SMTL ID : 3si7.5 (5 other biounits)

The crystal structure of the NBD1 domain of the mouse CFTR protein, deltaF508 mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-octamer

Ligands

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

ATP.1: 15 residues within 4Å: Chain A: W.14, L.22, E.23, Q.26, F.43, V.53, S.72, T.73, G.74, S.75, G.76, K.77, T.78, S.79 Ligands: MG.2 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:Q.26, A:G.74, A:S.75, A:G.76, A:K.77, A:T.78, A:S.79, A:Q.106 Water bridges: A:T.78, A:Q.106 Salt bridges: A:K.77, A:K.77 ATP.6: 17 residues within 4Å: Chain A: P.112, E.155 Chain B: W.14, L.22, E.23, Q.26, F.43, S.72, T.73, G.74, S.75, G.76, K.77, T.78, S.79, Q.106 Ligands: MG.7 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:Q.26, B:G.74, B:G.74, B:S.75, B:G.76, B:K.77, B:T.78, B:S.79 Water bridges: B:T.78, B:S.185 Salt bridges: B:K.77, B:K.77 ATP.10: 15 residues within 4Å: Chain C: W.14, L.22, E.23, Q.26, F.43, V.53, S.72, T.73, G.74, S.75, G.76, K.77, T.78, S.79 Ligands: MG.11 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:Q.26, C:G.74, C:S.75, C:G.76, C:K.77, C:T.78, C:S.79, C:Q.106 Water bridges: C:T.78, C:Q.106 Salt bridges: C:K.77, C:K.77 ATP.15: 17 residues within 4Å: Chain C: P.112, E.155 Chain D: W.14, L.22, E.23, Q.26, F.43, S.72, T.73, G.74, S.75, G.76, K.77, T.78, S.79, Q.106 Ligands: MG.16 13 PLIP interactions: 13 interactions with chain D Hydrogen bonds: D:Q.26, D:G.74, D:G.74, D:S.75, D:G.76, D:K.77, D:T.78, D:T.78, D:S.79 Water bridges: D:T.78, D:S.185 Salt bridges: D:K.77, D:K.77 ATP.19: 15 residues within 4Å: Chain E: W.14, L.22, E.23, Q.26, F.43, V.53, S.72, T.73, G.74, S.75, G.76, K.77, T.78, S.79 Ligands: MG.20 13 PLIP interactions: 13 interactions with chain E Hydrogen bonds: E:E.23, E:Q.26, E:G.74, E:S.75, E:G.76, E:K.77, E:T.78, E:S.79, E:Q.106 Water bridges: E:T.78, E:Q.106 Salt bridges: E:K.77, E:K.77 ATP.24: 17 residues within 4Å: Chain E: P.112, E.155 Chain F: W.14, L.22, E.23, Q.26, F.43, S.72, T.73, G.74, S.75, G.76, K.77, T.78, S.79, Q.106 Ligands: MG.25 12 PLIP interactions: 12 interactions with chain F Hydrogen bonds: F:Q.26, F:G.74, F:G.74, F:S.75, F:G.76, F:K.77, F:T.78, F:S.79 Water bridges: F:T.78, F:S.185 Salt bridges: F:K.77, F:K.77 ATP.28: 15 residues within 4Å: Chain G: W.14, L.22, E.23, Q.26, F.43, V.53, S.72, T.73, G.74, S.75, G.76, K.77, T.78, S.79 Ligands: MG.29 13 PLIP interactions: 13 interactions with chain G Hydrogen bonds: G:E.23, G:Q.26, G:G.74, G:S.75, G:G.76, G:K.77, G:T.78, G:S.79, G:Q.106 Water bridges: G:T.78, G:Q.106 Salt bridges: G:K.77, G:K.77 ATP.33: 17 residues within 4Å: Chain G: P.112, E.155 Chain H: W.14, L.22, E.23, Q.26, F.43, S.72, T.73, G.74, S.75, G.76, K.77, T.78, S.79, Q.106 Ligands: MG.34 12 PLIP interactions: 12 interactions with chain H Hydrogen bonds: H:Q.26, H:G.74, H:G.74, H:S.75, H:G.76, H:K.77, H:T.78, H:S.79 Water bridges: H:T.78, H:S.185 Salt bridges: H:K.77, H:K.77

16 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: Q.26, T.78, Q.106, D.184 Ligands: ATP.1 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.78, H2O.3 MG.3: 2 residues within 4Å: Chain A: G.64, A.208 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:G.64, A:A.208, H2O.1, H2O.3, H2O.3 MG.7: 4 residues within 4Å: Chain B: Q.26, T.78, Q.106 Ligands: ATP.6 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.78, H2O.4 MG.8: 3 residues within 4Å: Chain B: G.64, A.208, N.209 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:G.64, B:A.208, H2O.4 MG.11: 5 residues within 4Å: Chain C: Q.26, T.78, Q.106, D.184 Ligands: ATP.10 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:T.78, H2O.9 MG.12: 2 residues within 4Å: Chain C: G.64, A.208 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:G.64, C:A.208, H2O.7, H2O.9, H2O.9 MG.16: 4 residues within 4Å: Chain D: Q.26, T.78, Q.106 Ligands: ATP.15 2 PLIP interactions: 1 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:T.78, H2O.10 MG.17: 3 residues within 4Å: Chain D: G.64, A.208, N.209 3 PLIP interactions: 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:G.64, D:A.208, H2O.10 MG.20: 5 residues within 4Å: Chain E: Q.26, T.78, Q.106, D.184 Ligands: ATP.19 2 PLIP interactions: 1 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:T.78, H2O.14 MG.21: 2 residues within 4Å: Chain E: G.64, A.208 5 PLIP interactions: 2 interactions with chain E, 3 Ligand-Water interactions Metal complexes: E:G.64, E:A.208, H2O.12, H2O.14, H2O.14 MG.25: 4 residues within 4Å: Chain F: Q.26, T.78, Q.106 Ligands: ATP.24 2 PLIP interactions: 1 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:T.78, H2O.15 MG.26: 3 residues within 4Å: Chain F: G.64, A.208, N.209 3 PLIP interactions: 2 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:G.64, F:A.208, H2O.15 MG.29: 5 residues within 4Å: Chain G: Q.26, T.78, Q.106, D.184 Ligands: ATP.28 2 PLIP interactions: 1 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:T.78, H2O.20 MG.30: 2 residues within 4Å: Chain G: G.64, A.208 5 PLIP interactions: 2 interactions with chain G, 3 Ligand-Water interactions Metal complexes: G:G.64, G:A.208, H2O.18, H2O.20, H2O.20 MG.34: 4 residues within 4Å: Chain H: Q.26, T.78, Q.106 Ligands: ATP.33 2 PLIP interactions: 1 interactions with chain H, 1 Ligand-Water interactions Metal complexes: H:T.78, H2O.21 MG.35: 3 residues within 4Å: Chain H: G.64, A.208, N.209 3 PLIP interactions: 2 interactions with chain H, 1 Ligand-Water interactions Metal complexes: H:G.64, H:A.208, H2O.21

12 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 5 residues within 4Å: Chain A: L.153, G.154, G.157, V.158, T.159 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.154, A:V.158, A:T.159, A:T.159, A:L.160 ACT.5: 6 residues within 4Å: Chain A: K.144, S.161, Q.164 Chain F: K.144, S.161, Q.164 6 PLIP interactions: 4 interactions with chain F, 2 interactions with chain A Water bridges: F:K.144, F:K.144, F:R.167 Salt bridges: F:K.144, A:K.144 Hydrogen bonds: A:Q.164 ACT.9: 7 residues within 4Å: Chain B: L.153, G.154, G.157, V.158, T.159, L.160 Chain E: L.190 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain E Hydrogen bonds: B:G.154, B:V.158, B:T.159, B:T.159, B:L.160 Hydrophobic interactions: E:L.190 ACT.13: 5 residues within 4Å: Chain C: L.153, G.154, G.157, V.158, T.159 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:G.154, C:V.158, C:T.159, C:T.159, C:L.160 ACT.14: 6 residues within 4Å: Chain C: K.144, S.161, Q.164 Chain H: K.144, S.161, Q.164 6 PLIP interactions: 4 interactions with chain H, 2 interactions with chain C Water bridges: H:K.144, H:K.144, H:R.167 Salt bridges: H:K.144, C:K.144 Hydrogen bonds: C:Q.164 ACT.18: 7 residues within 4Å: Chain D: L.153, G.154, G.157, V.158, T.159, L.160 Chain G: L.190 6 PLIP interactions: 1 interactions with chain G, 5 interactions with chain D Hydrophobic interactions: G:L.190 Hydrogen bonds: D:G.154, D:V.158, D:T.159, D:T.159, D:L.160 ACT.22: 5 residues within 4Å: Chain E: L.153, G.154, G.157, V.158, T.159 5 PLIP interactions: 5 interactions with chain E Hydrogen bonds: E:G.154, E:V.158, E:T.159, E:T.159, E:L.160 ACT.23: 6 residues within 4Å: Chain B: K.144, S.161, Q.164 Chain E: K.144, S.161, Q.164 7 PLIP interactions: 3 interactions with chain E, 4 interactions with chain B Hydrogen bonds: E:D.141, E:Q.164 Salt bridges: E:K.144, B:K.144 Water bridges: B:K.144, B:K.144, B:R.167 ACT.27: 7 residues within 4Å: Chain A: L.190 Chain F: L.153, G.154, G.157, V.158, T.159, L.160 6 PLIP interactions: 5 interactions with chain F, 1 interactions with chain A Hydrogen bonds: F:G.154, F:V.158, F:T.159, F:T.159, F:L.160 Hydrophobic interactions: A:L.190 ACT.31: 5 residues within 4Å: Chain G: L.153, G.154, G.157, V.158, T.159 5 PLIP interactions: 5 interactions with chain G Hydrogen bonds: G:G.154, G:V.158, G:T.159, G:T.159, G:L.160 ACT.32: 6 residues within 4Å: Chain D: K.144, S.161, Q.164 Chain G: K.144, S.161, Q.164 7 PLIP interactions: 3 interactions with chain G, 4 interactions with chain D Hydrogen bonds: G:D.141, G:Q.164 Salt bridges: G:K.144, D:K.144 Water bridges: D:K.144, D:K.144, D:R.167 ACT.36: 7 residues within 4Å: Chain C: L.190 Chain H: L.153, G.154, G.157, V.158, T.159, L.160 6 PLIP interactions: 5 interactions with chain H, 1 interactions with chain C Hydrogen bonds: H:G.154, H:V.158, H:T.159, H:T.159, H:L.160 Hydrophobic interactions: C:L.190

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mendoza, J.L. et al., Requirements for efficient correction of DeltaF508 CFTR revealed by analyses of evolved sequences. Cell(Cambridge,Mass.) (2012)

Release Date

2012-02-01

Peptides

Cystic fibrosis transmembrane conductance regulator: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

G
A

H
B

Cystic fibrosis transmembrane conductance regulator

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