowska, K. et al., Structural basis for cooperative interactions of substituted 2-aminopyrimidines with the acetylcholine binding protein. Proc.Natl.Acad.Sci.USA (2014)

Release Date

2014-07-16

Peptides

Acetylcholine-binding protein: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Acetylcholine-binding protein

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