SMTL ID : 4cjv.1

Interrogating HIV integrase for compounds that bind- a SAMPL challenge

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: T.37, H.38, N.126, K.130 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.37, A:H.38, A:N.126 Salt bridges: A:H.38, A:K.130 SO4.2: 4 residues within 4Å: Chain A: R.137, E.141, H.142, L.143 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.137, A:L.143 Water bridges: A:K.144 Salt bridges: A:H.142 SO4.5: 4 residues within 4Å: Chain B: T.37, H.38, N.126, K.130 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.37, B:H.38, B:N.126 Salt bridges: B:H.38, B:K.130 SO4.6: 5 residues within 4Å: Chain B: K.42, R.137, E.141, H.142, L.143 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.137, B:L.143 Water bridges: B:K.144 Salt bridges: B:K.42, B:H.142

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: G.65, S.94, T.95, T.96 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.95, A:T.95 Water bridges: A:G.65, A:G.65 GOL.10: 4 residues within 4Å: Chain B: G.65, S.94, T.95, T.96 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.95, B:T.95, B:T.96 Water bridges: B:Q.66, B:T.95

2 x IV2: 5-chloranyl-4-methyl-1,3-benzothiazol-2-amine(Non-covalent)

IV2.4: 12 residues within 4Å: Chain A: Y.54, N.155, H.156, G.168, E.169, V.172 Chain B: G.77, R.78, W.79, P.80, I.175, I.179 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.54, A:V.172 Hydrogen bonds: A:E.169, A:E.169 Halogen bonds: B:G.77 IV2.11: 12 residues within 4Å: Chain A: G.77, R.78, W.79, P.80, I.175, I.179 Chain B: Y.54, N.155, H.156, G.168, E.169, V.172 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.54, B:V.172 Hydrogen bonds: B:E.169 Halogen bonds: A:G.77

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.7: 3 residues within 4Å: Chain B: Y.70, K.74 Ligands: ACT.8 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Water bridges: A:V.59, A:Q.148 Salt bridges: A:K.74, A:K.144, B:K.74 Hydrophobic interactions: B:Y.70 ACT.8: 3 residues within 4Å: Chain A: Y.70, K.74 Ligands: ACT.7 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.70 Hydrogen bonds: A:Y.70, A:Y.70 Salt bridges: A:K.74, B:K.74 Water bridges: B:Q.148 ACT.9: 7 residues within 4Å: Chain A: R.78 Chain B: E.56, A.57, F.71, K.74, L.75, R.78 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:K.74 Hydrogen bonds: B:E.56, B:A.57, B:F.71 Salt bridges: B:K.74, A:R.78

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

2014-01-22

Peptides

INTEGRASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

INTEGRASE

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