SMTL ID : 1r3i.1

potassium channel KcsA-Fab complex in Rb+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-oligomer

Ligands

16 x RB: RUBIDIUM ION(Non-covalent)(Non-functional Binders)

RB.1: 11 residues within 4Å: Chain C: G.77, Y.78 Chain F: G.77, Y.78 Chain I: G.77, Y.78 Chain L: G.77, Y.78 Ligands: RB.7, RB.13, RB.19 Ligand excluded by PLIP RB.2: 15 residues within 4Å: Chain C: T.75, V.76 Chain F: T.75, V.76 Chain I: T.75, V.76 Chain L: T.75, V.76 Ligands: RB.3, RB.8, RB.9, RB.14, RB.15, RB.20, RB.21 Ligand excluded by PLIP RB.3: 11 residues within 4Å: Chain C: T.75 Chain F: T.75 Chain I: T.75 Chain L: T.75 Ligands: RB.2, RB.8, RB.9, RB.14, RB.15, RB.20, RB.21 Ligand excluded by PLIP RB.4: 3 residues within 4Å: Ligands: RB.10, RB.16, RB.22 Ligand excluded by PLIP RB.7: 11 residues within 4Å: Chain C: G.77, Y.78 Chain F: G.77, Y.78 Chain I: G.77, Y.78 Chain L: G.77, Y.78 Ligands: RB.1, RB.13, RB.19 Ligand excluded by PLIP RB.8: 15 residues within 4Å: Chain C: T.75, V.76 Chain F: T.75, V.76 Chain I: T.75, V.76 Chain L: T.75, V.76 Ligands: RB.2, RB.3, RB.9, RB.14, RB.15, RB.20, RB.21 Ligand excluded by PLIP RB.9: 11 residues within 4Å: Chain C: T.75 Chain F: T.75 Chain I: T.75 Chain L: T.75 Ligands: RB.2, RB.3, RB.8, RB.14, RB.15, RB.20, RB.21 Ligand excluded by PLIP RB.10: 3 residues within 4Å: Ligands: RB.4, RB.16, RB.22 Ligand excluded by PLIP RB.13: 11 residues within 4Å: Chain C: G.77, Y.78 Chain F: G.77, Y.78 Chain I: G.77, Y.78 Chain L: G.77, Y.78 Ligands: RB.1, RB.7, RB.19 Ligand excluded by PLIP RB.14: 15 residues within 4Å: Chain C: T.75, V.76 Chain F: T.75, V.76 Chain I: T.75, V.76 Chain L: T.75, V.76 Ligands: RB.2, RB.3, RB.8, RB.9, RB.15, RB.20, RB.21 Ligand excluded by PLIP RB.15: 11 residues within 4Å: Chain C: T.75 Chain F: T.75 Chain I: T.75 Chain L: T.75 Ligands: RB.2, RB.3, RB.8, RB.9, RB.14, RB.20, RB.21 Ligand excluded by PLIP RB.16: 3 residues within 4Å: Ligands: RB.4, RB.10, RB.22 Ligand excluded by PLIP RB.19: 11 residues within 4Å: Chain C: G.77, Y.78 Chain F: G.77, Y.78 Chain I: G.77, Y.78 Chain L: G.77, Y.78 Ligands: RB.1, RB.7, RB.13 Ligand excluded by PLIP RB.20: 15 residues within 4Å: Chain C: T.75, V.76 Chain F: T.75, V.76 Chain I: T.75, V.76 Chain L: T.75, V.76 Ligands: RB.2, RB.3, RB.8, RB.9, RB.14, RB.15, RB.21 Ligand excluded by PLIP RB.21: 11 residues within 4Å: Chain C: T.75 Chain F: T.75 Chain I: T.75 Chain L: T.75 Ligands: RB.2, RB.3, RB.8, RB.9, RB.14, RB.15, RB.20 Ligand excluded by PLIP RB.22: 3 residues within 4Å: Ligands: RB.4, RB.10, RB.16 Ligand excluded by PLIP

4 x DGA: DIACYL GLYCEROL(Non-covalent)

DGA.5: 11 residues within 4Å: Chain C: L.86, R.89, V.93 Chain G: E.53 Chain H: T.30 Chain I: S.44, Y.45, Y.62, P.63, L.66, W.67 10 PLIP interactions: 4 interactions with chain I, 4 interactions with chain C, 1 interactions with chain H, 1 interactions with chain G Hydrophobic interactions: I:Y.45, I:P.63, I:L.66, I:W.67, C:R.89, C:V.93, H:T.30 Water bridges: C:R.89 Salt bridges: C:R.89 Hydrogen bonds: G:E.53 DGA.11: 11 residues within 4Å: Chain A: E.53 Chain B: T.30 Chain C: S.44, Y.45, Y.62, P.63, L.66, W.67 Chain F: L.86, R.89, V.93 10 PLIP interactions: 4 interactions with chain F, 4 interactions with chain C, 1 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: F:R.89, F:V.93, C:Y.45, C:P.63, C:L.66, C:W.67, B:T.30 Water bridges: F:R.89 Salt bridges: F:R.89 Hydrogen bonds: A:E.53 DGA.17: 11 residues within 4Å: Chain I: L.86, R.89, V.93 Chain J: E.53 Chain K: T.30 Chain L: S.44, Y.45, Y.62, P.63, L.66, W.67 10 PLIP interactions: 4 interactions with chain I, 4 interactions with chain L, 1 interactions with chain J, 1 interactions with chain K Hydrophobic interactions: I:R.89, I:V.93, L:Y.45, L:P.63, L:L.66, L:W.67, K:T.30 Water bridges: I:R.89 Salt bridges: I:R.89 Hydrogen bonds: J:E.53 DGA.23: 11 residues within 4Å: Chain D: E.53 Chain E: T.30 Chain F: S.44, Y.45, Y.62, P.63, L.66, W.67 Chain L: L.86, R.89, V.93 10 PLIP interactions: 4 interactions with chain L, 4 interactions with chain F, 1 interactions with chain E, 1 interactions with chain D Hydrophobic interactions: L:R.89, L:V.93, F:Y.45, F:P.63, F:L.66, F:W.67, E:T.30 Water bridges: L:R.89 Salt bridges: L:R.89 Hydrogen bonds: D:E.53

4 x F09: NONAN-1-OL(Non-covalent)

F09.6: 3 residues within 4Å: Chain B: R.57 Chain C: L.46, W.87 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:L.46, C:W.87 F09.12: 3 residues within 4Å: Chain E: R.57 Chain F: L.46, W.87 2 PLIP interactions: 2 interactions with chain F Hydrophobic interactions: F:L.46, F:W.87 F09.18: 3 residues within 4Å: Chain H: R.57 Chain I: L.46, W.87 2 PLIP interactions: 2 interactions with chain I Hydrophobic interactions: I:L.46, I:W.87 F09.24: 3 residues within 4Å: Chain K: R.57 Chain L: L.46, W.87 2 PLIP interactions: 2 interactions with chain L Hydrophobic interactions: L:L.46, L:W.87

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, Y. et al., The occupancy of ions in the K+ selectivity filter: Charge balance and coupling of ion binding to a protein conformational change underlie high conduction rates. J.Mol.Biol. (2003)

Release Date

2003-11-25

Peptides

Antibody Fab fragment light chain: ADGJ
Antibody Fab fragment heavy chain: BEHK
Voltage-gated potassium channel: CFIL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

D
L

G
L

J
L

B
H

E
H

H
H

K
H

C
C

F
C

I
C

L
C

Membrane

We predict this structure to be a membrane protein.
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Antibody Fab fragment light chain

Antibody Fab fragment heavy chain

Voltage-gated potassium channel

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