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

Ac-AChBP ligand binding domain (not including beta 9-10 linker) mutated to human alpha-7 nAChR

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.32 Å

Oligo State

homo-pentamer

Ligands

2 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: 3 residues within 4Å: Chain B: N.119, S.121, H.123 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 3 residues within 4Å: Chain D: N.119, S.121, H.123 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN-MAN.2: 1 residues within 4Å: Chain B: N.83 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN.4: 4 residues within 4Å: Chain E: N.119, S.120, S.121, H.123 1 PLIP interactions: 1 interactions with chain E Water bridges: E:S.68

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

NAG.5: 4 residues within 4Å: Chain A: N.119, S.120, S.121, H.123 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.86, A:N.119 NAG.9: 4 residues within 4Å: Chain C: N.119, S.120, S.121, H.123 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.121 Water bridges: C:N.119 NAG.16: 2 residues within 4Å: Chain E: G.82, N.83 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.83

5 x MLK: METHYLLYCACONITINE(Non-covalent)

MLK.6: 15 residues within 4Å: Chain A: Y.102, K.152, S.155, W.156, S.157, Y.158, Q.195, Y.197, C.199, Y.204, D.206 Chain E: W.64, Q.125, L.127, S.176 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain E Hydrophobic interactions: A:Y.102, A:Y.102, A:K.152, A:Q.195, A:Y.197, A:Y.204, A:Y.204, E:L.127 Water bridges: A:S.103, A:K.152 MLK.8: 15 residues within 4Å: Chain A: W.64, Q.125, L.127, S.176 Chain B: Y.102, K.152, S.155, W.156, S.157, Y.158, Q.195, Y.197, C.199, Y.204, D.206 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.102, B:Y.102, B:K.152, B:Q.195, B:Y.197, B:Y.204, B:Y.204 Water bridges: B:S.103 Hydrogen bonds: A:Q.125 MLK.11: 16 residues within 4Å: Chain B: L.47, W.64, Q.125, L.127, S.176 Chain C: Y.102, S.103, K.152, S.155, W.156, S.157, Y.158, Y.197, C.199, Y.204, D.206 10 PLIP interactions: 9 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:Y.102, C:Y.102, C:Y.102, C:Y.102, C:K.152, C:Y.197, C:Y.204, C:Y.204, B:L.47 Water bridges: C:S.103 MLK.14: 16 residues within 4Å: Chain C: W.64, Q.125, L.127, S.176 Chain D: Y.102, S.103, K.152, S.155, W.156, S.157, Y.158, Q.195, Y.197, C.199, Y.204, D.206 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:Y.102, D:Y.102, D:Y.102, D:K.152, D:Y.197, D:Y.204, D:Y.204 Water bridges: D:S.103 MLK.17: 16 residues within 4Å: Chain D: L.47, W.64, L.127, S.176 Chain E: Y.102, S.103, K.152, S.155, W.156, S.157, Y.158, Q.195, Y.197, C.199, Y.204, D.206 10 PLIP interactions: 2 interactions with chain D, 8 interactions with chain E Hydrophobic interactions: D:L.47, D:L.127, E:Y.102, E:Y.102, E:Y.102, E:K.152, E:Q.195, E:Y.204, E:Y.204 Water bridges: E:S.103

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

MRD.7: 6 residues within 4Å: Chain A: K.19 Chain B: Y.29, P.30, G.31, W.95, Y.158 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.19, B:Y.158 Water bridges: A:S.90 MRD.10: 5 residues within 4Å: Chain B: S.90, N.115 Chain C: P.30, W.95, Y.158 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Y.158 MRD.13: 4 residues within 4Å: Chain C: N.225 Chain D: T.148, C.149, A.150 4 PLIP interactions: 1 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:T.148 Hydrogen bonds: C:N.225, C:N.225, C:N.225 MRD.15: 6 residues within 4Å: Chain D: T.89, S.90, N.115 Chain E: Y.29, W.95, Y.158 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain D Hydrogen bonds: E:Y.158 Water bridges: D:K.19

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

MPD.12: 7 residues within 4Å: Chain C: R.88, T.89, S.90, N.115 Chain D: M.28, W.95, Y.158 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:R.88 Water bridges: D:W.95

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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