6WA0

De novo designed receptor transmembrane domains enhance CAR-T cytotoxicity and attenuate cytokine release

PDB DOI: https://doi.org/10.2210/pdb6WA0/pdb

Classification: BIOSYNTHETIC PROTEIN
Organism(s): synthetic construct
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2020-03-24 Released: 2021-03-31
Deposition Author(s): Call, M.J., Call, M.E., Chandler, N.J., Nguyen, J.V., Trenker, R.
Funding Organization(s): National Health and Medical Research Council (NHMRC, Australia)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.48 Å
R-Value Free: 0.259
R-Value Work: 0.220
R-Value Observed: 0.224

wwPDB Validation 3D Report Full Report

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

Literature

De novo designed receptor transmembrane domains enhance CAR-T cytotoxicity and attenuate cytokine release

Elazar, A., Chandler, N.J., Davey, A.S., Weinstein, J.Y., Nguyen, J.V., Trenker, R., Jenkins, M., Call, M.J., Call, M.E., Fleishman, S.J.

To be published.

Macromolecule Content

Total Structure Weight: 31.28 kDa
Atom Count: 2,097
Modelled Residue Count: 268
Deposited Residue Count: 279
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
De novo designed receptor transmembrane domain proMP C3.1	A, B, C, D, E A, B, C, D, E, F, G, H, I	31	synthetic construct	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SCH Query on SCH	A, B, C, D, E A, B, C, D, E, F, G, H, I	L-PEPTIDE LINKING	C₄ H₉ N O₂ S₂		CYS

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.48 Å
R-Value Free: 0.259
R-Value Work: 0.220
R-Value Observed: 0.224
Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.159	α = 90
b = 96.159	β = 90
c = 79.299	γ = 120

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2021-03-31

Deposition Author(s):

Funding Organization	Location	Grant Number
National Health and Medical Research Council (NHMRC, Australia)	Australia	APP1158249

Revision History (Full details and data files)

Version 1.0: 2021-03-31
Type: Initial release
Version 1.1: 2023-10-18
Changes: Data collection, Database references, Refinement description

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.