SMTL ID : 6pus.1

Human TRPM2 bound to ADPR and calcium

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

8 x APR: ADENOSINE-5-DIPHOSPHORIBOSE(Non-covalent)

APR.1: 15 residues within 4Å: Chain A: T.181, G.182, G.183, A.184, K.185, N.186, S.217, Y.302, R.309, G.339, G.340, P.341, G.342, T.343, R.365 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:G.182, A:A.184, A:K.185, A:N.186, A:G.340, A:G.340, A:G.342, A:T.343, A:T.343 Salt bridges: A:R.309, A:R.365 pi-Stacking: A:Y.302, A:Y.302 APR.2: 7 residues within 4Å: Chain A: L.1386, L.1388, S.1389, D.1438, R.1440, Y.1492, N.1494 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:L.1388, A:D.1438, A:R.1440, A:Y.1492, A:N.1494 Salt bridges: A:R.1440 pi-Stacking: A:Y.1492 APR.4: 15 residues within 4Å: Chain B: T.181, G.182, G.183, A.184, K.185, N.186, S.217, Y.302, R.309, G.339, G.340, P.341, G.342, T.343, R.365 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:G.182, B:A.184, B:K.185, B:N.186, B:G.340, B:G.340, B:G.342, B:T.343, B:T.343 Salt bridges: B:R.309, B:R.365 pi-Stacking: B:Y.302, B:Y.302 APR.5: 7 residues within 4Å: Chain B: L.1386, L.1388, S.1389, D.1438, R.1440, Y.1492, N.1494 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:L.1388, B:D.1438, B:R.1440, B:Y.1492, B:N.1494 Salt bridges: B:R.1440 pi-Stacking: B:Y.1492 APR.7: 15 residues within 4Å: Chain C: T.181, G.182, G.183, A.184, K.185, N.186, S.217, Y.302, R.309, G.339, G.340, P.341, G.342, T.343, R.365 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:G.182, C:A.184, C:K.185, C:N.186, C:G.340, C:G.340, C:G.342, C:T.343, C:T.343 Salt bridges: C:R.309, C:R.365 pi-Stacking: C:Y.302, C:Y.302 APR.8: 7 residues within 4Å: Chain C: L.1386, L.1388, S.1389, D.1438, R.1440, Y.1492, N.1494 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:L.1388, C:D.1438, C:R.1440, C:Y.1492, C:N.1494 Salt bridges: C:R.1440 pi-Stacking: C:Y.1492 APR.10: 15 residues within 4Å: Chain D: T.181, G.182, G.183, A.184, K.185, N.186, S.217, Y.302, R.309, G.339, G.340, P.341, G.342, T.343, R.365 13 PLIP interactions: 13 interactions with chain D Hydrogen bonds: D:G.182, D:A.184, D:K.185, D:N.186, D:G.340, D:G.340, D:G.342, D:T.343, D:T.343 Salt bridges: D:R.309, D:R.365 pi-Stacking: D:Y.302, D:Y.302 APR.11: 7 residues within 4Å: Chain D: L.1386, L.1388, S.1389, D.1438, R.1440, Y.1492, N.1494 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:L.1388, D:D.1438, D:R.1440, D:Y.1492, D:N.1494 Salt bridges: D:R.1440 pi-Stacking: D:Y.1492

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: E.850, Q.853, N.876, D.879, E.1080 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.850 CA.6: 5 residues within 4Å: Chain B: E.850, Q.853, N.876, D.879, E.1080 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.850 CA.9: 5 residues within 4Å: Chain C: E.850, Q.853, N.876, D.879, E.1080 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:E.850 CA.12: 5 residues within 4Å: Chain D: E.850, Q.853, N.876, D.879, E.1080 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:E.850

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, Y. et al., Ligand recognition and gating mechanism through three ligand-binding sites of human TRPM2 channel. Elife (2019)

Release Date

2019-09-25

Peptides

Transient receptor potential cation channel subfamily M member 2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
D

D
B

Membrane

We predict this structure to be a membrane protein.
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Transient receptor potential cation channel subfamily M member 2

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