SMTL ID : 4ahs.1

Parallel screening of a low molecular weight compound library: do differences in methodology affect hit identification

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 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:C.36, A:H.38, A:N.126 Salt bridges: A:H.38, A:K.130 SO4.2: 6 residues within 4Å: Chain A: E.40, K.42, R.137, E.141, H.142, L.143 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.137, A:L.143 Water bridges: A:K.144 Salt bridges: A:K.42, A:H.142 SO4.7: 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 SO4.8: 4 residues within 4Å: Chain B: G.65, S.94, T.95, T.96 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:G.65, B:Q.66, B:T.95, B:T.95, B:T.96, B:T.96, B:T.96

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

ACT.3: 8 residues within 4Å: Chain A: E.56, A.57, E.58, F.71, K.74, L.75, R.78 Chain B: R.78 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A Salt bridges: B:R.78, A:K.74 Hydrophobic interactions: A:K.74 Hydrogen bonds: A:E.56, A:E.58 ACT.9: 3 residues within 4Å: Chain B: R.137, H.142, L.143 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.143 Hydrogen bonds: B:L.143 Water bridges: B:K.42 Salt bridges: B:K.42, B:H.142 ACT.10: 8 residues within 4Å: Chain A: R.78 Chain B: E.56, A.57, E.58, F.71, K.74, L.75, R.78 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Salt bridges: A:R.78, B:K.74 Hydrophobic interactions: B:K.74 Hydrogen bonds: B:E.58, B:F.71 ACT.11: 4 residues within 4Å: Chain A: E.58 Chain B: Y.70, K.74 Ligands: ACT.12 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:Y.70 Hydrogen bonds: B:Y.70, B:Y.70 Salt bridges: B:K.74, A:K.74 Water bridges: A:E.58, A:E.58, A:V.59 ACT.12: 4 residues within 4Å: Chain A: Y.70, K.74 Chain B: E.58 Ligands: ACT.11 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Water bridges: B:Q.148 Salt bridges: B:K.74, B:K.144, A:K.74

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 5 residues within 4Å: Chain A: Q.139, A.140, E.141, H.142, T.145 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.139, A:E.141, A:H.142, A:H.142 EDO.13: 3 residues within 4Å: Chain A: M.149 Chain B: A.99, A.100 2 PLIP interactions: 2 interactions with chain B Water bridges: B:A.100, B:A.100

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: T.64, G.65, Q.66, S.94, T.96 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.64, A:G.65, A:Q.66, A:T.96, A:T.96 Water bridges: A:T.95

2 x AKH: 1-BENZOFURAN-7-CARBOXYLIC ACID(Non-covalent)

AKH.6: 11 residues within 4Å: Chain A: G.77, R.78, W.79, P.80, I.175, I.179 Chain B: Y.54, H.156, G.168, E.169, V.172 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:W.79, A:P.80, B:Y.54, B:V.172 Water bridges: B:H.156 pi-Stacking: B:H.156 AKH.14: 11 residues within 4Å: Chain A: Y.54, 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, B:P.80 Water bridges: A:S.166 pi-Stacking: A:H.156

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wielens, J. et al., Parallel Screening of Low Molecular Weight Fragment Libraries: Do Differences in Methodology Affect Hit Identification?. J.Biomol.Screen (2013)

Release Date

2012-12-19

Peptides

INTEGRASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

INTEGRASE

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