- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.20 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x ZN: ZINC ION(Non-covalent)
- 6 x MN: MANGANESE (II) ION(Non-covalent)
MN.2: 6 residues within 4Å:- Chain A: D.131, Y.132, D.188
- Chain D: A.17
- Ligands: MN.3, RLT.5
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:D.131, A:D.188
MN.3: 6 residues within 4Å:- Chain A: D.131, E.224, N.227
- Chain D: A.17
- Ligands: MN.2, RLT.5
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:D.131, A:E.224, A:E.224
MN.10: 2 residues within 4Å:- Chain B: D.131, D.188
2 PLIP interactions:2 interactions with chain B- Metal complexes: B:D.131, B:D.188
MN.12: 6 residues within 4Å:- Chain E: D.131, Y.132, D.188
- Chain H: A.17
- Ligands: MN.13, RLT.15
2 PLIP interactions:2 interactions with chain E- Metal complexes: E:D.131, E:D.188
MN.13: 6 residues within 4Å:- Chain E: D.131, E.224, N.227
- Chain H: A.17
- Ligands: MN.12, RLT.15
3 PLIP interactions:3 interactions with chain E- Metal complexes: E:D.131, E:E.224, E:E.224
MN.20: 2 residues within 4Å:- Chain F: D.131, D.188
2 PLIP interactions:2 interactions with chain F- Metal complexes: F:D.131, F:D.188
- 2 x NH4: AMMONIUM ION(Non-functional Binders)
- 2 x RLT: N-(4-fluorobenzyl)-5-hydroxy-1-methyl-2-(1-methyl-1-{[(5-methyl-1,3,4-oxadiazol-2-yl)carbonyl]amino}ethyl)-6-oxo-1,6-di hydropyrimidine-4-carboxamide(Non-covalent)
RLT.5: 12 residues within 4Å:- Chain A: D.131, D.188, Q.189, Y.215, P.217, Q.218, E.224
- Chain C: G.4
- Chain D: C.16, A.17
- Ligands: MN.2, MN.3
6 PLIP interactions:6 interactions with chain A- Hydrophobic interactions: A:Q.189, A:P.217, A:E.224, A:E.224
- Hydrogen bonds: A:Y.215
- pi-Stacking: A:Y.215
RLT.15: 12 residues within 4Å:- Chain E: D.131, D.188, Q.189, Y.215, P.217, Q.218, E.224
- Chain G: G.4
- Chain H: C.16, A.17
- Ligands: MN.12, MN.13
6 PLIP interactions:6 interactions with chain E- Hydrophobic interactions: E:Q.189, E:P.217, E:E.224, E:E.224
- Hydrogen bonds: E:Y.215
- pi-Stacking: E:Y.215
- 8 x GOL: GLYCEROL(Non-functional Binders)
GOL.6: 5 residues within 4Å:- Chain A: P.138, S.139, Q.140, T.243, K.244
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Q.140, A:Q.140, A:T.243
GOL.7: 3 residues within 4Å:- Chain A: H.341, K.342, H.360
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:K.342, A:H.360
GOL.8: 3 residues within 4Å:- Chain A: S.165, T.166, S.167
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:T.166, A:T.166, A:S.167
GOL.9: 3 residues within 4Å:- Chain A: Q.189, T.194, F.211
No protein-ligand interaction detected (PLIP)GOL.16: 5 residues within 4Å:- Chain E: P.138, S.139, Q.140, T.243, K.244
3 PLIP interactions:3 interactions with chain E- Hydrogen bonds: E:Q.140, E:Q.140, E:T.243
GOL.17: 3 residues within 4Å:- Chain E: H.341, K.342, H.360
3 PLIP interactions:3 interactions with chain E- Hydrogen bonds: E:H.341, E:K.342, E:H.360
GOL.18: 3 residues within 4Å:- Chain E: S.165, T.166, S.167
2 PLIP interactions:2 interactions with chain E- Hydrogen bonds: E:T.166, E:S.167
GOL.19: 3 residues within 4Å:- Chain E: Q.189, T.194, F.211
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Hare, S. et al., Retroviral intasome assembly and inhibition of DNA strand transfer. Nature (2010)
- Release Date
- 2010-02-09
- Peptides
- Integrase: ABEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BE
AF
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 3.20 Å
- Oligo State
- homo-tetramer
- Ligands
- 2 x ZN: ZINC ION(Non-covalent)
- 6 x MN: MANGANESE (II) ION(Non-covalent)
- 2 x NH4: AMMONIUM ION(Non-functional Binders)
- 2 x RLT: N-(4-fluorobenzyl)-5-hydroxy-1-methyl-2-(1-methyl-1-{[(5-methyl-1,3,4-oxadiazol-2-yl)carbonyl]amino}ethyl)-6-oxo-1,6-di hydropyrimidine-4-carboxamide(Non-covalent)
- 8 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Hare, S. et al., Retroviral intasome assembly and inhibition of DNA strand transfer. Nature (2010)
- Release Date
- 2010-02-09
- Peptides
- Integrase: ABEF
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BE
AF
B