5BT3 | pdb_00005bt3

Crystal structure of EP300 bromodomain in complex with SGC-CBP30 chemical probe

Experimental Data Snapshot

  • Method:&nbspX-RAY DIFFRACTION
  • Resolution:&nbsp1.05 Å
  • R-Value Free:&nbsp
    0.178 (Depositor), 0.180 (DCC)&nbsp
  • R-Value Work:&nbsp
    0.165 (Depositor), 0.170 (DCC)&nbsp
  • R-Value Observed:&nbsp
    0.166&nbsp(Depositor)&nbsp

Starting Model: experimental
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Literature

Crystal structure of EP300 bromodomain in complex with a 3,5-dimethylisoxazol ligand

Tallant, C.,&nbspHay, D.,&nbspKrojer, T.,&nbspNunez-Alonso, G.,&nbspPicaud, S.,&nbspNewman, J.A.,&nbspFedorov, O.,&nbspvon Delft, F.,&nbspArrowsmith, C.H.,&nbspEdwards, A.M.,&nbspBountra, C.,&nbspBrennan, P.E.,&nbspKnapp, S.

To be published.

Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Histone acetyltransferase p300116Homo sapiensMutation(s): 0&nbsp
Gene Names:&nbspEP300,&nbspP300
EC:&nbsp2.3.1.48&nbsp(PDB Primary Data),&nbsp2.3.1&nbsp(UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for&nbspQ09472&nbsp(Homo sapiens)
Explore&nbspQ09472&nbsp
Go to UniProtKB: &nbspQ09472
PHAROS: &nbspQ09472
GTEx: &nbspENSG00000100393&nbsp
Entity Groups &nbsp
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ09472
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands&nbsp2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
2LO
Query on 2LO
Download Ideal Coordinates CCD File&nbsp
B [auth A]2-[2-(3-chloro-4-methoxyphenyl)ethyl]-5-(3,5-dimethyl-1,2-oxazol-4-yl)-1-[(2S)-2-(morpholin-4-yl)propyl]-1H-benzimidazole
C28 H33 Cl N4 O3
GEPYBHCJBORHCE-SFHVURJKSA-N
IPA
Query on IPA
Download Ideal Coordinates CCD File&nbsp
C [auth A]ISOPROPYL ALCOHOL
C3 H8 O
KFZMGEQAYNKOFK-UHFFFAOYSA-N
Binding Affinity Annotations&nbsp
IDSourceBinding Affinity
2LO BindingDB:&nbsp 5BT3 Kd:&nbspmin: 21, max: 35&nbsp(nM) from 4 assay(s)
IC50:&nbspmin: 28, max: 2800&nbsp(nM) from 12 assay(s)
EC50:&nbsp6900&nbsp(nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method:&nbspX-RAY DIFFRACTION
  • Resolution:&nbsp1.05 Å
  • R-Value Free:&nbsp 0.178 (Depositor), 0.180 (DCC)&nbsp
  • R-Value Work:&nbsp 0.165 (Depositor), 0.170 (DCC)&nbsp
  • R-Value Observed:&nbsp0.166&nbsp(Depositor)&nbsp
Space Group:&nbspP 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 53.431α = 90
b = 53.431β = 90
c = 77.003γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

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Entry History&nbsp

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-07-01
    Type: Initial release
  • Version 1.1: 2024-01-10
    Changes: Data collection, Database references, Refinement description