SMTL ID : 6his.1

Mouse serotonin 5-HT3 receptor, tropisetron-bound, T conformation

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

10 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: 2 residues within 4Å: Chain A: D.74, N.75 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 6 residues within 4Å: Chain A: N.141, F.186, Q.188, K.190, Y.206, I.208 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.188, A:K.190 NAG-NAG.4: 2 residues within 4Å: Chain B: D.74, N.75 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 6 residues within 4Å: Chain B: N.141, F.186, Q.188, K.190, Y.206, I.208 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.188, B:K.190 NAG-NAG.7: 2 residues within 4Å: Chain C: D.74, N.75 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 6 residues within 4Å: Chain C: N.141, F.186, Q.188, K.190, Y.206, I.208 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.188, C:K.190 NAG-NAG.10: 2 residues within 4Å: Chain D: D.74, N.75 No protein-ligand interaction detected (PLIP) NAG-NAG.12: 6 residues within 4Å: Chain D: N.141, F.186, Q.188, K.190, Y.206, I.208 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Q.188, D:K.190 NAG-NAG.13: 2 residues within 4Å: Chain E: D.74, N.75 No protein-ligand interaction detected (PLIP) NAG-NAG.15: 6 residues within 4Å: Chain E: N.141, F.186, Q.188, K.190, Y.206, I.208 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:Q.188, E:K.190

5 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.2: 5 residues within 4Å: Chain A: I.153, N.157, I.158, T.159, F.189 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.189 NAG-NAG-BMA.5: 5 residues within 4Å: Chain B: I.153, N.157, I.158, T.159, F.189 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:F.189 NAG-NAG-BMA.8: 5 residues within 4Å: Chain C: I.153, N.157, I.158, T.159, F.189 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:F.189 NAG-NAG-BMA.11: 5 residues within 4Å: Chain D: I.153, N.157, I.158, T.159, F.189 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:F.189 NAG-NAG-BMA.14: 5 residues within 4Å: Chain E: I.153, N.157, I.158, T.159, F.189 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:F.189

5 x TKT: (3-ENDO)-8-METHYL-8-AZABICYCLO[3.2.1]OCT-3-YL 1H-INDOLE-3-CARBOXYLATE(Non-covalent)

TKT.16: 8 residues within 4Å: Chain A: D.35, I.37, W.56, R.58, R.162 Chain C: N.94, W.149, Y.200 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:W.56, C:W.149, C:Y.200 pi-Cation interactions: C:W.149 TKT.17: 8 residues within 4Å: Chain A: N.94, W.149, Y.200 Chain B: D.35, I.37, W.56, R.58, R.162 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:W.149, A:Y.200, B:W.56 pi-Cation interactions: A:W.149 TKT.18: 8 residues within 4Å: Chain C: D.35, I.37, W.56, R.58, R.162 Chain D: N.94, W.149, Y.200 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: C:W.56, D:W.149, D:Y.200 pi-Cation interactions: C:R.58, D:W.149 TKT.19: 8 residues within 4Å: Chain D: D.35, I.37, W.56, R.58, R.162 Chain E: N.94, W.149, Y.200 4 PLIP interactions: 3 interactions with chain E, 1 interactions with chain D Hydrophobic interactions: E:W.149, E:Y.200, D:W.56 pi-Cation interactions: E:W.149 TKT.20: 8 residues within 4Å: Chain B: N.94, W.149, Y.200 Chain E: D.35, I.37, W.56, R.58, R.162 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain E Hydrophobic interactions: B:W.149, B:Y.200, E:W.56 pi-Cation interactions: B:W.149

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Polovinkin, L. et al., Conformational transitions of the serotonin 5-HT3receptor. Nature (2018)

Release Date

2018-11-07

Peptides

5-hydroxytryptamine receptor 3A: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
E

C
B

D
C

E
D

Membrane

We predict this structure to be a membrane protein.
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5-hydroxytryptamine receptor 3A