6O8D
Anti-CD28xCD3 CODV Fab bound to CD28
- PDB DOI: https://doi.org/10.2210/pdb6O8D/pdb
- Classification: IMMUNE SYSTEM
- Organism(s): Homo sapiens
- Expression System: Homo sapiens
- Mutation(s): No 
- Deposited: 2019-03-09 Released: 2019-11-20 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 3.55 Å
- R-Value Free: 0.356 
- R-Value Work: 0.272 
- R-Value Observed: 0.281 
This is version 2.1 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
T-cell-specific surface glycoprotein CD28 | A [auth C] | 126 | Homo sapiens | Mutation(s): 0  Gene Names: CD28 | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P10747 (Homo sapiens) Explore P10747  Go to UniProtKB:  P10747 | |||||
PHAROS:  P10747 GTEx:  ENSG00000178562  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P10747 | ||||
Sequence AnnotationsExpand | |||||
|
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Anti-CD28xCD3 CODV Fab Light chain | B [auth L] | 338 | Homo sapiens | Mutation(s): 0  | |
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
|
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Anti-CD28xCD3 CODV Fab Heavy chain | C [auth H] | 358 | Homo sapiens | Mutation(s): 0  | |
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
|
Oligosaccharides
Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | E [auth C] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 3.55 Å
- R-Value Free: 0.356 
- R-Value Work: 0.272 
- R-Value Observed: 0.281 
- Space Group: C 1 2 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 153.14 | α = 90 |
b = 60.139 | β = 104.04 |
c = 152.558 | γ = 90 |
Software Name | Purpose |
---|---|
PHENIX | refinement |
Aimless | data scaling |
PDB_EXTRACT | data extraction |
XDS | data reduction |
PHASER | phasing |
Entry History 
Deposition Data
- Released Date: 2019-11-20  Deposition Author(s): Lord, D.M., Wei, R.R.
Revision History (Full details and data files)
- Version 1.0: 2019-11-20
Type: Initial release - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2023-10-11
Changes: Data collection, Database references, Refinement description, Structure summary