SMTL ID : 6erm.1

HIV Hexamer with ligand

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-hexamer

Ligands

6 x AZT: 3'-AZIDO-3'-DEOXYTHYMIDINE-5'-TRIPHOSPHATE(Covalent)

AZT.1: 11 residues within 4Å: Chain A: R.18 Chain B: R.18 Chain C: R.18 Chain D: R.18 Chain E: R.18 Chain F: R.18 Ligands: AZT.2, AZT.3, AZT.4, AZT.5, AZT.6 18 PLIP interactions: 3 interactions with chain B, 3 interactions with chain E, 2 interactions with chain F, 5 interactions with chain C, 3 interactions with chain D, 2 interactions with chain A Salt bridges: B:R.18, B:R.18, B:R.18, E:R.18, E:R.18, E:R.18, F:R.18, F:R.18, C:R.18, C:R.18, C:R.18, D:R.18, D:R.18, D:R.18, A:R.18, A:R.18 Hydrogen bonds: C:R.18, C:R.18 AZT.2: 11 residues within 4Å: Chain A: R.18 Chain B: R.18 Chain C: R.18 Chain D: R.18 Chain E: R.18 Chain F: R.18 Ligands: AZT.1, AZT.3, AZT.4, AZT.5, AZT.6 17 PLIP interactions: 2 interactions with chain B, 3 interactions with chain E, 3 interactions with chain F, 3 interactions with chain C, 2 interactions with chain D, 4 interactions with chain A Salt bridges: B:R.18, B:R.18, E:R.18, E:R.18, E:R.18, F:R.18, F:R.18, F:R.18, C:R.18, C:R.18, C:R.18, D:R.18, D:R.18, A:R.18, A:R.18, A:R.18 Hydrogen bonds: A:R.18 AZT.3: 11 residues within 4Å: Chain A: R.18 Chain B: R.18 Chain C: R.18 Chain D: R.18 Chain E: R.18 Chain F: R.18 Ligands: AZT.1, AZT.2, AZT.4, AZT.5, AZT.6 18 PLIP interactions: 5 interactions with chain B, 2 interactions with chain E, 3 interactions with chain F, 2 interactions with chain C, 3 interactions with chain D, 3 interactions with chain A Hydrogen bonds: B:R.18, B:R.18 Salt bridges: B:R.18, B:R.18, B:R.18, E:R.18, E:R.18, F:R.18, F:R.18, F:R.18, C:R.18, C:R.18, D:R.18, D:R.18, D:R.18, A:R.18, A:R.18, A:R.18 AZT.4: 11 residues within 4Å: Chain A: R.18 Chain B: R.18 Chain C: R.18 Chain D: R.18 Chain E: R.18 Chain F: R.18 Ligands: AZT.1, AZT.2, AZT.3, AZT.5, AZT.6 17 PLIP interactions: 3 interactions with chain B, 3 interactions with chain E, 4 interactions with chain F, 2 interactions with chain C, 2 interactions with chain D, 3 interactions with chain A Salt bridges: B:R.18, B:R.18, B:R.18, E:R.18, E:R.18, E:R.18, F:R.18, F:R.18, F:R.18, C:R.18, C:R.18, D:R.18, D:R.18, A:R.18, A:R.18, A:R.18 Hydrogen bonds: F:R.18 AZT.5: 11 residues within 4Å: Chain A: R.18 Chain B: R.18 Chain C: R.18 Chain D: R.18 Chain E: R.18 Chain F: R.18 Ligands: AZT.1, AZT.2, AZT.3, AZT.4, AZT.6 18 PLIP interactions: 3 interactions with chain B, 2 interactions with chain E, 3 interactions with chain F, 4 interactions with chain C, 4 interactions with chain D, 2 interactions with chain A Salt bridges: B:R.18, B:R.18, B:R.18, E:R.18, E:R.18, F:R.18, F:R.18, F:R.18, C:R.18, C:R.18, C:R.18, D:R.18, D:R.18, D:R.18, A:R.18, A:R.18 Hydrogen bonds: C:R.18, D:R.18 AZT.6: 11 residues within 4Å: Chain A: R.18 Chain B: R.18 Chain C: R.18 Chain D: R.18 Chain E: R.18 Chain F: R.18 Ligands: AZT.1, AZT.2, AZT.3, AZT.4, AZT.5 17 PLIP interactions: 2 interactions with chain B, 4 interactions with chain E, 2 interactions with chain F, 3 interactions with chain C, 3 interactions with chain D, 3 interactions with chain A Salt bridges: B:R.18, B:R.18, E:R.18, E:R.18, E:R.18, F:R.18, F:R.18, C:R.18, C:R.18, C:R.18, D:R.18, D:R.18, D:R.18, A:R.18, A:R.18, A:R.18 Hydrogen bonds: E:R.18

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

James, L.C., HIV hexamer. To Be Published

Release Date

2018-11-07

Peptides

Gag polyprotein: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Gag polyprotein

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