- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 8 x MG: MAGNESIUM ION(Non-covalent)
MG.2: 3 residues within 4Å:- Chain A: H.184, H.262
- Chain C: H.262
4 PLIP interactions:1 interactions with chain C, 2 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: C:H.262, A:H.184, A:H.262, H2O.3
MG.3: 4 residues within 4Å:- Chain A: H.220
- Chain B: K.140, D.195, H.199
5 PLIP interactions:3 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: B:D.195, B:D.195, B:H.199, A:H.220, H2O.2
MG.8: 3 residues within 4Å:- Chain B: H.184, H.262
- Chain D: H.262
4 PLIP interactions:2 interactions with chain B, 1 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: B:H.184, B:H.262, D:H.262, H2O.6
MG.9: 4 residues within 4Å:- Chain A: K.140, D.195, H.199
- Chain B: H.220
5 PLIP interactions:3 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: A:D.195, A:D.195, A:H.199, B:H.220, H2O.5
MG.14: 3 residues within 4Å:- Chain A: H.262
- Chain C: H.184, H.262
4 PLIP interactions:2 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: C:H.184, C:H.262, A:H.262, H2O.9
MG.15: 4 residues within 4Å:- Chain C: H.220
- Chain D: K.140, D.195, H.199
5 PLIP interactions:3 interactions with chain D, 1 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: D:D.195, D:D.195, D:H.199, C:H.220, H2O.8
MG.20: 3 residues within 4Å:- Chain B: H.262
- Chain D: H.184, H.262
4 PLIP interactions:1 interactions with chain B, 2 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: B:H.262, D:H.184, D:H.262, H2O.12
MG.21: 4 residues within 4Å:- Chain C: K.140, D.195, H.199
- Chain D: H.220
5 PLIP interactions:3 interactions with chain C, 1 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: C:D.195, C:D.195, C:H.199, D:H.220, H2O.11
- 12 x GOL: GLYCEROL(Non-functional Binders)
GOL.4: 5 residues within 4Å:- Chain A: N.12, A.15, V.76
- Chain B: N.12
- Ligands: GOL.10
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.12
- Water bridges: A:V.76
GOL.5: 6 residues within 4Å:- Chain A: Q.160, L.163, A.164, G.165, L.166
- Ligands: GOL.6
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:L.163, A:G.165, A:L.166
GOL.6: 5 residues within 4Å:- Chain A: L.158, L.166, G.167, N.168
- Ligands: GOL.5
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:L.158, A:N.168
- Water bridges: A:Y.169
GOL.10: 5 residues within 4Å:- Chain A: N.12
- Chain B: N.12, A.15, V.76
- Ligands: GOL.4
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:N.12
- Water bridges: B:V.76
GOL.11: 6 residues within 4Å:- Chain B: Q.160, L.163, A.164, G.165, L.166
- Ligands: GOL.12
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:L.163, B:G.165, B:L.166
GOL.12: 5 residues within 4Å:- Chain B: L.158, L.166, G.167, N.168
- Ligands: GOL.11
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:L.158, B:N.168
- Water bridges: B:Y.169
GOL.16: 5 residues within 4Å:- Chain C: N.12, A.15, V.76
- Chain D: N.12
- Ligands: GOL.22
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:N.12
- Water bridges: C:V.76
GOL.17: 6 residues within 4Å:- Chain C: Q.160, L.163, A.164, G.165, L.166
- Ligands: GOL.18
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:L.163, C:G.165, C:L.166
GOL.18: 5 residues within 4Å:- Chain C: L.158, L.166, G.167, N.168
- Ligands: GOL.17
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:L.158, C:N.168
- Water bridges: C:Y.169
GOL.22: 5 residues within 4Å:- Chain C: N.12
- Chain D: N.12, A.15, V.76
- Ligands: GOL.16
2 PLIP interactions:2 interactions with chain D- Hydrogen bonds: D:N.12
- Water bridges: D:V.76
GOL.23: 6 residues within 4Å:- Chain D: Q.160, L.163, A.164, G.165, L.166
- Ligands: GOL.24
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:L.163, D:G.165, D:L.166
GOL.24: 5 residues within 4Å:- Chain D: L.158, L.166, G.167, N.168
- Ligands: GOL.23
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:L.158, D:N.168
- Water bridges: D:Y.169
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Golan, G. et al., Structure of the uncomplexed DNA repair enzyme endonuclease VIII indicates significant interdomain flexibility. Nucleic Acids Res. (2005)
- Release Date
- 2004-08-03
- Peptides
- Endonuclease VIII: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- homo-tetramer
- Ligands
- 4 x ZN: ZINC ION(Non-covalent)
- 8 x MG: MAGNESIUM ION(Non-covalent)
- 12 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Golan, G. et al., Structure of the uncomplexed DNA repair enzyme endonuclease VIII indicates significant interdomain flexibility. Nucleic Acids Res. (2005)
- Release Date
- 2004-08-03
- Peptides
- Endonuclease VIII: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
A