SMTL ID : 2hvj.1

Crystal structure of KcsA-Fab-TBA complex in low K+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.75 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 Chain C: L.49, A.50, W.87, V.91 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:A.50, C:W.87, C:V.91 F09.6: 5 residues within 4Å: Chain D: Y.55 Chain F: L.49, A.50, W.87, V.91 3 PLIP interactions: 3 interactions with chain F Hydrophobic interactions: F:A.50, F:W.87, F:V.91 F09.11: 5 residues within 4Å: Chain G: Y.55 Chain I: L.49, A.50, W.87, V.91 3 PLIP interactions: 3 interactions with chain I Hydrophobic interactions: I:A.50, I:W.87, I:V.91 F09.16: 5 residues within 4Å: Chain J: Y.55 Chain L: L.49, A.50, W.87, V.91 3 PLIP interactions: 3 interactions with chain L Hydrophobic interactions: L:A.50, L:W.87, L:V.91

8 x K: POTASSIUM ION(Non-covalent)

K.2: 7 residues within 4Å: Chain C: G.77 Chain F: G.77 Chain I: G.77 Chain L: G.77 Ligands: K.7, K.12, K.17 No protein-ligand interaction detected (PLIP) K.3: 7 residues within 4Å: Chain C: T.75 Chain F: T.75 Chain I: T.75 Chain L: T.75 Ligands: K.8, K.13, K.18 No protein-ligand interaction detected (PLIP) K.7: 7 residues within 4Å: Chain C: G.77 Chain F: G.77 Chain I: G.77 Chain L: G.77 Ligands: K.2, K.12, K.17 No protein-ligand interaction detected (PLIP) K.8: 7 residues within 4Å: Chain C: T.75 Chain F: T.75 Chain I: T.75 Chain L: T.75 Ligands: K.3, K.13, K.18 No protein-ligand interaction detected (PLIP) K.12: 7 residues within 4Å: Chain C: G.77 Chain F: G.77 Chain I: G.77 Chain L: G.77 Ligands: K.2, K.7, K.17 No protein-ligand interaction detected (PLIP) K.13: 7 residues within 4Å: Chain C: T.75 Chain F: T.75 Chain I: T.75 Chain L: T.75 Ligands: K.3, K.8, K.18 No protein-ligand interaction detected (PLIP) K.17: 7 residues within 4Å: Chain C: G.77 Chain F: G.77 Chain I: G.77 Chain L: G.77 Ligands: K.2, K.7, K.12 No protein-ligand interaction detected (PLIP) K.18: 7 residues within 4Å: Chain C: T.75 Chain F: T.75 Chain I: T.75 Chain L: T.75 Ligands: K.3, K.8, K.13 No protein-ligand interaction detected (PLIP)

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

L2C.4: 13 residues within 4Å: Chain C: T.85, L.86, R.89, V.93 Chain H: Y.50, E.53 Chain I: L.41, S.44, Y.62, P.63, L.66, W.67, V.70 8 PLIP interactions: 4 interactions with chain I, 3 interactions with chain C, 1 interactions with chain H Hydrophobic interactions: I:Y.62, I:L.66, I:W.67, I:V.70, C:V.93 Water bridges: C:L.86 Salt bridges: C:R.89 Hydrogen bonds: H:E.53 L2C.9: 13 residues within 4Å: Chain F: T.85, L.86, R.89, V.93 Chain K: Y.50, E.53 Chain L: L.41, S.44, Y.62, P.63, L.66, W.67, V.70 8 PLIP interactions: 3 interactions with chain F, 4 interactions with chain L, 1 interactions with chain K Hydrophobic interactions: F:V.93, L:Y.62, L:L.66, L:W.67, L:V.70 Water bridges: F:L.86 Salt bridges: F:R.89 Hydrogen bonds: K:E.53 L2C.14: 13 residues within 4Å: Chain E: Y.50, E.53 Chain F: L.41, S.44, Y.62, P.63, L.66, W.67, V.70 Chain I: T.85, L.86, R.89, V.93 8 PLIP interactions: 4 interactions with chain F, 1 interactions with chain E, 3 interactions with chain I Hydrophobic interactions: F:Y.62, F:L.66, F:W.67, F:V.70, I:V.93 Hydrogen bonds: E:E.53 Water bridges: I:L.86 Salt bridges: I:R.89 L2C.19: 13 residues within 4Å: Chain B: Y.50, E.53 Chain C: L.41, S.44, Y.62, P.63, L.66, W.67, V.70 Chain L: T.85, L.86, R.89, V.93 8 PLIP interactions: 4 interactions with chain C, 3 interactions with chain L, 1 interactions with chain B Hydrophobic interactions: C:Y.62, C:L.66, C:W.67, C:V.70, L:V.93 Water bridges: L:L.86 Salt bridges: L:R.89 Hydrogen bonds: B:E.53

4 x TBA: TETRABUTYLAMMONIUM ION(Non-covalent)

TBA.5: 20 residues within 4Å: Chain C: A.73, T.74, T.75, I.100, F.103 Chain F: A.73, T.74, T.75, F.103 Chain I: A.73, T.74, T.75, I.100 Chain L: A.73, T.74, T.75, I.100 Ligands: TBA.10, TBA.15, TBA.20 9 PLIP interactions: 3 interactions with chain L, 2 interactions with chain F, 3 interactions with chain C, 1 interactions with chain I Hydrophobic interactions: L:T.75, L:I.100, L:I.100, F:T.75, F:F.103, C:T.75, C:I.100, C:F.103, I:I.100 TBA.10: 20 residues within 4Å: Chain C: A.73, T.74, T.75, F.103 Chain F: A.73, T.74, T.75, I.100, F.103 Chain I: A.73, T.74, T.75, I.100 Chain L: A.73, T.74, T.75, I.100 Ligands: TBA.5, TBA.15, TBA.20 9 PLIP interactions: 1 interactions with chain L, 3 interactions with chain I, 3 interactions with chain F, 2 interactions with chain C Hydrophobic interactions: L:I.100, I:T.75, I:I.100, I:I.100, F:T.75, F:I.100, F:F.103, C:T.75, C:F.103 TBA.15: 20 residues within 4Å: Chain C: A.73, T.74, T.75, I.100 Chain F: A.73, T.74, T.75, I.100 Chain I: A.73, T.74, T.75, I.100, F.103 Chain L: A.73, T.74, T.75, F.103 Ligands: TBA.5, TBA.10, TBA.20 9 PLIP interactions: 3 interactions with chain I, 2 interactions with chain L, 3 interactions with chain C, 1 interactions with chain F Hydrophobic interactions: I:T.75, I:I.100, I:F.103, L:T.75, L:F.103, C:T.75, C:I.100, C:I.100, F:I.100 TBA.20: 20 residues within 4Å: Chain C: A.73, T.74, T.75, I.100 Chain F: A.73, T.74, T.75, I.100 Chain I: A.73, T.74, T.75, F.103 Chain L: A.73, T.74, T.75, I.100, F.103 Ligands: TBA.5, TBA.10, TBA.15 9 PLIP interactions: 1 interactions with chain C, 3 interactions with chain L, 3 interactions with chain F, 2 interactions with chain I Hydrophobic interactions: C:I.100, L:T.75, L:I.100, L:F.103, F:T.75, F:I.100, F:I.100, I:T.75, I:F.103

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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