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

Discovery and the crystal structure of NS5 in complex with the N-terminal bromodomain of BRD2.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

1 x BUX: 7-chloranyl-2-[(3-chlorophenyl)amino]pyrano[3,4-e][1,3]oxazine-4,5-dione(Non-covalent)

BUX.1: 8 residues within 4Å: Chain A: W.25, P.26, Q.29, V.31, K.35, L.36, L.38, N.84 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.36, A:L.36 Hydrogen bonds: A:P.26, A:Q.29, A:N.84 Water bridges: A:Y.41 pi-Stacking: A:W.25

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

SO4.2: 3 residues within 4Å: Chain A: T.53, R.56, R.57 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.56 Salt bridges: A:R.56, A:R.57

1 x DTT: 2,3-DIHYDROXY-1,4-DITHIOBUTANE(Non-covalent)

DTT.3: 3 residues within 4Å: Chain A: Q.22, W.25, R.28 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.28, A:R.28

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain B: P.26, F.27, V.31, L.36, N.84, I.90 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.84, B:N.84 Water bridges: B:P.26

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.5: 3 residues within 4Å: Chain B: T.53, R.56, R.57 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.57

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.6: 3 residues within 4Å: Chain B: T.4, N.5, Q.110 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.5, B:N.5, B:Q.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Deshmukh, P. et al., Novel pyrano 1,3 oxazine based ligand inhibits the epigenetic reader hBRD2 in glioblastoma. Biochem.J. (2020)

Release Date

2020-07-01

Peptides

Bromodomain-containing protein 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Bromodomain-containing protein 2

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