SMTL ID : 8vtb.1

SthK R120A R124A in the presence of PIP2 and cAMP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x CMP: ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE(Non-covalent)

CMP.1: 10 residues within 4Å: Chain A: V.364, A.374, F.382, G.383, E.384, M.385, A.386, R.393, T.394, A.395 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.383, A:E.384, A:A.386, A:T.394 Salt bridges: A:R.393 CMP.9: 10 residues within 4Å: Chain B: V.364, A.374, F.382, G.383, E.384, M.385, A.386, R.393, T.394, A.395 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.383, B:E.384, B:A.386, B:T.394 Salt bridges: B:R.393 CMP.16: 10 residues within 4Å: Chain C: V.364, A.374, F.382, G.383, E.384, M.385, A.386, R.393, T.394, A.395 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:G.383, C:E.384, C:A.386, C:T.394 Salt bridges: C:R.393 CMP.26: 10 residues within 4Å: Chain D: V.364, A.374, F.382, G.383, E.384, M.385, A.386, R.393, T.394, A.395 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:G.383, D:E.384, D:A.386, D:T.394 Salt bridges: D:R.393

24 x PCW: 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

PCW.2: 14 residues within 4Å: Chain A: P.47, L.50, V.51, S.118, L.122, L.131, F.159, L.162, A.163, G.166, S.173, L.174, Y.215 Ligands: PCW.3 Ligand excluded by PLIP PCW.3: 5 residues within 4Å: Chain A: L.174, T.211, Y.215, V.218 Ligands: PCW.2 Ligand excluded by PLIP PCW.4: 9 residues within 4Å: Chain A: P.210, V.214, I.217 Chain D: G.183, Y.186, L.187, F.190 Ligands: PCW.24, PCW.25 Ligand excluded by PLIP PCW.5: 13 residues within 4Å: Chain A: L.153, V.157, L.197, T.198, Y.227, V.230, I.234, L.237, V.238, L.241 Chain B: L.221, A.225, L.229 Ligand excluded by PLIP PCW.6: 9 residues within 4Å: Chain A: G.183, Y.186, L.187, F.190 Chain B: P.210, V.214, I.217 Ligands: PCW.7, PCW.8 Ligand excluded by PLIP PCW.7: 13 residues within 4Å: Chain A: A.37, Y.41, I.44, L.48, F.52, S.54, L.55, L.59, L.161, A.182, Y.186 Ligands: PCW.6, PCW.8 Ligand excluded by PLIP PCW.8: 3 residues within 4Å: Chain A: G.183 Ligands: PCW.6, PCW.7 Ligand excluded by PLIP PCW.10: 14 residues within 4Å: Chain B: P.47, L.50, V.51, S.118, L.122, L.131, F.159, L.162, A.163, G.166, S.173, L.174, Y.215 Ligands: PCW.11 Ligand excluded by PLIP PCW.11: 5 residues within 4Å: Chain B: L.174, T.211, Y.215, V.218 Ligands: PCW.10 Ligand excluded by PLIP PCW.12: 12 residues within 4Å: Chain B: L.153, V.157, L.197, Y.227, V.230, I.234, L.237, V.238, L.241 Chain C: L.221, A.225, L.229 Ligand excluded by PLIP PCW.13: 9 residues within 4Å: Chain B: G.183, Y.186, L.187, F.190 Chain C: P.210, V.214, I.217 Ligands: PCW.14, PCW.15 Ligand excluded by PLIP PCW.14: 15 residues within 4Å: Chain B: A.37, L.40, Y.41, I.44, L.48, F.52, S.54, L.55, L.59, L.161, H.165, A.182, Y.186 Ligands: PCW.13, PCW.15 Ligand excluded by PLIP PCW.15: 3 residues within 4Å: Chain B: G.183 Ligands: PCW.13, PCW.14 Ligand excluded by PLIP PCW.17: 14 residues within 4Å: Chain C: P.47, L.50, V.51, S.118, L.122, L.131, F.159, L.162, A.163, G.166, S.173, L.174, Y.215 Ligands: PCW.18 Ligand excluded by PLIP PCW.18: 5 residues within 4Å: Chain C: L.174, T.211, Y.215, V.218 Ligands: PCW.17 Ligand excluded by PLIP PCW.19: 12 residues within 4Å: Chain C: L.153, V.157, L.197, Y.227, V.230, I.234, L.237, V.238, L.241 Chain D: L.221, A.225, L.229 Ligand excluded by PLIP PCW.20: 8 residues within 4Å: Chain C: G.183, L.187, F.190 Chain D: P.210, V.214, I.217 Ligands: PCW.21, PCW.22 Ligand excluded by PLIP PCW.21: 13 residues within 4Å: Chain C: A.37, Y.41, I.44, L.48, F.52, S.54, L.55, L.59, L.161, A.182, Y.186 Ligands: PCW.20, PCW.22 Ligand excluded by PLIP PCW.22: 3 residues within 4Å: Chain C: G.183 Ligands: PCW.20, PCW.21 Ligand excluded by PLIP PCW.23: 12 residues within 4Å: Chain A: L.221, A.225, L.229 Chain D: L.153, V.157, L.197, Y.227, V.230, I.234, L.237, V.238, L.241 Ligand excluded by PLIP PCW.24: 14 residues within 4Å: Chain D: A.37, L.40, Y.41, I.44, L.48, F.52, S.54, L.55, L.59, L.161, A.182, Y.186 Ligands: PCW.4, PCW.25 Ligand excluded by PLIP PCW.25: 3 residues within 4Å: Chain D: G.183 Ligands: PCW.4, PCW.24 Ligand excluded by PLIP PCW.27: 14 residues within 4Å: Chain D: P.47, L.50, V.51, S.118, L.122, L.131, F.159, L.162, A.163, G.166, S.173, L.174, Y.215 Ligands: PCW.28 Ligand excluded by PLIP PCW.28: 5 residues within 4Å: Chain D: L.174, T.211, Y.215, V.218 Ligands: PCW.27 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thon, O. et al., PIP2 inhibits pore opening of the cyclic nucleotide-gated channel SthK. Nat Commun (2024)

Release Date

2024-09-25

Peptides

Transcriptional regulator, Crp/Fnr family: 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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Transcriptional regulator, Crp/Fnr family