SMTL ID : 8qul.1

Hexameric HIV-1 CA in complex with DDD00100555

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.67 Å

Oligo State

homo-hexamer

Ligands

6 x 3IP: 3-(BENZYLOXY)PYRIDIN-2-AMINE(Non-covalent)

3IP.1: 9 residues within 4Å: Chain A: N.53, L.56, N.57, M.66, L.69, K.70, I.73, N.74 Chain E: Q.179 15 PLIP interactions: 13 interactions with chain A, 2 interactions with chain E Hydrophobic interactions: A:L.56, A:L.69, A:K.70, A:K.70, A:K.70, A:I.73 Hydrogen bonds: A:N.57 Water bridges: A:L.56, A:Q.63, A:K.70, A:K.70, A:K.70, A:K.70, E:R.173, E:R.173 3IP.2: 9 residues within 4Å: Chain B: N.53, L.56, N.57, M.66, L.69, K.70, I.73, N.74 Chain F: Q.179 15 PLIP interactions: 2 interactions with chain F, 13 interactions with chain B Water bridges: F:R.173, F:R.173, B:L.56, B:Q.63, B:K.70, B:K.70, B:K.70, B:K.70 Hydrophobic interactions: B:L.56, B:L.69, B:K.70, B:K.70, B:K.70, B:I.73 Hydrogen bonds: B:N.57 3IP.3: 9 residues within 4Å: Chain C: N.53, L.56, N.57, M.66, L.69, K.70, I.73, N.74 Chain D: Q.179 15 PLIP interactions: 13 interactions with chain C, 2 interactions with chain D Hydrophobic interactions: C:L.56, C:L.69, C:K.70, C:K.70, C:K.70, C:I.73 Hydrogen bonds: C:N.57 Water bridges: C:L.56, C:Q.63, C:K.70, C:K.70, C:K.70, C:K.70, D:R.173, D:R.173 3IP.4: 9 residues within 4Å: Chain B: Q.179 Chain D: N.53, L.56, N.57, M.66, L.69, K.70, I.73, N.74 15 PLIP interactions: 13 interactions with chain D, 2 interactions with chain B Hydrophobic interactions: D:L.56, D:L.69, D:K.70, D:K.70, D:K.70, D:I.73 Hydrogen bonds: D:N.57 Water bridges: D:L.56, D:Q.63, D:K.70, D:K.70, D:K.70, D:K.70, B:R.173, B:R.173 3IP.5: 9 residues within 4Å: Chain C: Q.179 Chain E: N.53, L.56, N.57, M.66, L.69, K.70, I.73, N.74 15 PLIP interactions: 13 interactions with chain E, 2 interactions with chain C Hydrophobic interactions: E:L.56, E:L.69, E:K.70, E:K.70, E:K.70, E:I.73 Hydrogen bonds: E:N.57 Water bridges: E:L.56, E:Q.63, E:K.70, E:K.70, E:K.70, E:K.70, C:R.173, C:R.173 3IP.6: 9 residues within 4Å: Chain A: Q.179 Chain F: N.53, L.56, N.57, M.66, L.69, K.70, I.73, N.74 15 PLIP interactions: 13 interactions with chain F, 2 interactions with chain A Hydrophobic interactions: F:L.56, F:L.69, F:K.70, F:K.70, F:K.70, F:I.73 Hydrogen bonds: F:N.57 Water bridges: F:L.56, F:Q.63, F:K.70, F:K.70, F:K.70, F:K.70, A:R.173, A:R.173

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lang, S. et al., Application of an NMR/Crystallography Fragment Screening Platform for the Assessment and Rapid Discovery of New HIV-CA Binding Fragments. Chemmedchem (2024)

Release Date

2024-03-27

Peptides

Spacer peptide 1: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Spacer peptide 1

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