SMTL ID : 3sh1.1 (1 other biounit)

Ac-AChBP ligand binding domain mutated to human alpha-7 nAChR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-pentamer

Ligands

3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: N.119, S.120, S.121, H.123, Q.125 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 6 residues within 4Å: Chain D: T.85, N.119, S.120, S.121, H.123, Q.125 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 4 residues within 4Å: Chain E: T.85, N.119, S.121, H.123 No protein-ligand interaction detected (PLIP)

4 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 2 residues within 4Å: Chain A: D.6, H.10 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.6, A:D.6, A:H.10 MG.9: 2 residues within 4Å: Chain B: D.6, H.10 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.6, B:D.6, B:H.10 MG.14: 2 residues within 4Å: Chain C: D.6, H.10 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.6, C:D.6, C:H.10 MG.20: 2 residues within 4Å: Chain E: D.6, H.10 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:D.6, E:D.6, E:H.10

5 x MLK: METHYLLYCACONITINE(Non-covalent)

MLK.5: 15 residues within 4Å: Chain A: Y.102, S.103, K.152, S.155, W.156, S.157, Y.158, R.195, Y.204, D.206 Chain E: L.47, W.64, Q.125, L.127, S.176 9 PLIP interactions: 4 interactions with chain E, 5 interactions with chain A Hydrophobic interactions: E:L.47, E:W.64, E:L.127, A:Y.102, A:Y.102, A:Y.102, A:K.152, A:Y.204 Hydrogen bonds: E:Q.125 MLK.12: 13 residues within 4Å: Chain A: W.64, Q.125, L.127, S.176 Chain B: Y.102, K.152, S.155, W.156, Y.158, R.195, Y.197, Y.204, D.206 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.102, B:Y.102, B:K.152, B:Y.197, B:Y.204 Hydrogen bonds: A:Q.125 MLK.16: 15 residues within 4Å: Chain B: W.64, Q.125, L.127, S.176 Chain C: Y.102, K.152, S.155, W.156, S.157, Y.158, R.195, Y.197, C.199, Y.204, D.206 9 PLIP interactions: 7 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:Y.102, C:Y.102, C:Y.102, C:K.152, C:Y.197, C:Y.204, C:Y.204, B:L.127 Hydrogen bonds: B:Q.125 MLK.19: 14 residues within 4Å: Chain C: W.64, Q.125, L.127, S.176 Chain D: Y.102, K.152, S.155, W.156, S.157, Y.158, Y.197, C.199, Y.204, D.206 10 PLIP interactions: 7 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:Y.102, D:Y.102, D:Y.102, D:Y.102, D:K.152, D:Y.197, D:Y.204, C:W.64, C:L.127 Hydrogen bonds: C:Q.125 MLK.23: 14 residues within 4Å: Chain D: W.64, L.127, S.176 Chain E: Y.102, K.152, S.155, W.156, S.157, Y.158, G.159, R.195, Y.197, Y.204, D.206 10 PLIP interactions: 9 interactions with chain E, 1 interactions with chain D Hydrophobic interactions: E:Y.102, E:Y.102, E:Y.102, E:K.152, E:Y.204, E:D.206 Hydrogen bonds: E:R.195, E:R.195, D:S.176 pi-Cation interactions: E:R.195

4 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)

MRD.6: 6 residues within 4Å: Chain A: P.30, G.31, W.95, Y.158 Chain E: K.19, S.90 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain A Hydrogen bonds: E:S.90 Hydrophobic interactions: A:Y.158 MRD.13: 6 residues within 4Å: Chain B: R.88, T.89, S.90, N.115 Chain C: W.95, Y.158 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:R.88, C:Y.158 Hydrogen bonds: C:W.95, C:Y.158 MRD.18: 4 residues within 4Å: Chain C: N.115 Chain D: Y.29, W.95, Y.158 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:W.95, D:Y.158 MRD.21: 8 residues within 4Å: Chain D: K.19, R.88, T.89, S.90 Chain E: Y.29, P.30, W.95, Y.158 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:K.19

3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.7: 8 residues within 4Å: Chain A: K.19, R.88, T.89, S.90, N.115 Chain B: W.95, T.96, Y.158 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.90, B:Y.158, B:Y.158 MPD.8: 4 residues within 4Å: Chain A: A.91, A.92, I.94, T.96 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.92 MPD.17: 8 residues within 4Å: Chain C: D.21, L.22, R.25, N.72, S.73, M.75, W.76, Y.81 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:W.76, C:Y.81 Hydrogen bonds: C:D.21, C:D.21, C:R.25, C:M.75

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

NAG.10: 5 residues within 4Å: Chain B: T.85, N.119, S.120, S.121, H.123 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.121 NAG.11: 2 residues within 4Å: Chain B: G.82, N.83 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.83 NAG.15: 4 residues within 4Å: Chain C: T.85, N.119, S.121, H.123 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.121 NAG.22: 1 residues within 4Å: Chain E: N.83 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nemecz, A. et al., Creating an alpha-7 nicotinic acetylcholine recognition domain from the acetylcholine binding protein: crystallographic and ligand selectivity analyses. J.Biol.Chem. (2011)

Release Date

2011-10-26

Peptides

Soluble acetylcholine receptor: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Soluble acetylcholine receptor

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