SMTL ID : 7tj5.1

SthK closed state, cAMP-bound in the presence of POPA

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

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

CMP.1: 9 residues within 4Å: Chain A: I.348, Y.376, F.385, G.386, E.387, M.388, R.396, T.397, A.398 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.386, A:E.387, A:E.387, A:T.397, A:A.398 Salt bridges: A:R.396 CMP.11: 9 residues within 4Å: Chain B: I.348, Y.376, F.385, G.386, E.387, M.388, R.396, T.397, A.398 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.386, B:E.387, B:E.387, B:T.397, B:A.398 Salt bridges: B:R.396 CMP.19: 9 residues within 4Å: Chain C: I.348, Y.376, F.385, G.386, E.387, M.388, R.396, T.397, A.398 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:G.386, C:E.387, C:E.387, C:T.397, C:A.398 Salt bridges: C:R.396 CMP.27: 9 residues within 4Å: Chain D: I.348, Y.376, F.385, G.386, E.387, M.388, R.396, T.397, A.398 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:G.386, D:E.387, D:E.387, D:T.397, D:A.398 Salt bridges: D:R.396

28 x D21: (2R)-1-(hexadecanoyloxy)-3-(phosphonooxy)propan-2-yl (9Z)-octadec-9-enoate(Non-covalent)

D21.2: 3 residues within 4Å: Chain A: A.185, G.186 Ligands: D21.10 No protein-ligand interaction detected (PLIP) D21.3: 7 residues within 4Å: Chain A: L.51, F.55, L.58, H.168, A.185, Y.189 Ligands: D21.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.51, A:F.55, A:L.58, A:Y.189, A:Y.189 D21.4: 4 residues within 4Å: Chain A: Y.44, I.47, L.51 Ligands: D21.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.44, A:I.47, A:I.47, A:L.51 D21.5: 7 residues within 4Å: Chain A: L.53, S.121, L.125, G.169, S.176, Y.218 Ligands: D21.6 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.53, A:L.53, A:L.125, A:Y.218 D21.6: 3 residues within 4Å: Chain A: V.217, V.221 Ligands: D21.5 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.217, A:V.221, A:V.221 D21.7: 13 residues within 4Å: Chain A: Q.138, R.155, S.158, A.227, A.228 Chain D: L.156, V.160, I.163, L.200, M.229, Y.230, L.240, L.244 11 PLIP interactions: 7 interactions with chain D, 4 interactions with chain A Hydrophobic interactions: D:L.156, D:V.160, D:I.163, D:M.229, D:Y.230, D:L.240, D:L.244, A:A.227, A:A.228 Salt bridges: A:R.155, A:R.155 D21.8: 6 residues within 4Å: Chain A: P.213, T.214, L.224 Chain D: G.186, L.190 Ligands: D21.28 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.224 D21.9: 13 residues within 4Å: Chain A: L.156, V.160, I.163, L.200, M.229, Y.230, L.240, L.244 Chain B: Q.138, R.155, S.158, A.227, A.228 11 PLIP interactions: 7 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:L.156, A:V.160, A:I.163, A:M.229, A:Y.230, A:L.240, A:L.244, B:A.227, B:A.228 Salt bridges: B:R.155, B:R.155 D21.10: 6 residues within 4Å: Chain A: G.186, L.190 Chain B: P.213, T.214, L.224 Ligands: D21.2 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.224 D21.12: 3 residues within 4Å: Chain B: A.185, G.186 Ligands: D21.18 No protein-ligand interaction detected (PLIP) D21.13: 7 residues within 4Å: Chain B: L.51, F.55, L.58, H.168, A.185, Y.189 Ligands: D21.14 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.51, B:F.55, B:L.58, B:Y.189, B:Y.189 D21.14: 4 residues within 4Å: Chain B: Y.44, I.47, L.51 Ligands: D21.13 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Y.44, B:I.47, B:I.47, B:L.51 D21.15: 7 residues within 4Å: Chain B: L.53, S.121, L.125, G.169, S.176, Y.218 Ligands: D21.16 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.53, B:L.53, B:L.125, B:Y.218 D21.16: 3 residues within 4Å: Chain B: V.217, V.221 Ligands: D21.15 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:V.217, B:V.221, B:V.221 D21.17: 13 residues within 4Å: Chain B: L.156, V.160, I.163, L.200, M.229, Y.230, L.240, L.244 Chain C: Q.138, R.155, S.158, A.227, A.228 11 PLIP interactions: 7 interactions with chain B, 4 interactions with chain C Hydrophobic interactions: B:L.156, B:V.160, B:I.163, B:M.229, B:Y.230, B:L.240, B:L.244, C:A.227, C:A.228 Salt bridges: C:R.155, C:R.155 D21.18: 6 residues within 4Å: Chain B: G.186, L.190 Chain C: P.213, T.214, L.224 Ligands: D21.12 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.224 D21.20: 3 residues within 4Å: Chain C: A.185, G.186 Ligands: D21.26 No protein-ligand interaction detected (PLIP) D21.21: 7 residues within 4Å: Chain C: L.51, F.55, L.58, H.168, A.185, Y.189 Ligands: D21.22 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:L.51, C:F.55, C:L.58, C:Y.189, C:Y.189 D21.22: 4 residues within 4Å: Chain C: Y.44, I.47, L.51 Ligands: D21.21 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:Y.44, C:I.47, C:I.47, C:L.51 D21.23: 7 residues within 4Å: Chain C: L.53, S.121, L.125, G.169, S.176, Y.218 Ligands: D21.24 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:L.53, C:L.53, C:L.125, C:Y.218 D21.24: 3 residues within 4Å: Chain C: V.217, V.221 Ligands: D21.23 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:V.217, C:V.221, C:V.221 D21.25: 13 residues within 4Å: Chain C: L.156, V.160, I.163, L.200, M.229, Y.230, L.240, L.244 Chain D: Q.138, R.155, S.158, A.227, A.228 11 PLIP interactions: 7 interactions with chain C, 4 interactions with chain D Hydrophobic interactions: C:L.156, C:V.160, C:I.163, C:M.229, C:Y.230, C:L.240, C:L.244, D:A.227, D:A.228 Salt bridges: D:R.155, D:R.155 D21.26: 6 residues within 4Å: Chain C: G.186, L.190 Chain D: P.213, T.214, L.224 Ligands: D21.20 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:L.224 D21.28: 3 residues within 4Å: Chain D: A.185, G.186 Ligands: D21.8 No protein-ligand interaction detected (PLIP) D21.29: 7 residues within 4Å: Chain D: L.51, F.55, L.58, H.168, A.185, Y.189 Ligands: D21.30 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:L.51, D:F.55, D:L.58, D:Y.189, D:Y.189 D21.30: 4 residues within 4Å: Chain D: Y.44, I.47, L.51 Ligands: D21.29 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:Y.44, D:I.47, D:I.47, D:L.51 D21.31: 7 residues within 4Å: Chain D: L.53, S.121, L.125, G.169, S.176, Y.218 Ligands: D21.32 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:L.53, D:L.53, D:L.125, D:Y.218 D21.32: 3 residues within 4Å: Chain D: V.217, V.221 Ligands: D21.31 3 PLIP interactions: 3 interactions with chain D Hydrophobic interactions: D:V.217, D:V.221, D:V.221

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schmidpeter, P.A.M. et al., Anionic lipids unlock the gates of select ion channels in the pacemaker family. Nat.Struct.Mol.Biol. (2022)

Release Date

2022-10-26

Peptides

Putative 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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Putative transcriptional regulator, Crp/Fnr family

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