SMTL ID : 2dwd.1

crystal structure of KcsA-FAB-TBA complex in Tl+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-4-4-4-mer

Ligands

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

F09.1: 5 residues within 4Å: Chain A: Y.55, R.57 Chain C: L.28, W.66, V.70 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain C Hydrogen bonds: A:R.57 Hydrophobic interactions: C:L.28, C:W.66, C:V.70 F09.8: 5 residues within 4Å: Chain D: Y.55, R.57 Chain F: L.28, W.66, V.70 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain D Hydrophobic interactions: F:L.28, F:W.66, F:V.70 Hydrogen bonds: D:R.57 F09.15: 5 residues within 4Å: Chain G: Y.55, R.57 Chain I: L.28, W.66, V.70 4 PLIP interactions: 3 interactions with chain I, 1 interactions with chain G Hydrophobic interactions: I:L.28, I:W.66, I:V.70 Hydrogen bonds: G:R.57 F09.22: 5 residues within 4Å: Chain J: Y.55, R.57 Chain L: L.28, W.66, V.70 4 PLIP interactions: 3 interactions with chain L, 1 interactions with chain J Hydrophobic interactions: L:L.28, L:W.66, L:V.70 Hydrogen bonds: J:R.57

16 x TL: THALLIUM (I) ION(Non-covalent)

TL.2: 15 residues within 4Å: Chain C: G.56, Y.57 Chain F: G.56, Y.57 Chain I: G.56, Y.57 Chain L: G.56, Y.57 Ligands: TL.3, TL.9, TL.10, TL.16, TL.17, TL.23, TL.24 Ligand excluded by PLIP TL.3: 19 residues within 4Å: Chain C: V.55, G.56 Chain F: V.55, G.56 Chain I: V.55, G.56 Chain L: V.55, G.56 Ligands: TL.2, TL.4, TL.9, TL.10, TL.11, TL.16, TL.17, TL.18, TL.23, TL.24, TL.25 Ligand excluded by PLIP TL.4: 19 residues within 4Å: Chain C: T.54, V.55 Chain F: T.54, V.55 Chain I: T.54, V.55 Chain L: T.54, V.55 Ligands: TL.3, TL.5, TL.10, TL.11, TL.12, TL.17, TL.18, TL.19, TL.24, TL.25, TL.26 Ligand excluded by PLIP TL.5: 15 residues within 4Å: Chain C: T.54 Chain F: T.54 Chain I: T.54 Chain L: T.54 Ligands: TL.4, TBA.7, TL.11, TL.12, TBA.14, TL.18, TL.19, TBA.21, TL.25, TL.26, TBA.28 Ligand excluded by PLIP TL.9: 15 residues within 4Å: Chain C: G.56, Y.57 Chain F: G.56, Y.57 Chain I: G.56, Y.57 Chain L: G.56, Y.57 Ligands: TL.2, TL.3, TL.10, TL.16, TL.17, TL.23, TL.24 Ligand excluded by PLIP TL.10: 19 residues within 4Å: Chain C: V.55, G.56 Chain F: V.55, G.56 Chain I: V.55, G.56 Chain L: V.55, G.56 Ligands: TL.2, TL.3, TL.4, TL.9, TL.11, TL.16, TL.17, TL.18, TL.23, TL.24, TL.25 Ligand excluded by PLIP TL.11: 19 residues within 4Å: Chain C: T.54, V.55 Chain F: T.54, V.55 Chain I: T.54, V.55 Chain L: T.54, V.55 Ligands: TL.3, TL.4, TL.5, TL.10, TL.12, TL.17, TL.18, TL.19, TL.24, TL.25, TL.26 Ligand excluded by PLIP TL.12: 15 residues within 4Å: Chain C: T.54 Chain F: T.54 Chain I: T.54 Chain L: T.54 Ligands: TL.4, TL.5, TBA.7, TL.11, TBA.14, TL.18, TL.19, TBA.21, TL.25, TL.26, TBA.28 Ligand excluded by PLIP TL.16: 15 residues within 4Å: Chain C: G.56, Y.57 Chain F: G.56, Y.57 Chain I: G.56, Y.57 Chain L: G.56, Y.57 Ligands: TL.2, TL.3, TL.9, TL.10, TL.17, TL.23, TL.24 Ligand excluded by PLIP TL.17: 19 residues within 4Å: Chain C: V.55, G.56 Chain F: V.55, G.56 Chain I: V.55, G.56 Chain L: V.55, G.56 Ligands: TL.2, TL.3, TL.4, TL.9, TL.10, TL.11, TL.16, TL.18, TL.23, TL.24, TL.25 Ligand excluded by PLIP TL.18: 19 residues within 4Å: Chain C: T.54, V.55 Chain F: T.54, V.55 Chain I: T.54, V.55 Chain L: T.54, V.55 Ligands: TL.3, TL.4, TL.5, TL.10, TL.11, TL.12, TL.17, TL.19, TL.24, TL.25, TL.26 Ligand excluded by PLIP TL.19: 15 residues within 4Å: Chain C: T.54 Chain F: T.54 Chain I: T.54 Chain L: T.54 Ligands: TL.4, TL.5, TBA.7, TL.11, TL.12, TBA.14, TL.18, TBA.21, TL.25, TL.26, TBA.28 Ligand excluded by PLIP TL.23: 15 residues within 4Å: Chain C: G.56, Y.57 Chain F: G.56, Y.57 Chain I: G.56, Y.57 Chain L: G.56, Y.57 Ligands: TL.2, TL.3, TL.9, TL.10, TL.16, TL.17, TL.24 Ligand excluded by PLIP TL.24: 19 residues within 4Å: Chain C: V.55, G.56 Chain F: V.55, G.56 Chain I: V.55, G.56 Chain L: V.55, G.56 Ligands: TL.2, TL.3, TL.4, TL.9, TL.10, TL.11, TL.16, TL.17, TL.18, TL.23, TL.25 Ligand excluded by PLIP TL.25: 19 residues within 4Å: Chain C: T.54, V.55 Chain F: T.54, V.55 Chain I: T.54, V.55 Chain L: T.54, V.55 Ligands: TL.3, TL.4, TL.5, TL.10, TL.11, TL.12, TL.17, TL.18, TL.19, TL.24, TL.26 Ligand excluded by PLIP TL.26: 15 residues within 4Å: Chain C: T.54 Chain F: T.54 Chain I: T.54 Chain L: T.54 Ligands: TL.4, TL.5, TBA.7, TL.11, TL.12, TBA.14, TL.18, TL.19, TBA.21, TL.25, TBA.28 Ligand excluded by PLIP

4 x L2C: (2S)-3-HYDROXY-2-(NONANOYLOXY)PROPYL LAURATE(Non-covalent)

L2C.6: 9 residues within 4Å: Chain C: L.65, R.68 Chain H: Y.50, E.53 Chain I: Y.41, P.42, R.43, L.45, W.46 6 PLIP interactions: 2 interactions with chain C, 4 interactions with chain I Hydrophobic interactions: C:L.65, I:P.42, I:P.42, I:L.45 Hydrogen bonds: C:R.68 Salt bridges: I:R.43 L2C.13: 9 residues within 4Å: Chain F: L.65, R.68 Chain K: Y.50, E.53 Chain L: Y.41, P.42, R.43, L.45, W.46 6 PLIP interactions: 2 interactions with chain F, 4 interactions with chain L Hydrophobic interactions: F:L.65, L:P.42, L:P.42, L:L.45 Hydrogen bonds: F:R.68 Salt bridges: L:R.43 L2C.20: 9 residues within 4Å: Chain E: Y.50, E.53 Chain F: Y.41, P.42, R.43, L.45, W.46 Chain I: L.65, R.68 6 PLIP interactions: 4 interactions with chain F, 2 interactions with chain I Hydrophobic interactions: F:P.42, F:P.42, F:L.45, I:L.65 Salt bridges: F:R.43 Hydrogen bonds: I:R.68 L2C.27: 9 residues within 4Å: Chain B: Y.50, E.53 Chain C: Y.41, P.42, R.43, L.45, W.46 Chain L: L.65, R.68 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain L Hydrophobic interactions: C:P.42, C:P.42, C:L.45, L:L.65 Salt bridges: C:R.43 Hydrogen bonds: L:R.68

4 x TBA: TETRABUTYLAMMONIUM ION(Non-covalent)

TBA.7: 24 residues within 4Å: Chain C: A.52, T.53, T.54, I.79, F.82 Chain F: A.52, T.53, T.54, F.82 Chain I: A.52, T.53, T.54, I.79 Chain L: A.52, T.53, T.54, I.79 Ligands: TL.5, TL.12, TBA.14, TL.19, TBA.21, TL.26, TBA.28 11 PLIP interactions: 4 interactions with chain C, 2 interactions with chain F, 2 interactions with chain I, 3 interactions with chain L Hydrophobic interactions: C:T.54, C:I.79, C:I.79, C:F.82, F:T.54, F:F.82, I:T.54, I:I.79, L:T.54, L:I.79, L:I.79 TBA.14: 24 residues within 4Å: Chain C: A.52, T.53, T.54, F.82 Chain F: A.52, T.53, T.54, I.79, F.82 Chain I: A.52, T.53, T.54, I.79 Chain L: A.52, T.53, T.54, I.79 Ligands: TL.5, TBA.7, TL.12, TL.19, TBA.21, TL.26, TBA.28 11 PLIP interactions: 2 interactions with chain C, 4 interactions with chain F, 3 interactions with chain I, 2 interactions with chain L Hydrophobic interactions: C:T.54, C:F.82, F:T.54, F:I.79, F:I.79, F:F.82, I:T.54, I:I.79, I:I.79, L:T.54, L:I.79 TBA.21: 24 residues within 4Å: Chain C: A.52, T.53, T.54, I.79 Chain F: A.52, T.53, T.54, I.79 Chain I: A.52, T.53, T.54, I.79, F.82 Chain L: A.52, T.53, T.54, F.82 Ligands: TL.5, TBA.7, TL.12, TBA.14, TL.19, TL.26, TBA.28 11 PLIP interactions: 2 interactions with chain L, 3 interactions with chain C, 2 interactions with chain F, 4 interactions with chain I Hydrophobic interactions: L:T.54, L:F.82, C:T.54, C:I.79, C:I.79, F:T.54, F:I.79, I:T.54, I:I.79, I:I.79, I:F.82 TBA.28: 24 residues within 4Å: Chain C: A.52, T.53, T.54, I.79 Chain F: A.52, T.53, T.54, I.79 Chain I: A.52, T.53, T.54, F.82 Chain L: A.52, T.53, T.54, I.79, F.82 Ligands: TL.5, TBA.7, TL.12, TBA.14, TL.19, TBA.21, TL.26 11 PLIP interactions: 4 interactions with chain L, 2 interactions with chain C, 3 interactions with chain F, 2 interactions with chain I Hydrophobic interactions: L:T.54, L:I.79, L:I.79, L:F.82, C:T.54, C:I.79, F:T.54, F:I.79, F:I.79, I:T.54, I:F.82

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yohannan, S. et al., Crystallographic Study of the Tetrabutylammonium Block to the KcsA K(+) Channel. J.Mol.Biol. (2007)

Release Date

2007-02-20

Peptides

ANTIBODY FAB HEAVY CHAIN: ADGJ
ANTIBODY FAB LIGHT CHAIN: BEHK
Voltage-gated potassium channel: CFIL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
A

G
A

J
A

B
B

E
B

H
B

K
B

C
C

F
C

I
C

L
C

Membrane

We predict this structure to be a membrane protein.
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ANTIBODY FAB HEAVY CHAIN

ANTIBODY FAB LIGHT CHAIN

Voltage-gated potassium channel

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