5IG6: Bromodomain-containing protein 2

Ultra-high resolution crystal structure of second bromodomain of BRD2 in complex with inhibitor 6B3. Determined by X-ray diffraction at 0.91 Å resolution. Released 22 Jun 2016.

Method: X-ray diffraction
Resolution: 0.91 Å
Organism: Homo sapiens
Chains: 1
Atoms: 1,360
Mol. weight: 14.17 kDa
Ligands: 6B3
Released: 22 Jun 2016

Explore 5IG6 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5IG6 contains 9 α-helices and 0 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 9 helices, 0 β-strands

Element	Residues	Length
α-helix	346-360	15
α-helix	363-365	3
α-helix	366-369	4
α-helix	370-372	3
α-helix	378-381	4
α-helix	386-389	4
α-helix	396-404	9
α-helix	411-428	18
α-helix	434-450	17

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Bromodomain-containing protein 2	A	protein	115	Homo sapiens	P25440 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>5IG6_1 Bromodomain-containing protein 2 (chains A)
GSHMQDPEQLKHCNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVK
RKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQDVFEFRYAKMPA

Ligands and cofactors

ID	Name	Formula	Copies
6B3	2'-[(6-oxo-5,6-dihydrophenanthridin-3-yl)carbamoyl][1,1'-biphenyl]-2-carboxylic…	C27 H18 N2 O4	1

Water and common crystallization additives (GOL, CL) are not listed.

Primary citation

A Novel Phenanthridionone Based Scaffold As a Potential Inhibitor of the BRD2 Bromodomain: Crystal Structure of the Complex. Tripathi, S., Mathur, S., Deshmukh, P. et al. PLoS One (2016) 11:e0156344-e0156344. DOI 10.1371/journal.pone.0156344 · PubMed

Other PDB entries of the same protein (UniProt P25440 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5IBN 0.94 Å, Ultra high resolution crystal structure of the apo- form of second bromodomain of BRD2.
6DBC 1.05 Å, Second bromodomain of Human BRD2 with a Tetrahydroquinoline analogue
6DDJ 1.05 Å, Crystal Structure of the human BRD2 BD2 bromodimain in complex with a…
4J1P 1.08 Å, X-ray crystal structure of bromodomain 2 of human brd2 in complex with rvx208 to 1.08 A…
7VRM 1.1 Å, crystal structure of BRD2-BD2 in complex with purine derivative
6I80 1.14 Å, Crystal Structure of the second bromodomain of BRD2 in complex with RT53
7VRQ 1.15 Å, crystal structure of BRD2-BD2 in complex with purine derivative
24KK 1.2 Å, Crystal structure of the second bromodomain (BD2) of human BRD2 in complex with…
5O38 1.2 Å, Human Brd2(BD2) mutant in free form
5O3I 1.2 Å, Human Brd2(BD2) mutant in complex with AL-tBu
7USG 1.2 Å, BRD2-BD2 in complex with MDP5
7VS0 1.25 Å, crystal structure of BRD2-BD2 in complex with purine derivative

Browse structure collections

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