SMTL ID : 6o9v.1

KirBac3.1 mutant at a resolution of 3.1 Angstroms

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.09 Å

Oligo State

homo-tetramer

Ligands

4 x TMO: trimethylamine oxide(Non-covalent)

TMO.1: 7 residues within 4Å: Chain A: Y.132, T.136, Q.252 Chain B: Y.132, F.250, A.251, Q.252 No protein-ligand interaction detected (PLIP) TMO.8: 6 residues within 4Å: Chain B: T.136, Q.252 Chain C: Y.132, F.250, A.251, Q.252 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:A.251 TMO.10: 7 residues within 4Å: Chain C: Y.132, T.136, Q.252 Chain D: Y.132, F.250, A.251, Q.252 No protein-ligand interaction detected (PLIP) TMO.17: 6 residues within 4Å: Chain A: Y.132, F.250, A.251, Q.252 Chain D: T.136, Q.252 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.251

6 x K: POTASSIUM ION(Non-covalent)

K.2: 9 residues within 4Å: Chain A: G.98, Y.99 Chain B: G.98, Y.99 Chain C: G.98, Y.99 Chain D: G.98, Y.99 Ligands: K.11 5 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A, 2 interactions with chain C Metal complexes: B:Y.99, A:G.98, A:Y.99, C:G.98, C:Y.99 K.3: 11 residues within 4Å: Chain A: T.96, I.97 Chain B: T.96, I.97 Chain C: T.96, I.97 Chain D: T.96, I.97 Ligands: K.4, K.12, K.13 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C, 1 interactions with chain D, 1 interactions with chain A Metal complexes: B:T.96, B:I.97, C:I.97, D:T.96, A:I.97 K.4: 7 residues within 4Å: Chain A: T.96 Chain B: T.96 Chain C: T.96 Chain D: T.96 Ligands: K.3, K.12, K.13 5 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B, 1 interactions with chain D, 1 interactions with chain C Metal complexes: A:T.96, B:T.96, B:T.96, D:T.96, C:T.96 K.11: 9 residues within 4Å: Chain A: G.98, Y.99 Chain B: G.98, Y.99 Chain C: G.98, Y.99 Chain D: G.98, Y.99 Ligands: K.2 5 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A, 2 interactions with chain C Metal complexes: B:Y.99, A:G.98, A:Y.99, C:G.98, C:Y.99 K.12: 11 residues within 4Å: Chain A: T.96, I.97 Chain B: T.96, I.97 Chain C: T.96, I.97 Chain D: T.96, I.97 Ligands: K.3, K.4, K.13 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C, 1 interactions with chain D, 1 interactions with chain A Metal complexes: B:T.96, B:I.97, C:I.97, D:T.96, A:I.97 K.13: 7 residues within 4Å: Chain A: T.96 Chain B: T.96 Chain C: T.96 Chain D: T.96 Ligands: K.3, K.4, K.12 5 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B, 1 interactions with chain D, 1 interactions with chain C Metal complexes: A:T.96, B:T.96, B:T.96, D:T.96, C:T.96

4 x DDQ: DECYLAMINE-N,N-DIMETHYL-N-OXIDE(Non-covalent)

DDQ.5: 10 residues within 4Å: Chain A: R.202, S.205, I.207, F.208, S.209, L.210, S.211, W.212 Chain D: S.21, F.195 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain D Hydrophobic interactions: A:W.212, D:F.195 Hydrogen bonds: A:S.209, A:S.209, A:L.210, D:S.21 DDQ.9: 9 residues within 4Å: Chain A: F.195 Chain B: R.202, S.205, I.207, F.208, S.209, L.210, S.211, W.212 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:W.212, A:F.195, A:F.195 Hydrogen bonds: B:S.209, B:L.210, B:S.211 DDQ.14: 10 residues within 4Å: Chain B: S.21, F.195 Chain C: R.202, S.205, I.207, F.208, S.209, L.210, S.211, W.212 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:W.212, B:F.195 Hydrogen bonds: C:S.209, C:S.209, C:L.210, B:S.21 DDQ.18: 9 residues within 4Å: Chain C: F.195 Chain D: R.202, S.205, I.207, F.208, S.209, L.210, S.211, W.212 6 PLIP interactions: 4 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:W.212, C:F.195, C:F.195 Hydrogen bonds: D:S.209, D:L.210, D:S.211

4 x M1M: 1,1-Methanediyl Bismethanethiosulfonate(Non-covalent)

M1M.6: 5 residues within 4Å: Chain A: V.126, C.129, L.130 Chain B: I.131, C.135 No protein-ligand interaction detected (PLIP) M1M.7: 4 residues within 4Å: Chain B: Y.38, C.129, L.130 Chain C: C.135 No protein-ligand interaction detected (PLIP) M1M.15: 5 residues within 4Å: Chain C: V.126, C.129, L.130 Chain D: I.131, C.135 No protein-ligand interaction detected (PLIP) M1M.16: 4 residues within 4Å: Chain A: C.135 Chain D: Y.38, C.129, L.130 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Black, K.A. et al., A constricted opening in Kir channels does not impede potassium conduction. Nat Commun (2020)

Release Date

2020-05-27

Peptides

Inward rectifier potassium channel Kirbac3.1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Membrane

We predict this structure to be a membrane protein.
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Inward rectifier potassium channel Kirbac3.1