SMTL ID : 3vq7.1

HIV-1 IN core domain in complex with 4-(1H-pyrrol-1-yl)aniline

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.63 Å

Oligo State

homo-dimer

Ligands

1 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)

GLC-FRU.1: 13 residues within 4Å: Chain A: E.33, V.34, E.42, Y.45, K.49, K.119 Chain B: E.33, V.34, I.35, E.42, Y.45, K.49, K.119 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:V.34, A:K.119, B:E.42, B:K.49, B:K.49, A:E.33, A:E.42, A:Y.45, A:K.49, B:V.34, B:V.34, B:K.119 Water bridges: A:V.34, B:E.42, B:E.42, A:E.42, A:E.42

4 x CD: CADMIUM ION(Non-covalent)

CD.2: 4 residues within 4Å: Chain A: C.11, H.13, E.38 Ligands: CD.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.11, A:H.13, A:E.38, H2O.3 CD.3: 4 residues within 4Å: Chain A: C.11, E.38, D.62 Ligands: CD.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:C.11, A:E.38, A:D.62, H2O.1, H2O.1 CD.6: 4 residues within 4Å: Chain B: C.11, H.13, E.38 Ligands: CD.7 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:C.11, B:H.13, B:E.38, H2O.4, H2O.5 CD.7: 4 residues within 4Å: Chain B: C.11, E.38, D.62 Ligands: CD.6 6 PLIP interactions: 3 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:C.11, B:E.38, B:D.62, H2O.3, H2O.4, H2O.4

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

SO4.4: 6 residues within 4Å: Chain A: E.15, K.17, R.112, E.116, H.117, L.118 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:L.118 Water bridges: A:R.112, A:R.112 Salt bridges: A:K.17, A:R.112, A:H.117 SO4.8: 4 residues within 4Å: Chain B: K.17, R.112, H.117, L.118 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:R.112, B:L.118 Water bridges: B:K.17, B:K.17, B:K.119 Salt bridges: B:K.17, B:H.117

2 x SNU: 4-(1H-pyrrol-1-yl)aniline(Non-covalent)

SNU.5: 11 residues within 4Å: Chain A: G.52, R.53, W.54, P.55, I.150, T.152 Chain B: N.130, H.131, G.143, E.144, V.147 8 PLIP interactions: 3 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:N.130, B:E.144, B:V.147, A:P.55, A:P.55, A:I.150 Hydrogen bonds: A:I.150 Water bridges: A:T.152 SNU.9: 9 residues within 4Å: Chain A: Q.41, A.44, Y.45, T.71, A.74, A.75, W.78 Chain B: T.120, M.124 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.44, A:T.71, A:W.78 Hydrogen bonds: A:Q.41

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

2013-01-30

Peptides

POL polyprotein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

POL polyprotein

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