SMTL ID : 1xf9.7 (6 other biounits)

Structure of NBD1 from murine CFTR- F508S mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-octamer

Ligands

16 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: T.78, Q.106 Ligands: ATP.3 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.78, H2O.1, H2O.2 MG.2: 2 residues within 4Å: Chain A: G.64, A.209 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:G.64, A:A.209, H2O.2, H2O.2, H2O.2 MG.5: 3 residues within 4Å: Chain B: T.78, Q.106 Ligands: ATP.7 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:T.78, H2O.3, H2O.3 MG.6: 2 residues within 4Å: Chain B: G.64, A.209 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:G.64, B:A.209, H2O.3, H2O.3, H2O.3 MG.9: 3 residues within 4Å: Chain C: T.78, Q.106 Ligands: ATP.11 3 PLIP interactions: 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:T.78, H2O.4, H2O.4 MG.10: 2 residues within 4Å: Chain C: G.64, A.209 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:G.64, C:A.209, H2O.5, H2O.5, H2O.5 MG.13: 3 residues within 4Å: Chain D: T.78, Q.106 Ligands: ATP.15 3 PLIP interactions: 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:T.78, H2O.5, H2O.6 MG.14: 2 residues within 4Å: Chain D: G.64, A.209 5 PLIP interactions: 2 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:G.64, D:A.209, H2O.6, H2O.6, H2O.6 MG.17: 4 residues within 4Å: Chain E: T.78, Q.106, D.185 Ligands: ATP.19 3 PLIP interactions: 1 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:T.78, H2O.7, H2O.7 MG.18: 3 residues within 4Å: Chain E: G.64, A.209, N.210 5 PLIP interactions: 2 interactions with chain E, 3 Ligand-Water interactions Metal complexes: E:G.64, E:A.209, H2O.7, H2O.7, H2O.7 MG.22: 4 residues within 4Å: Chain F: T.78, Q.106, D.185 Ligands: ATP.24 3 PLIP interactions: 1 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:T.78, H2O.8, H2O.8 MG.23: 3 residues within 4Å: Chain F: G.64, A.209, N.210 5 PLIP interactions: 2 interactions with chain F, 3 Ligand-Water interactions Metal complexes: F:G.64, F:A.209, H2O.8, H2O.8, H2O.8 MG.27: 4 residues within 4Å: Chain G: T.78, Q.106, D.185 Ligands: ATP.29 3 PLIP interactions: 1 interactions with chain G, 2 Ligand-Water interactions Metal complexes: G:T.78, H2O.9, H2O.9 MG.28: 3 residues within 4Å: Chain G: G.64, A.209, N.210 5 PLIP interactions: 2 interactions with chain G, 3 Ligand-Water interactions Metal complexes: G:G.64, G:A.209, H2O.9, H2O.9, H2O.9 MG.32: 4 residues within 4Å: Chain H: T.78, Q.106, D.185 Ligands: ATP.34 3 PLIP interactions: 1 interactions with chain H, 2 Ligand-Water interactions Metal complexes: H:T.78, H2O.10, H2O.10 MG.33: 3 residues within 4Å: Chain H: G.64, A.209, N.210 5 PLIP interactions: 2 interactions with chain H, 3 Ligand-Water interactions Metal complexes: H:G.64, H:A.209, H2O.10, H2O.10, H2O.10

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

ATP.3: 13 residues within 4Å: Chain A: W.14, L.22, E.23, F.43, T.73, G.74, S.75, G.76, K.77, T.78, S.79, Q.106 Ligands: MG.1 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:E.23, A:E.23, A:G.74, A:S.75, A:G.76, A:G.76, A:K.77, A:T.78, A:S.79, A:Q.106 Water bridges: A:K.77, A:K.77 Salt bridges: A:K.77, A:K.77 ATP.7: 13 residues within 4Å: Chain B: W.14, L.22, E.23, F.43, T.73, G.74, S.75, G.76, K.77, T.78, S.79, Q.106 Ligands: MG.5 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:E.23, B:E.23, B:G.74, B:S.75, B:G.76, B:G.76, B:K.77, B:T.78, B:S.79, B:Q.106 Water bridges: B:K.77, B:K.77 Salt bridges: B:K.77, B:K.77 ATP.11: 13 residues within 4Å: Chain C: W.14, L.22, E.23, F.43, T.73, G.74, S.75, G.76, K.77, T.78, S.79, Q.106 Ligands: MG.9 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:E.23, C:E.23, C:G.74, C:S.75, C:G.76, C:G.76, C:K.77, C:T.78, C:S.79, C:Q.106 Water bridges: C:K.77, C:K.77 Salt bridges: C:K.77, C:K.77 ATP.15: 13 residues within 4Å: Chain D: W.14, L.22, E.23, F.43, T.73, G.74, S.75, G.76, K.77, T.78, S.79, Q.106 Ligands: MG.13 14 PLIP interactions: 14 interactions with chain D Hydrogen bonds: D:E.23, D:E.23, D:G.74, D:S.75, D:G.76, D:G.76, D:K.77, D:T.78, D:S.79, D:Q.106 Water bridges: D:K.77, D:K.77 Salt bridges: D:K.77, D:K.77 ATP.19: 12 residues within 4Å: Chain E: W.14, G.19, L.22, T.73, G.74, S.75, G.76, K.77, T.78, S.79, Q.106 Ligands: MG.17 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:W.14, E:G.74, E:S.75, E:G.76, E:K.77, E:T.78, E:S.79, E:Q.106 Water bridges: E:K.77, E:Q.106 Salt bridges: E:K.77, E:K.77 ATP.24: 12 residues within 4Å: Chain F: W.14, G.19, L.22, T.73, G.74, S.75, G.76, K.77, T.78, S.79, Q.106 Ligands: MG.22 12 PLIP interactions: 12 interactions with chain F Hydrogen bonds: F:W.14, F:G.74, F:S.75, F:G.76, F:K.77, F:T.78, F:S.79, F:Q.106 Water bridges: F:K.77, F:Q.106 Salt bridges: F:K.77, F:K.77 ATP.29: 12 residues within 4Å: Chain G: W.14, G.19, L.22, T.73, G.74, S.75, G.76, K.77, T.78, S.79, Q.106 Ligands: MG.27 12 PLIP interactions: 12 interactions with chain G Hydrogen bonds: G:W.14, G:G.74, G:S.75, G:G.76, G:K.77, G:T.78, G:S.79, G:Q.106 Water bridges: G:K.77, G:Q.106 Salt bridges: G:K.77, G:K.77 ATP.34: 12 residues within 4Å: Chain H: W.14, G.19, L.22, T.73, G.74, S.75, G.76, K.77, T.78, S.79, Q.106 Ligands: MG.32 12 PLIP interactions: 12 interactions with chain H Hydrogen bonds: H:W.14, H:G.74, H:S.75, H:G.76, H:K.77, H:T.78, H:S.79, H:Q.106 Water bridges: H:K.77, H:Q.106 Salt bridges: H:K.77, H:K.77

12 x ACY: ACETIC ACID(Non-functional Binders)

ACY.4: 7 residues within 4Å: Chain A: V.153, L.154, G.155, G.158, V.159, T.160 Chain E: L.191 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain E Hydrogen bonds: A:G.155, A:V.159, A:T.160, A:T.160 Hydrophobic interactions: E:L.191 ACY.8: 7 residues within 4Å: Chain B: V.153, L.154, G.155, G.158, V.159, T.160 Chain F: L.191 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain F Hydrogen bonds: B:G.155, B:V.159, B:T.160, B:T.160 Hydrophobic interactions: F:L.191 ACY.12: 7 residues within 4Å: Chain C: V.153, L.154, G.155, G.158, V.159, T.160 Chain G: L.191 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain G Hydrogen bonds: C:G.155, C:V.159, C:T.160, C:T.160 Hydrophobic interactions: G:L.191 ACY.16: 7 residues within 4Å: Chain D: V.153, L.154, G.155, G.158, V.159, T.160 Chain H: L.191 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain H Hydrogen bonds: D:G.155, D:V.159, D:T.160, D:T.160 Hydrophobic interactions: H:L.191 ACY.20: 7 residues within 4Å: Chain E: V.153, L.154, G.155, G.158, V.159, T.160, L.161 4 PLIP interactions: 4 interactions with chain E Hydrogen bonds: E:G.155, E:V.159, E:T.160, E:L.161 ACY.21: 7 residues within 4Å: Chain A: D.142, K.145, S.162, Q.165 Chain E: K.145, S.162, Q.165 5 PLIP interactions: 3 interactions with chain E, 2 interactions with chain A Hydrogen bonds: E:S.162, A:Q.165 Water bridges: E:R.168 Salt bridges: E:K.145, A:K.145 ACY.25: 7 residues within 4Å: Chain F: V.153, L.154, G.155, G.158, V.159, T.160, L.161 4 PLIP interactions: 4 interactions with chain F Hydrogen bonds: F:G.155, F:V.159, F:T.160, F:L.161 ACY.26: 7 residues within 4Å: Chain B: D.142, K.145, S.162, Q.165 Chain F: K.145, S.162, Q.165 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain F Hydrogen bonds: B:Q.165, F:S.162 Salt bridges: B:K.145, F:K.145 Water bridges: F:R.168 ACY.30: 7 residues within 4Å: Chain G: V.153, L.154, G.155, G.158, V.159, T.160, L.161 4 PLIP interactions: 4 interactions with chain G Hydrogen bonds: G:G.155, G:V.159, G:T.160, G:L.161 ACY.31: 7 residues within 4Å: Chain C: D.142, K.145, S.162, Q.165 Chain G: K.145, S.162, Q.165 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain G Hydrogen bonds: C:Q.165, G:S.162 Salt bridges: C:K.145, G:K.145 Water bridges: G:R.168 ACY.35: 7 residues within 4Å: Chain H: V.153, L.154, G.155, G.158, V.159, T.160, L.161 4 PLIP interactions: 4 interactions with chain H Hydrogen bonds: H:G.155, H:V.159, H:T.160, H:L.161 ACY.36: 7 residues within 4Å: Chain D: D.142, K.145, S.162, Q.165 Chain H: K.145, S.162, Q.165 5 PLIP interactions: 3 interactions with chain H, 2 interactions with chain D Hydrogen bonds: H:S.162, D:Q.165 Water bridges: H:R.168 Salt bridges: H:K.145, D:K.145

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thibodeau, P.H. et al., Side chain and backbone contributions of Phe508 to CFTR folding. Nat.Struct.Mol.Biol. (2005)

Release Date

2004-12-28

Peptides

Cystic fibrosis transmembrane conductance regulator: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
C

C
C

D
C

E
D

F
D

G
D

H
D

Cystic fibrosis transmembrane conductance regulator

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