SMTL ID : 3zdg.1 (3 other biounits)

Crystal Structure of Ls-AChBP complexed with carbamoylcholine analogue 3-(dimethylamino)butyl dimethylcarbamate (DMABC)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.48 Å

Oligo State

homo-pentamer

Ligands

5 x XRX: 3-(dimethylamino)butyl dimethylcarbamate(Non-covalent)

XRX.1: 10 residues within 4Å: Chain A: Y.89, S.142, W.143, T.144, C.188, Y.192 Chain B: W.53, R.104, L.112, M.114 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.89, A:W.143, B:W.53 Water bridges: B:M.114 XRX.3: 11 residues within 4Å: Chain B: Y.89, S.142, W.143, T.144, Y.185, C.188, Y.192 Chain C: W.53, R.104, L.112, M.114 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:Y.89, B:Y.185, C:W.53 Hydrogen bonds: C:M.114 XRX.6: 11 residues within 4Å: Chain C: Y.89, S.142, W.143, T.144, C.187, C.188, Y.192 Chain D: W.53, R.104, L.112, M.114 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:W.53, C:Y.89, C:W.143, C:W.143 Water bridges: D:M.114 XRX.9: 10 residues within 4Å: Chain D: Y.89, S.142, W.143, T.144, Y.185, C.188, Y.192 Chain E: W.53, R.104, M.114 5 PLIP interactions: 2 interactions with chain E, 3 interactions with chain D Hydrophobic interactions: E:W.53, D:Y.89, D:W.143, D:Y.185 Water bridges: E:M.114 XRX.12: 11 residues within 4Å: Chain A: W.53, R.104, L.112, M.114 Chain E: Y.89, S.142, W.143, T.144, Y.185, C.188, Y.192 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain E Hydrophobic interactions: A:W.53, E:Y.89, E:W.143, E:Y.185 Hydrogen bonds: A:M.114

6 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 4 residues within 4Å: Chain A: P.71, D.72, Q.73 Chain E: R.148 5 PLIP interactions: 3 interactions with chain E, 2 interactions with chain A Hydrogen bonds: E:E.149, E:E.149, A:D.72, A:Q.73 Salt bridges: E:R.148 SO4.4: 3 residues within 4Å: Chain A: R.148 Chain B: P.71, D.72 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.72 Water bridges: B:R.3, B:R.3 Salt bridges: A:R.148 SO4.5: 5 residues within 4Å: Chain A: T.21, D.24 Chain B: D.2, R.3, P.71 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.3, A:T.21, A:T.21 Water bridges: B:A.4 Salt bridges: B:R.3 SO4.10: 5 residues within 4Å: Chain C: R.148 Chain D: S.70, P.71, D.72, Q.73 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:D.72, D:Q.73 Water bridges: D:R.3, D:R.3 Salt bridges: C:R.148 SO4.11: 3 residues within 4Å: Chain D: R.137, E.196 Chain E: Q.167 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain E Salt bridges: D:R.137 Hydrogen bonds: E:Q.167 SO4.14: 3 residues within 4Å: Chain A: Q.167 Chain E: R.137, E.196 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:E.196, E:E.196 Salt bridges: E:R.137

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

NAG.7: 2 residues within 4Å: Chain C: N.66, S.68 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.66, C:S.68 NAG.13: 2 residues within 4Å: Chain E: N.66, S.68 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.66

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.8: 7 residues within 4Å: Chain C: N.9, I.10, T.13, T.62, L.63, A.64, W.65 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:L.63

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ussing, C.A. et al., Synthesis, Pharmacology, and Biostructural Characterization of Novel Alpha(4)Beta(2) Nicotinic Acetylcholine Receptor Agonists. J.Med.Chem. (2013)

Release Date

2013-02-20

Peptides

ACETYLCHOLINE BINDING PROTEIN: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

B
L

C
M

D
N

E
O

ACETYLCHOLINE BINDING PROTEIN

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