SMTL ID : 4gvl.2 (1 other biounit)

Crystal Structure of the GsuK RCK domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-octamer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.253, C.258, C.282, H.285 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.253, A:C.258, A:C.282, A:H.285 ZN.5: 4 residues within 4Å: Chain B: H.253, C.258, C.282, H.285 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.253, B:C.258, B:C.282, B:H.285 ZN.8: 4 residues within 4Å: Chain C: H.253, C.258, C.282, H.285 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.253, C:C.258, C:C.282, C:H.285 ZN.11: 4 residues within 4Å: Chain D: H.253, C.258, C.282, H.285 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:H.253, D:C.258, D:C.282, D:H.285 ZN.13: 4 residues within 4Å: Chain E: H.253, C.258, C.282, H.285 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:H.253, E:C.258, E:C.282, E:H.285 ZN.17: 4 residues within 4Å: Chain F: H.253, C.258, C.282, H.285 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:H.253, F:C.258, F:C.282, F:H.285 ZN.20: 4 residues within 4Å: Chain G: H.253, C.258, C.282, H.285 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:H.253, G:C.258, G:C.282, G:H.285 ZN.23: 4 residues within 4Å: Chain H: H.253, C.258, C.282, H.285 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:H.253, H:C.258, H:C.282, H:H.285

8 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.2: 15 residues within 4Å: Chain A: G.252, G.254, R.255, I.256, D.275, R.276, Q.277, G.290, D.291, A.292, T.293, T.312, T.313, N.314, R.338 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:G.254, A:R.255, A:I.256, A:R.276, A:R.276, A:Q.277, A:D.291, A:A.292, A:T.293, A:N.314, A:N.314 Salt bridges: A:R.338 AMP.6: 15 residues within 4Å: Chain B: H.253, G.254, R.255, I.256, D.275, R.276, Q.277, S.279, G.290, D.291, A.292, T.293, T.313, N.314, R.338 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:R.255, B:I.256, B:R.276, B:Q.277, B:S.279, B:D.291, B:A.292, B:T.293, B:T.293, B:N.314 Salt bridges: B:R.338 AMP.9: 13 residues within 4Å: Chain C: G.252, G.254, R.255, I.256, G.257, D.275, R.276, D.291, A.292, T.312, T.313, N.314, R.338 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:G.254, C:R.255, C:I.256, C:G.257, C:R.276, C:Q.277, C:D.291, C:A.292 Salt bridges: C:R.338 AMP.12: 15 residues within 4Å: Chain D: G.252, G.254, R.255, I.256, G.257, D.275, R.276, G.290, D.291, A.292, T.293, T.312, T.313, N.314, R.338 11 PLIP interactions: 11 interactions with chain D Hydrogen bonds: D:G.254, D:R.255, D:I.256, D:G.257, D:R.276, D:D.291, D:D.291, D:A.292, D:T.293, D:N.314 Salt bridges: D:R.338 AMP.14: 15 residues within 4Å: Chain E: G.252, G.254, R.255, I.256, D.275, R.276, Q.277, G.290, D.291, A.292, T.293, T.312, T.313, N.314, R.338 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:G.254, E:R.255, E:I.256, E:R.276, E:R.276, E:Q.277, E:D.291, E:A.292, E:T.293, E:N.314, E:N.314 Salt bridges: E:R.338 AMP.18: 15 residues within 4Å: Chain F: H.253, G.254, R.255, I.256, D.275, R.276, Q.277, S.279, G.290, D.291, A.292, T.293, T.313, N.314, R.338 11 PLIP interactions: 11 interactions with chain F Hydrogen bonds: F:R.255, F:I.256, F:R.276, F:Q.277, F:S.279, F:D.291, F:A.292, F:T.293, F:T.293, F:N.314 Salt bridges: F:R.338 AMP.21: 13 residues within 4Å: Chain G: G.252, G.254, R.255, I.256, G.257, D.275, R.276, D.291, A.292, T.312, T.313, N.314, R.338 9 PLIP interactions: 9 interactions with chain G Hydrogen bonds: G:G.254, G:R.255, G:I.256, G:G.257, G:R.276, G:Q.277, G:D.291, G:A.292 Salt bridges: G:R.338 AMP.24: 15 residues within 4Å: Chain H: G.252, G.254, R.255, I.256, G.257, D.275, R.276, G.290, D.291, A.292, T.293, T.312, T.313, N.314, R.338 11 PLIP interactions: 11 interactions with chain H Hydrogen bonds: H:G.254, H:R.255, H:I.256, H:G.257, H:R.276, H:D.291, H:D.291, H:A.292, H:T.293, H:N.314 Salt bridges: H:R.338

8 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: E.343, N.344, Q.347 Chain B: T.77, N.104, T.108 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Metal complexes: B:T.77, B:T.108, A:E.343 CA.4: 6 residues within 4Å: Chain A: T.77, N.104, T.108 Chain D: E.343, N.344, Q.347 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain D Metal complexes: A:T.77, A:T.108, D:E.343 CA.7: 6 residues within 4Å: Chain B: E.343, N.344, Q.347 Chain C: T.77, N.104, T.108 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B Metal complexes: C:T.77, C:T.108, B:E.343 CA.10: 6 residues within 4Å: Chain C: E.343, N.344, Q.347 Chain D: T.77, N.104, T.108 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain D Metal complexes: C:E.343, D:T.77, D:T.108 CA.15: 6 residues within 4Å: Chain E: E.343, N.344, Q.347 Chain F: T.77, N.104, T.108 3 PLIP interactions: 2 interactions with chain F, 1 interactions with chain E Metal complexes: F:T.77, F:T.108, E:E.343 CA.16: 6 residues within 4Å: Chain E: T.77, N.104, T.108 Chain H: E.343, N.344, Q.347 3 PLIP interactions: 1 interactions with chain H, 2 interactions with chain E Metal complexes: H:E.343, E:T.77, E:T.108 CA.19: 6 residues within 4Å: Chain F: E.343, N.344, Q.347 Chain G: T.77, N.104, T.108 3 PLIP interactions: 2 interactions with chain G, 1 interactions with chain F Metal complexes: G:T.77, G:T.108, F:E.343 CA.22: 6 residues within 4Å: Chain G: E.343, N.344, Q.347 Chain H: T.77, N.104, T.108 3 PLIP interactions: 2 interactions with chain H, 1 interactions with chain G Metal complexes: H:T.77, H:T.108, G:E.343

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kong, C. et al., Distinct gating mechanisms revealed by the structures of a multi-ligand gated K(+) channel. elife (2012)

Release Date

2012-12-26

Peptides

TrkA domain protein: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
A

F
B

G
C

H
D

TrkA domain protein

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