SMTL ID : 6ulv.1 (1 other biounit)

BRD4-BD1 in complex with the cyclic peptide 4.2_1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-2-1-mer

Ligands

4 x IOD: IODIDE ION(Non-functional Binders)

IOD.1: 1 residues within 4Å: Chain A: Y.30 Ligand excluded by PLIP IOD.2: 1 residues within 4Å: Chain A: K.125 Ligand excluded by PLIP IOD.4: 1 residues within 4Å: Chain B: N.81 Ligand excluded by PLIP IOD.5: 4 residues within 4Å: Chain A: K.56 Chain C: X.1, W.2, K.3 Ligand excluded by PLIP

1 x B3P: 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)

B3P.3: 6 residues within 4Å: Chain A: D.61, I.65, I.103, Y.104, N.105, K.106 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.104 Hydrogen bonds: A:Y.104, A:N.105 Water bridges: A:D.61

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 5 residues within 4Å: Chain B: Q.50 Chain C: K.3, N.4, W.7, L.8 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain C Water bridges: B:Q.50 Hydrogen bonds: C:N.4, C:N.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patel, K. et al., Cyclic peptides can engage a single binding pocket through highly divergent modes. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2020-12-02

Peptides

Bromodomain-containing protein 4: AB
Cyclic peptide 4.2_3: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
E

Bromodomain-containing protein 4

Cyclic peptide 4.2_3

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