SMTL ID : 4ahu.1

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

6 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: 6 residues within 4Å: Chain A: Q.139, A.140, E.141, H.142, T.145 Ligands: EDO.12 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.141, A:H.142, A:T.145, A:T.145 Salt bridges: A:H.142 SO4.3: 9 residues within 4Å: Chain A: E.56, A.57, E.58, F.71, K.74, L.75, R.78 Chain B: R.78 Ligands: SO4.10 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:A.57, A:A.57, A:E.58, A:R.78 Salt bridges: A:K.74, B:R.78 SO4.8: 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:C.36, B:H.38, B:N.126 Salt bridges: B:H.38, B:K.130 SO4.9: 7 residues within 4Å: Chain A: Q.66 Chain B: Q.139, A.140, E.141, H.142, T.145 Ligands: GOL.15 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.141, B:H.142, B:H.142, A:Q.66 Water bridges: B:T.145, B:T.145 Salt bridges: B:H.142 SO4.10: 9 residues within 4Å: Chain A: R.78 Chain B: E.56, A.57, E.58, F.71, K.74, L.75, R.78 Ligands: SO4.3 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.56, B:A.57, B:E.58, B:F.71 Salt bridges: B:K.74, A:R.78

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 3 residues within 4Å: Chain A: V.43, A.62, E.63 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain B: V.43, A.62, E.63 Ligand excluded by PLIP

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: G.65, Q.66, S.94, T.95, T.96 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.65, A:Q.66, A:T.95, A:T.95, A:T.95, A:T.96 Water bridges: A:S.90 GOL.6: 5 residues within 4Å: Chain A: E.40, K.42, H.142, L.143, K.144 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.40, A:K.42, A:H.142, A:L.143, A:K.144 GOL.14: 5 residues within 4Å: Chain B: G.65, Q.66, S.94, T.95, T.96 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.65, B:Q.66, B:T.95, B:T.95, B:T.96 Water bridges: B:T.95 GOL.15: 5 residues within 4Å: Chain A: A.100 Chain B: Q.139, T.145, M.149 Ligands: SO4.9 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Water bridges: B:Q.139, A:A.100, A:W.103

2 x ICO: 1H-INDOLE-3-CARBOXYLIC ACID(Non-covalent)

ICO.7: 11 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.179 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.54, A:N.155, B:P.80 Hydrogen bonds: A:E.169 Water bridges: A:H.156 pi-Stacking: A:H.156 ICO.16: 11 residues within 4Å: Chain A: G.77, R.78, W.79, P.80, 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:N.155, A:P.80 Water bridges: B:H.156

1 x ACY: ACETIC ACID(Non-functional Binders)

ACY.11: 4 residues within 4Å: Chain B: E.40, K.42, H.142, L.143 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.40, B:L.143 Water bridges: B:K.144 Salt bridges: B:K.42

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

EDO.12: 6 residues within 4Å: Chain A: M.149 Chain B: A.69, L.73, A.100, W.103 Ligands: SO4.2 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:A.69

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

Related Entries With Identical Sequence