4Y03 | pdb_00004y03

Crystal Structure of the fifth bromodomain of human PB1 in complex with salicylic acid

• PDB DOI: https://doi.org/10.2210/pdb4Y03/pdb

• Classification: CELL CYCLE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2015-02-05 Released: 2015-05-20 
• Deposition Author(s): Filippakopoulos, P., Picaud, S., Felletar, I., Fedorov, O., von Delft, F., Edwards, A.M., Arrowsmith, C.H., Bountra, C., Knapp, S., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free: 
  0.281 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.232 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.234 (Depositor) 

Literature

Crystal Structure of the fifth bromodomain of human PB1 in complex with salicylic acid

Filippakopoulos, P., Picaud, S., Felletar, I., Fedorov, O., von Delft, F., Edwards, A.M., Arrowsmith, C.H., Bountra, C., Knapp, S.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 29.76 kDa 
• Atom Count: 2,042 
• Modelled Residue Count: 230 
• Deposited Residue Count: 248 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein polybromo-1	A, B	124	Homo sapiens	Mutation(s): 0  Gene Names: PBRM1, BAF180, PB1
UniProt & NIH Common Fund Data Resources
Find proteins for Q86U86 (Homo sapiens) Explore Q86U86  Go to UniProtKB:  Q86U86
PHAROS:  Q86U86 GTEx:  ENSG00000163939

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CIT	E [auth B]	CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N
SAL	C [auth A], D [auth B]	2-HYDROXYBENZOIC ACID C7 H6 O3 YGSDEFSMJLZEOE-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free:  0.281 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.232 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.234 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.68	α = 90
b = 58.48	β = 90
c = 139.13	γ = 90

Software Package:

Software Name	Purpose
SCALA	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-05-20 
Deposition Author(s): Filippakopoulos, P., Picaud, S., Felletar, I., Fedorov, O., von Delft, F., Edwards, A.M., Arrowsmith, C.H., Bountra, C., Knapp, S., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2015-05-20
  Type: Initial release
  
• Version 1.1: 2024-05-08
  Changes: Data collection, Database references