SMTL ID : 8e6s.1

Human TRPM2 ion channel in 1 mM dADPR and Ca2+

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

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

APR.1: 17 residues within 4Å: Chain A: T.174, G.175, G.176, A.177, K.178, N.179, S.210, T.275, Y.295, I.299, G.332, G.333, P.334, G.335, T.336, T.339, M.390 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:Y.295 Hydrogen bonds: A:G.175, A:G.175, A:A.177, A:K.178, A:N.179, A:G.209, A:S.210, A:T.275, A:E.298, A:E.298, A:G.333, A:G.335, A:T.336, A:T.339, A:T.339 pi-Stacking: A:Y.295 APR.5: 17 residues within 4Å: Chain B: T.174, G.175, G.176, A.177, K.178, N.179, S.210, T.275, Y.295, I.299, G.332, G.333, P.334, G.335, T.336, T.339, M.390 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:Y.295 Hydrogen bonds: B:G.175, B:G.175, B:A.177, B:K.178, B:N.179, B:G.209, B:S.210, B:T.275, B:E.298, B:E.298, B:G.333, B:G.335, B:T.336, B:T.339, B:T.339 pi-Stacking: B:Y.295 APR.9: 17 residues within 4Å: Chain C: T.174, G.175, G.176, A.177, K.178, N.179, S.210, T.275, Y.295, I.299, G.332, G.333, P.334, G.335, T.336, T.339, M.390 17 PLIP interactions: 17 interactions with chain C Hydrophobic interactions: C:Y.295 Hydrogen bonds: C:G.175, C:G.175, C:A.177, C:K.178, C:N.179, C:G.209, C:S.210, C:T.275, C:E.298, C:E.298, C:G.333, C:G.335, C:T.336, C:T.339, C:T.339 pi-Stacking: C:Y.295 APR.13: 17 residues within 4Å: Chain D: T.174, G.175, G.176, A.177, K.178, N.179, S.210, T.275, Y.295, I.299, G.332, G.333, P.334, G.335, T.336, T.339, M.390 17 PLIP interactions: 17 interactions with chain D Hydrophobic interactions: D:Y.295 Hydrogen bonds: D:G.175, D:G.175, D:A.177, D:K.178, D:N.179, D:G.209, D:S.210, D:T.275, D:E.298, D:E.298, D:G.333, D:G.335, D:T.336, D:T.339, D:T.339 pi-Stacking: D:Y.295

4 x DAT: 2'-DEOXYADENOSINE-5'-DIPHOSPHATE(Non-covalent)

DAT.2: 7 residues within 4Å: Chain A: L.1339, S.1340, N.1345, S.1391, D.1431, R.1433, Y.1485 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.1340, A:N.1345, A:S.1391, A:S.1391, A:R.1433 DAT.6: 7 residues within 4Å: Chain B: L.1339, S.1340, N.1345, S.1391, D.1431, R.1433, Y.1485 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.1340, B:N.1345, B:S.1391, B:S.1391, B:R.1433 DAT.10: 7 residues within 4Å: Chain C: L.1339, S.1340, N.1345, S.1391, D.1431, R.1433, Y.1485 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:S.1340, C:N.1345, C:S.1391, C:S.1391, C:R.1433 DAT.14: 7 residues within 4Å: Chain D: L.1339, S.1340, N.1345, S.1391, D.1431, R.1433, Y.1485 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:S.1340, D:N.1345, D:S.1391, D:S.1391, D:R.1433

4 x ZN: ZINC ION(Non-covalent)

ZN.3: 4 residues within 4Å: Chain A: F.75, C.89, C.91, H.98 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.89, A:C.91, A:H.98 ZN.7: 4 residues within 4Å: Chain B: F.75, C.89, C.91, H.98 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.89, B:C.91, B:H.98 ZN.11: 4 residues within 4Å: Chain C: F.75, C.89, C.91, H.98 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:C.89, C:C.91, C:H.98 ZN.15: 4 residues within 4Å: Chain D: F.75, C.89, C.91, H.98 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:C.89, D:C.91, D:H.98

4 x CA: CALCIUM ION(Non-covalent)

CA.4: 4 residues within 4Å: Chain A: D.866, F.867, W.868, K.932 No protein-ligand interaction detected (PLIP) CA.8: 4 residues within 4Å: Chain B: D.866, F.867, W.868, K.932 No protein-ligand interaction detected (PLIP) CA.12: 4 residues within 4Å: Chain C: D.866, F.867, W.868, K.932 No protein-ligand interaction detected (PLIP) CA.16: 4 residues within 4Å: Chain D: D.866, F.867, W.868, K.932 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, L. et al., A unified mechanism for human TRPM2 activation, desensitization and inhibition. To Be Published

Release Date

2024-08-14

Peptides

Transient receptor potential cation channel subfamily M member 2: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

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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