6HJL | pdb_00006hjl

Affimer:BclxL

• PDB DOI: https://doi.org/10.2210/pdb6HJL/pdb

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens, synthetic construct
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-09-04 Released: 2020-03-18 
• Deposition Author(s): Miles, J.A., Trinh, C.H., Tomlinson, D.C., Wilson, A.J., Edwards, T.A.
• Funding Organization(s): Engineering and Physical Sciences Research Council

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.267 (Depositor), 0.267 (DCC) 
• R-Value Work: 
  0.215 (Depositor), 0.222 (DCC) 
• R-Value Observed: 
  0.218 (Depositor) 

Literature

Selective Affimers Recognize BCL-2 Family Proteins Through Non-Canonical Structural Motifs

Miles, J.A., Hobor, F., Taylor, J., Tiede, C., Rowell, P.R., Trinh, C.H., Jackson, J., Nadat, F., Kyle, H.F., Wicky, B.I.M., Clarke, J., Tomlinson, D.C., Wilson, A.J., Edwards, T.A.

(2020) bioRxiv 

• DOI: https://doi.org/10.1101/651364v1

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

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

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

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

Macromolecule Content 

• Total Structure Weight: 106.47 kDa 
• Atom Count: 7,707 
• Modeled Residue Count: 910 
• Deposited Residue Count: 912 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bcl-2-like protein 1	A	140	Homo sapiens	Mutation(s): 0  Gene Names: BCL2L1, BCL2L, BCLX
UniProt & NIH Common Fund Data Resources
Find proteins for Q07817 (Homo sapiens) Explore Q07817  Go to UniProtKB:  Q07817
PHAROS:  Q07817 GTEx:  ENSG00000171552

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Bcl-2-like protein 1	B, E, F	138	Homo sapiens	Mutation(s): 0  Gene Names: BCL2L1, BCL2L, BCLX
UniProt & NIH Common Fund Data Resources
Find proteins for Q07817 (Homo sapiens) Explore Q07817  Go to UniProtKB:  Q07817
PHAROS:  Q07817 GTEx:  ENSG00000171552

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Affimer ADB13	C, D, G [auth H]	90	synthetic construct	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Affimer ADB13	H [auth G]	88	synthetic construct	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.267 (Depositor), 0.267 (DCC) 
• R-Value Work:  0.215 (Depositor), 0.222 (DCC) 
• R-Value Observed: 0.218 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.27	α = 90
b = 87.29	β = 96.18
c = 112.18	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2020-03-18 
Deposition Author(s): Miles, J.A., Trinh, C.H., Tomlinson, D.C., Wilson, A.J., Edwards, T.A.

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Funding Organization	Location	Grant Number
Engineering and Physical Sciences Research Council	United Kingdom	EP/N013573/1

Revision History  

• Version 1.0: 2020-03-18
  Type: Initial release
  
• Version 1.1: 2024-05-15
  Changes: Data collection, Database references