SMTL ID : 6o7c.1

Crystal structure of the LjCASTOR gating ring in the Ca2+ and K+ state

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-tetramer

Ligands

12 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: D.131, D.133, D.280 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.131, A:D.133, A:D.280, A:D.280, H2O.10 CA.2: 5 residues within 4Å: Chain A: F.178, E.179, N.180, E.182, E.241 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:F.178, A:N.180, A:E.241, H2O.10, H2O.10 CA.3: 4 residues within 4Å: Chain A: A.31, S.34, D.242, D.243 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.34, A:D.242, A:D.243, H2O.5, H2O.7 CA.7: 3 residues within 4Å: Chain B: D.131, D.133, D.280 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.131, B:D.133, B:D.280, B:D.280, H2O.21 CA.8: 5 residues within 4Å: Chain B: F.178, E.179, N.180, E.182, E.241 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:F.178, B:N.180, B:E.241, H2O.21, H2O.21 CA.9: 4 residues within 4Å: Chain B: A.31, S.34, D.242, D.243 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.34, B:D.242, B:D.243, H2O.17, H2O.18 CA.13: 3 residues within 4Å: Chain C: D.131, D.133, D.280 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.131, C:D.133, C:D.280, C:D.280, H2O.33 CA.14: 5 residues within 4Å: Chain C: F.178, E.179, N.180, E.182, E.241 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:F.178, C:N.180, C:E.241, H2O.32, H2O.33 CA.15: 4 residues within 4Å: Chain C: A.31, S.34, D.242, D.243 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:S.34, C:D.242, C:D.243, H2O.28, H2O.29 CA.19: 3 residues within 4Å: Chain D: D.131, D.133, D.280 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.131, D:D.133, D:D.280, D:D.280, H2O.44 CA.20: 5 residues within 4Å: Chain D: F.178, E.179, N.180, E.182, E.241 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:F.178, D:N.180, D:E.241, H2O.43, H2O.44 CA.21: 4 residues within 4Å: Chain D: A.31, S.34, D.242, D.243 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:S.34, D:D.242, D:D.243, H2O.39, H2O.40

4 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 2 residues within 4Å: Chain A: D.133, G.316 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.133, H2O.1, H2O.5, H2O.6, H2O.8 MG.10: 2 residues within 4Å: Chain B: D.133, G.316 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.133, H2O.12, H2O.17, H2O.18, H2O.20 MG.16: 2 residues within 4Å: Chain C: D.133, G.316 5 PLIP interactions: 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:D.133, H2O.23, H2O.28, H2O.29, H2O.31 MG.22: 2 residues within 4Å: Chain D: D.133, G.316 5 PLIP interactions: 1 interactions with chain D, 4 Ligand-Water interactions Metal complexes: D:D.133, H2O.35, H2O.39, H2O.40, H2O.42

4 x K: POTASSIUM ION(Non-covalent)

K.5: 7 residues within 4Å: Chain A: D.174, I.175, L.176, G.177, E.179, C.181, E.182 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.174, A:I.175, A:G.177, A:E.179, A:C.181 K.11: 7 residues within 4Å: Chain B: D.174, I.175, L.176, G.177, E.179, C.181, E.182 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.174, B:I.175, B:G.177, B:E.179, B:C.181 K.17: 7 residues within 4Å: Chain C: D.174, I.175, L.176, G.177, E.179, C.181, E.182 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.174, C:I.175, C:G.177, C:E.179, C:C.181 K.23: 7 residues within 4Å: Chain D: D.174, I.175, L.176, G.177, E.179, C.181, E.182 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:D.174, D:I.175, D:G.177, D:E.179, D:C.181

4 x NA: SODIUM ION(Non-functional Binders)

NA.6: 6 residues within 4Å: Chain A: E.465, A.468, E.470, G.471, N.472, E.473 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.468, A:E.470 NA.12: 6 residues within 4Å: Chain B: E.465, A.468, E.470, G.471, N.472, E.473 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.468, B:G.471 NA.18: 6 residues within 4Å: Chain C: E.465, A.468, E.470, G.471, N.472, E.473 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:L.466, C:A.468 NA.24: 6 residues within 4Å: Chain D: E.465, A.468, E.470, G.471, N.472, E.473 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:E.465, D:A.468

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, S. et al., Ca2+-regulated Ca2+channels with an RCK gating ring control plant symbiotic associations. Nat Commun (2019)

Release Date

2019-09-11

Peptides

Ion channel CASTOR: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Ion channel CASTOR