SMTL ID : 3hph.1

Closed tetramer of Visna virus integrase (residues 1-219) in complex with LEDGF IBD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.64 Å

Oligo State

hetero-4-4-mer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.12, H.16, C.40, C.43 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.12, A:H.16, A:C.40, A:C.43 ZN.4: 4 residues within 4Å: Chain B: H.12, H.16, C.40, C.43 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.12, B:H.16, B:C.40, B:C.43 ZN.6: 4 residues within 4Å: Chain C: H.12, H.16, C.40, C.43 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.12, C:H.16, C:C.40, C:C.43 ZN.8: 4 residues within 4Å: Chain D: H.12, H.16, C.40, C.43 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:H.12, D:H.16, D:C.40, D:C.43

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: M.109, M.198, F.201, I.202 Chain B: M.109, F.201, I.202 No protein-ligand interaction detected (PLIP) GOL.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.7: 7 residues within 4Å: Chain C: M.109, F.110, M.198, F.201 Chain D: M.109, F.110, F.201 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:M.109 GOL.9: 1 residues within 4Å: Chain D: F.203 No protein-ligand interaction detected (PLIP)

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.5: 5 residues within 4Å: Chain B: Y.67, T.68, H.69, H.157, K.161 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:T.68, B:T.68, B:T.68, B:H.69, B:H.69, B:Q.158 Salt bridges: B:K.161 PO4.10: 4 residues within 4Å: Chain E: K.54, R.57, Y.73, K.77 7 PLIP interactions: 7 interactions with chain E Water bridges: E:K.54, E:K.54, E:R.57, E:R.57 Salt bridges: E:K.54, E:R.57, E:K.77 PO4.11: 4 residues within 4Å: Chain H: K.54, R.57, Y.73, K.77 10 PLIP interactions: 10 interactions with chain H Hydrogen bonds: H:Y.73, H:Y.73 Water bridges: H:K.54, H:K.54, H:R.57, H:R.57, H:K.77 Salt bridges: H:K.54, H:R.57, H:K.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hare, S. et al., Structural basis for functional tetramerization of lentiviral integrase. Plos Pathog. (2009)

Release Date

2009-07-28

Peptides

Integrase: ABCD
PC4 and SFRS1-interacting protein: EFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

Integrase

PC4 and SFRS1-interacting protein

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