SMTL ID : 4cfa.1

Interrogating HIV integrase for compounds that bind- a SAMPL challenge

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 3 residues within 4Å: Chain A: T.37, H.38, K.130 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.38, A:N.126 Salt bridges: A:H.38, A:K.130 SO4.2: 4 residues within 4Å: Chain A: K.42, E.141, H.142, L.143 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.143 Water bridges: A:K.144 Salt bridges: A:K.42, A:H.142 SO4.3: 6 residues within 4Å: Chain A: E.56, A.57, F.71, K.74 Chain B: R.78 Ligands: SO4.9 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Salt bridges: B:R.78, A:K.74 Hydrogen bonds: A:E.56 SO4.4: 4 residues within 4Å: Chain A: G.65, S.94, T.95, T.96 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.65, A:S.94, A:T.95, A:T.96, A:T.96 Water bridges: A:Q.66 SO4.6: 4 residues within 4Å: Chain B: T.37, H.38, N.126, K.130 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.37, B:T.37, B:H.38, B:N.126 Salt bridges: B:H.38, B:K.130 SO4.7: 4 residues within 4Å: Chain B: K.42, E.141, H.142, L.143 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:L.143 Water bridges: B:K.144 Salt bridges: B:K.42, B:H.142 SO4.8: 4 residues within 4Å: Chain B: G.65, S.94, T.95, T.96 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:G.65, B:T.95, B:T.95, B:T.95, B:T.96, B:T.96 Water bridges: B:Q.66, B:Q.66 SO4.9: 8 residues within 4Å: Chain A: R.78 Chain B: E.56, A.57, E.58, F.71, K.74, L.75 Ligands: SO4.3 6 PLIP interactions: 1 interactions with chain A, 5 interactions with chain B Salt bridges: A:R.78, B:K.74 Hydrogen bonds: B:E.56, B:A.57, B:E.58, B:E.58

2 x WOP: 5-[[methyl-[[(1S)-2-oxidanylidene-1-phenyl-2-[(phenylmethyl)amino]ethyl]carbamoyl]amino]methyl]-1,3-benzodioxole-4-carboxylic acid(Non-covalent)

WOP.5: 12 residues within 4Å: Chain A: R.137, D.138, Q.139, A.140, E.141, H.142, T.145 Chain B: Q.66, A.69, T.96, A.99, A.100 11 PLIP interactions: 8 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:E.141, A:T.145, B:Q.66, B:A.69, B:T.96 Hydrogen bonds: A:Q.139, A:Q.139, A:E.141, A:H.142, A:T.145 Salt bridges: A:H.142 WOP.10: 11 residues within 4Å: Chain A: Q.66, A.69, T.96, A.99, A.100 Chain B: D.138, Q.139, A.140, E.141, H.142, T.145 13 PLIP interactions: 9 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:E.141, B:E.141, B:T.145, A:Q.66, A:A.69, A:T.96 Hydrogen bonds: B:Q.139, B:Q.139, B:E.141, B:H.142, B:H.142, A:Q.66 Salt bridges: B:H.142

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Peat, T.S. et al., Interrogating HIV Integrase for Compounds that Bind- a Sampl Challenge. J.Comput.Aided Mol.Des. (2014)

Release Date

2013-11-27

Peptides

INTEGRASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

INTEGRASE

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