SMTL ID : 6s5n.2 (1 other biounit)

Non-square conformations of KtrA E125Q mutant rings with bound ATP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 4.09 Å

Oligo State

homo-octamer

Ligands

8 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 18 residues within 4Å: Chain A: G.13, L.14, G.15, R.16, F.17, D.36, I.37, N.38, K.41, A.55, A.57, T.58, A.77, I.78, A.80, A.84 Chain B: R.16, Q.125 13 PLIP interactions: 11 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:L.14, A:L.14, A:R.16, A:F.17, A:I.37, A:N.38, A:K.41, A:N.56, A:A.57, B:R.16, B:Q.125 Salt bridges: A:R.16, A:K.41 ATP.2: 19 residues within 4Å: Chain A: Q.125 Chain B: G.13, L.14, G.15, R.16, F.17, D.36, I.37, N.38, K.41, A.55, N.56, A.57, T.58, A.77, I.78, A.80, A.84, K.103 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:L.14, B:R.16, B:F.17, B:I.37, B:N.38, B:K.41, B:A.57, B:T.58, B:G.79, B:A.80, A:Q.125, A:Q.125 Salt bridges: B:R.16 ATP.3: 20 residues within 4Å: Chain C: G.13, L.14, G.15, R.16, F.17, D.36, I.37, N.38, K.41, A.55, N.56, A.57, T.58, A.77, I.78, G.79, A.80, A.84, K.103 Chain D: Q.125 14 PLIP interactions: 13 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:L.14, C:R.16, C:F.17, C:G.18, C:I.37, C:K.41, C:A.57, C:G.79, C:A.80, D:Q.125 Salt bridges: C:R.16, C:R.16, C:K.103, C:K.103 ATP.4: 20 residues within 4Å: Chain C: Q.125 Chain D: G.13, L.14, G.15, R.16, F.17, D.36, I.37, N.38, K.41, A.55, N.56, A.57, T.58, A.77, I.78, G.79, A.80, A.84, K.103 14 PLIP interactions: 13 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:R.16, D:F.17, D:I.37, D:K.41, D:A.57, D:T.58, D:G.79, D:A.80, D:N.81, C:Q.125 Salt bridges: D:R.16, D:R.16, D:K.103, D:K.103 ATP.5: 18 residues within 4Å: Chain E: G.13, L.14, G.15, R.16, F.17, D.36, I.37, N.38, K.41, A.55, A.57, T.58, A.77, I.78, A.80, A.84 Chain F: R.16, Q.125 13 PLIP interactions: 11 interactions with chain E, 2 interactions with chain F Hydrogen bonds: E:L.14, E:L.14, E:R.16, E:F.17, E:I.37, E:N.38, E:K.41, E:N.56, E:A.57, F:R.16, F:Q.125 Salt bridges: E:R.16, E:K.41 ATP.6: 19 residues within 4Å: Chain E: Q.125 Chain F: G.13, L.14, G.15, R.16, F.17, D.36, I.37, N.38, K.41, A.55, N.56, A.57, T.58, A.77, I.78, A.80, A.84, K.103 13 PLIP interactions: 11 interactions with chain F, 2 interactions with chain E Hydrogen bonds: F:L.14, F:R.16, F:F.17, F:I.37, F:N.38, F:K.41, F:A.57, F:T.58, F:G.79, F:A.80, E:Q.125, E:Q.125 Salt bridges: F:R.16 ATP.7: 20 residues within 4Å: Chain G: G.13, L.14, G.15, R.16, F.17, D.36, I.37, N.38, K.41, A.55, N.56, A.57, T.58, A.77, I.78, G.79, A.80, A.84, K.103 Chain H: Q.125 14 PLIP interactions: 13 interactions with chain G, 1 interactions with chain H Hydrogen bonds: G:L.14, G:R.16, G:F.17, G:G.18, G:I.37, G:K.41, G:A.57, G:G.79, G:A.80, H:Q.125 Salt bridges: G:R.16, G:R.16, G:K.103, G:K.103 ATP.8: 20 residues within 4Å: Chain G: Q.125 Chain H: G.13, L.14, G.15, R.16, F.17, D.36, I.37, N.38, K.41, A.55, N.56, A.57, T.58, A.77, I.78, G.79, A.80, A.84, K.103 14 PLIP interactions: 13 interactions with chain H, 1 interactions with chain G Hydrogen bonds: H:R.16, H:F.17, H:I.37, H:K.41, H:A.57, H:T.58, H:G.79, H:A.80, H:N.81, G:Q.125 Salt bridges: H:R.16, H:R.16, H:K.103, H:K.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Teixeira-Duarte, C.M. et al., Activation of a nucleotide-dependent RCK domain requires binding of a cation cofactor to a conserved site. Elife (2019)

Release Date

2020-01-08

Peptides

Ktr system potassium uptake protein A: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
E

D
F

E
C

F
D

G
E

H
F

Ktr system potassium uptake protein A

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