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

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)

wwPDB Validation 3D Report Full Report

Validation slider image for 6HJL

This is version 1.1 of the entry. See complete history.

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

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

Find similar proteins by:

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 Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q07817
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

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 Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q07817
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

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

Find similar proteins by:

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

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2020-03-18

Deposition Author(s):

Tomlinson, D.C.

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

Revision History (Full details and data files)

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

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.