SMTL ID : 1nsf.1

D2 HEXAMERIZATION DOMAIN OF N-ETHYLMALEIMIDE SENSITIVE FACTOR (NSF)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-hexamer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: T.77, D.130 Ligands: ATP.2 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.77, H2O.2, H2O.2, H2O.2 MG.3: 3 residues within 4Å: Chain B: T.77, D.130 Ligands: ATP.4 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:T.77, H2O.6, H2O.6, H2O.6 MG.5: 3 residues within 4Å: Chain C: T.77, D.130 Ligands: ATP.6 4 PLIP interactions: 1 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:T.77, H2O.11, H2O.11, H2O.11 MG.7: 3 residues within 4Å: Chain D: T.77, D.130 Ligands: ATP.8 4 PLIP interactions: 1 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:T.77, H2O.16, H2O.16, H2O.16 MG.9: 3 residues within 4Å: Chain E: T.77, D.130 Ligands: ATP.10 4 PLIP interactions: 1 interactions with chain E, 3 Ligand-Water interactions Metal complexes: E:T.77, H2O.20, H2O.20, H2O.20 MG.11: 3 residues within 4Å: Chain F: T.77, D.130 Ligands: ATP.12 4 PLIP interactions: 1 interactions with chain F, 3 Ligand-Water interactions Metal complexes: F:T.77, H2O.25, H2O.25, H2O.25

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

ATP.2: 22 residues within 4Å: Chain A: I.30, M.31, N.32, G.33, I.34, I.35, W.37, V.41, P.72, H.73, S.74, G.75, K.76, T.77, A.78, L.79, S.174, I.234, K.235, L.238 Chain E: K.158 Ligands: MG.1 24 PLIP interactions: 20 interactions with chain A, 4 interactions with chain E Hydrogen bonds: A:N.32, A:N.32, A:I.35, A:I.35, A:H.73, A:G.75, A:K.76, A:T.77, A:A.78, A:S.174, A:S.174 Water bridges: A:M.31, A:T.77, A:D.131, A:K.235, E:K.158, E:K.158, E:K.158 Salt bridges: A:K.76, A:K.76, A:K.235, A:K.235, A:K.235, E:K.158 ATP.4: 22 residues within 4Å: Chain B: I.30, M.31, N.32, G.33, I.34, I.35, W.37, V.41, P.72, H.73, S.74, G.75, K.76, T.77, A.78, L.79, S.174, I.234, K.235, L.238 Chain F: K.158 Ligands: MG.3 24 PLIP interactions: 20 interactions with chain B, 4 interactions with chain F Hydrogen bonds: B:N.32, B:N.32, B:I.35, B:I.35, B:H.73, B:G.75, B:K.76, B:T.77, B:A.78, B:S.174, B:S.174 Water bridges: B:M.31, B:T.77, B:D.131, B:K.235, F:K.158, F:K.158, F:K.158 Salt bridges: B:K.76, B:K.76, B:K.235, B:K.235, B:K.235, F:K.158 ATP.6: 22 residues within 4Å: Chain C: I.30, M.31, N.32, G.33, I.34, I.35, W.37, V.41, P.72, H.73, S.74, G.75, K.76, T.77, A.78, L.79, S.174, I.234, K.235, L.238 Chain D: K.158 Ligands: MG.5 24 PLIP interactions: 20 interactions with chain C, 4 interactions with chain D Hydrogen bonds: C:N.32, C:N.32, C:I.35, C:I.35, C:H.73, C:G.75, C:K.76, C:T.77, C:A.78, C:S.174, C:S.174 Water bridges: C:M.31, C:T.77, C:D.131, C:K.235, D:K.158, D:K.158, D:K.158 Salt bridges: C:K.76, C:K.76, C:K.235, C:K.235, C:K.235, D:K.158 ATP.8: 22 residues within 4Å: Chain B: K.158 Chain D: I.30, M.31, N.32, G.33, I.34, I.35, W.37, V.41, P.72, H.73, S.74, G.75, K.76, T.77, A.78, L.79, S.174, I.234, K.235, L.238 Ligands: MG.7 24 PLIP interactions: 20 interactions with chain D, 4 interactions with chain B Hydrogen bonds: D:N.32, D:N.32, D:I.35, D:I.35, D:H.73, D:G.75, D:K.76, D:T.77, D:A.78, D:S.174, D:S.174 Water bridges: D:M.31, D:T.77, D:D.131, D:K.235, B:K.158, B:K.158, B:K.158 Salt bridges: D:K.76, D:K.76, D:K.235, D:K.235, D:K.235, B:K.158 ATP.10: 22 residues within 4Å: Chain C: K.158 Chain E: I.30, M.31, N.32, G.33, I.34, I.35, W.37, V.41, P.72, H.73, S.74, G.75, K.76, T.77, A.78, L.79, S.174, I.234, K.235, L.238 Ligands: MG.9 24 PLIP interactions: 20 interactions with chain E, 4 interactions with chain C Hydrogen bonds: E:N.32, E:N.32, E:I.35, E:I.35, E:H.73, E:G.75, E:K.76, E:T.77, E:A.78, E:S.174, E:S.174 Water bridges: E:M.31, E:T.77, E:D.131, E:K.235, C:K.158, C:K.158, C:K.158 Salt bridges: E:K.76, E:K.76, E:K.235, E:K.235, E:K.235, C:K.158 ATP.12: 22 residues within 4Å: Chain A: K.158 Chain F: I.30, M.31, N.32, G.33, I.34, I.35, W.37, V.41, P.72, H.73, S.74, G.75, K.76, T.77, A.78, L.79, S.174, I.234, K.235, L.238 Ligands: MG.11 24 PLIP interactions: 20 interactions with chain F, 4 interactions with chain A Hydrogen bonds: F:N.32, F:N.32, F:I.35, F:I.35, F:H.73, F:G.75, F:K.76, F:T.77, F:A.78, F:S.174, F:S.174 Water bridges: F:M.31, F:T.77, F:D.131, F:K.235, A:K.158, A:K.158, A:K.158 Salt bridges: F:K.76, F:K.76, F:K.235, F:K.235, F:K.235, A:K.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yu, R.C. et al., Structure of the ATP-dependent oligomerization domain of N-ethylmaleimide sensitive factor complexed with ATP. Nat.Struct.Biol. (1998)

Release Date

1998-11-25

Peptides

N-ETHYLMALEIMIDE SENSITIVE FACTOR: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

N-ETHYLMALEIMIDE SENSITIVE FACTOR