5K29 | pdb_00005k29

Trypanosoma brucei bromodomain BDF5 (Tb427tmp.01.5000)

• PDB DOI: https://doi.org/10.2210/pdb5K29/pdb

• Classification: Structural Genomics, Unknown Function
• Organism(s): Trypanosoma brucei brucei TREU927
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2016-05-18 Released: 2016-07-13 
• Deposition Author(s): Lin, Y.H., Tempel, W., Walker, J.R., Loppnau, P., Amani, M., Hou, C.F.D., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Hui, R., Structural Genomics Consortium (SGC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.223 (Depositor), 0.232 (DCC) 
• R-Value Work: 
  0.191 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.194 (Depositor) 

Literature

Trypanosoma brucei bromodomain BDF5 (Tb427tmp.01.5000)

Lin, Y.H., Tempel, W., Walker, J.R., Loppnau, P., Amani, M., Hou, C.F.D., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Hui, R.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 28.24 kDa 
• Atom Count: 1,354 
• Modeled Residue Count: 183 
• Deposited Residue Count: 252 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
uncharacterized protein BDF5	A, B	126	Trypanosoma brucei brucei TREU927	Mutation(s): 0  Gene Names: Tb11.01.5000
UniProt
Find proteins for Q382J7 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1)) Explore Q382J7  Go to UniProtKB:  Q382J7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
UNX	C [auth A], D [auth B], E [auth B], F [auth B], G [auth B], H [auth B], I [auth B]	UNKNOWN ATOM OR ION X

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.223 (Depositor), 0.232 (DCC) 
• R-Value Work:  0.191 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.194 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M35K29

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.358	α = 90
b = 41.02	β = 111.39
c = 53.067	γ = 90

Software Package:

Software Name	Purpose
BUSTER-TNT	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
HKL-2000	data reduction
XDS	data scaling
BUCCANEER	model building
PHASER	phasing
SHELXDE	phasing
ARP	model building
WARP	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-07-13 
Deposition Author(s): Lin, Y.H., Tempel, W., Walker, J.R., Loppnau, P., Amani, M., Hou, C.F.D., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Hui, R., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2016-07-13
  Type: Initial release
  
• Version 1.1: 2016-11-02
  Changes: Structure summary
• Version 1.2: 2024-10-23
  Changes: Data collection, Database references, Derived calculations, Structure summary