SMTL ID : 8k1t.1

Potassium transporter KtrAB from Bacillus subtilis in ATP-bound state with addition of MgCl2

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-8-4-mer

Ligands

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

ATP.1: 22 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, N.56, A.57, A.77, I.78, G.79, A.80, A.84, K.103, E.125 Chain B: R.16, E.125 Ligands: NA.2 18 PLIP interactions: 14 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:L.14, A:L.14, A:R.16, A:R.16, A:F.17, A:G.18, A:I.37, A:N.56, A:A.57, A:G.79, A:A.80, B:R.16, B:E.125, B:E.125 Salt bridges: A:R.16, A:K.103, A:K.103, B:R.16 ATP.3: 22 residues within 4Å: Chain A: R.16, E.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, A.77, I.78, G.79, A.80, A.84, K.103, E.125 Ligands: NA.2 18 PLIP interactions: 15 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:L.14, B:L.14, B:R.16, B:R.16, B:F.17, B:G.18, B:I.37, B:N.56, B:A.57, B:G.79, B:A.80, B:E.125, A:R.16, A:E.125 Salt bridges: B:R.16, B:K.103, B:K.103, A:R.16 ATP.4: 22 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, A.77, I.78, G.79, A.80, A.84, K.103, E.125 Chain D: R.16, E.125 Ligands: NA.5 19 PLIP interactions: 15 interactions with chain C, 4 interactions with chain D Hydrogen bonds: C:L.14, C:L.14, C:R.16, C:R.16, C:F.17, C:G.18, C:I.37, C:K.41, C:N.56, C:A.57, C:G.79, C:A.80, D:E.125, D:E.125 Salt bridges: C:R.16, C:K.103, C:K.103, D:R.16, D:R.16 ATP.6: 22 residues within 4Å: Chain C: R.16, E.125 Chain D: G.13, L.14, G.15, R.16, F.17, D.36, I.37, K.41, A.55, N.56, A.57, T.58, A.77, I.78, G.79, A.80, A.84, K.103, E.125 Ligands: NA.5 17 PLIP interactions: 14 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:L.14, D:L.14, D:R.16, D:R.16, D:F.17, D:I.37, D:N.56, D:A.57, D:G.79, D:A.80, D:E.125, C:E.125 Salt bridges: D:R.16, D:K.103, D:K.103, C:R.16, C:R.16 ATP.7: 21 residues within 4Å: Chain E: G.13, L.14, G.15, R.16, F.17, D.36, I.37, K.41, A.55, N.56, A.57, T.58, A.77, I.78, G.79, A.80, K.103, E.125 Chain F: R.16, E.125 Ligands: NA.8 17 PLIP interactions: 14 interactions with chain E, 3 interactions with chain F Hydrogen bonds: E:L.14, E:L.14, E:R.16, E:R.16, E:F.17, E:I.37, E:N.56, E:A.57, E:G.79, E:A.80, E:E.125, F:E.125 Salt bridges: E:R.16, E:K.103, E:K.103, F:R.16, F:R.16 ATP.9: 22 residues within 4Å: Chain E: R.16, E.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, A.77, I.78, G.79, A.80, A.84, K.103, E.125 Ligands: NA.8 18 PLIP interactions: 14 interactions with chain F, 4 interactions with chain E Hydrogen bonds: F:L.14, F:L.14, F:R.16, F:R.16, F:F.17, F:I.37, F:K.41, F:N.56, F:A.57, F:G.79, F:A.80, E:R.16, E:E.125, E:E.125 Salt bridges: F:R.16, F:K.103, F:K.103, E:R.16 ATP.10: 22 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, A.77, I.78, G.79, A.80, A.84, K.103, E.125 Chain H: R.16, E.125 Ligands: NA.11 18 PLIP interactions: 15 interactions with chain G, 3 interactions with chain H Hydrogen bonds: G:L.14, G:L.14, G:R.16, G:R.16, G:F.17, G:G.18, G:I.37, G:N.56, G:A.57, G:G.79, G:A.80, G:E.125, H:E.125 Salt bridges: G:R.16, G:K.103, G:K.103, H:R.16, H:R.16 ATP.12: 22 residues within 4Å: Chain G: R.16, E.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, A.77, I.78, G.79, A.80, A.84, K.103, E.125 Ligands: NA.11 18 PLIP interactions: 14 interactions with chain H, 4 interactions with chain G Hydrogen bonds: H:L.14, H:L.14, H:R.16, H:R.16, H:F.17, H:G.18, H:I.37, H:N.56, H:A.57, H:G.79, H:A.80, G:R.16, G:E.125, G:E.125 Salt bridges: H:R.16, H:K.103, H:K.103, G:R.16

4 x NA: SODIUM ION(Non-functional Binders)

NA.2: 6 residues within 4Å: Chain A: R.16, E.125 Chain B: R.16, E.125 Ligands: ATP.1, ATP.3 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.125, A:R.16 NA.5: 6 residues within 4Å: Chain C: R.16, E.125 Chain D: R.16, E.125 Ligands: ATP.4, ATP.6 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:R.16, D:E.125 NA.8: 6 residues within 4Å: Chain E: R.16, E.125 Chain F: R.16, E.125 Ligands: ATP.7, ATP.9 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain E Hydrogen bonds: F:E.125, E:E.125 NA.11: 6 residues within 4Å: Chain G: R.16, E.125 Chain H: R.16, E.125 Ligands: ATP.10, ATP.12 2 PLIP interactions: 2 interactions with chain G Hydrogen bonds: G:E.125, G:E.125

4 x K: POTASSIUM ION(Non-covalent)

K.13: 8 residues within 4Å: Chain I: V.60, T.61, N.175, A.176, T.278, A.279, T.390, V.391 5 PLIP interactions: 5 interactions with chain I Metal complexes: I:T.61, I:N.175, I:A.279, I:T.390, I:V.391 K.14: 8 residues within 4Å: Chain J: V.60, T.61, N.175, A.176, T.278, A.279, T.390, V.391 5 PLIP interactions: 5 interactions with chain J Metal complexes: J:T.61, J:N.175, J:A.279, J:T.390, J:V.391 K.15: 8 residues within 4Å: Chain K: V.60, T.61, N.175, A.176, T.278, A.279, T.390, V.391 5 PLIP interactions: 5 interactions with chain K Metal complexes: K:T.61, K:N.175, K:A.279, K:T.390, K:V.391 K.16: 8 residues within 4Å: Chain L: V.60, T.61, N.175, A.176, T.278, A.279, T.390, V.391 5 PLIP interactions: 5 interactions with chain L Metal complexes: L:T.61, L:N.175, L:A.279, L:T.390, L:V.391

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chang, Y.K. et al., Potassium transporter KtrAB from Bacillus subtilis in ATP-bound state with addition of MgCl2. To Be Published

Release Date

2024-04-03

Peptides

Ktr system potassium uptake protein A: ABCDEFGH
Ktr system potassium uptake protein B: IJKL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

Membrane

We predict this structure to be a membrane protein.
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Ktr system potassium uptake protein A

Ktr system potassium uptake protein B

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