6P3A | pdb_00006p3a

Crystal Structure Analysis of TAF1 Bromodomain

• PDB DOI: https://doi.org/10.2210/pdb6P3A/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2019-05-23 Released: 2020-05-27 
• Deposition Author(s): Seo, H.-S., Dhe-Paganon, S.
• Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.99 Å
• R-Value Free: 
  0.286 (Depositor), 0.286 (DCC) 
• R-Value Work: 
  0.255 (Depositor), 0.259 (DCC) 
• R-Value Observed: 
  0.256 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure Analysis of TAF1 Bromodomain

Seo, H.-S., Dhe-Paganon, S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 32.89 kDa 
• Atom Count: 2,124 
• Modeled Residue Count: 254 
• Deposited Residue Count: 274 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcription initiation factor TFIID subunit 1	A, B	137	Homo sapiens	Mutation(s): 0  Gene Names: TAF1, BA2R, CCG1, CCGS, TAF2A EC: 2.3.1.48 (PDB Primary Data), 2.7.11.1 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P21675 (Homo sapiens) Explore P21675  Go to UniProtKB:  P21675
PHAROS:  P21675 GTEx:  ENSG00000147133

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NQP (Subject of Investigation/LOI)	C [auth A], D [auth B]	4-{[(3R)-1-(but-3-en-1-yl)-3-methyl-4-(oxan-4-yl)-2-oxo-1,2,3,4-tetrahydropyrido[2,3-b]pyrazin-6-yl]amino}-3-methoxy-N-(1-methylpiperidin-4-yl)benzamide C31 H42 N6 O4 YEZKKIMJJAQTOO-OAQYLSRUSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
NQP	BindingDB:  6P3A	IC50: 82 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.99 Å
• R-Value Free:  0.286 (Depositor), 0.286 (DCC) 
• R-Value Work:  0.255 (Depositor), 0.259 (DCC) 
• R-Value Observed: 0.256 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 92.43	α = 90
b = 92.43	β = 90
c = 117.43	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
xia2	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2020-05-27 
Deposition Author(s): Seo, H.-S., Dhe-Paganon, S.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	--

Revision History  

• Version 1.0: 2020-05-27
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-11-06
  Changes: Structure summary