Design of a Cereblon construct for crystallographic and biophysical studies of protein degraders
Kroupova, A., Zollman, D., Ciulli, A.To be published.
Experimental Data Snapshot
Starting Models: experimental
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wwPDB Validation   3D Report Full Report
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Protein cereblon | A, D [auth C] | 329 | Homo sapiens | Mutation(s): 12  Gene Names: CRBN, AD-006 | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q96SW2 (Homo sapiens) Explore Q96SW2  Go to UniProtKB:  Q96SW2 | |||||
PHAROS:  Q96SW2 GTEx:  ENSG00000113851  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q96SW2 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 2 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Bromodomain-containing protein 4 | B, C [auth D] | 130 | Homo sapiens | Mutation(s): 0  Gene Names: BRD4, HUNK1 | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for O60885 (Homo sapiens) Explore O60885  Go to UniProtKB:  O60885 | |||||
PHAROS:  O60885 GTEx:  ENSG00000141867  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | O60885 | ||||
Sequence AnnotationsExpand | |||||
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Ligands 2 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
A1H2F (Subject of Investigation/LOI) Query on A1H2F | E [auth A], G [auth C] | (3~{S})-3-[7-[1-[7-[4-[6-(4-chlorophenyl)-1-methyl-spiro[[1,2,4]triazolo[4,3-a][1,4]benzodiazepine-4,1'-cyclopropane]-8-yl]pyrazol-1-yl]heptyl]piperidin-4-yl]-3-oxidanylidene-1~{H}-isoindol-2-yl]piperidine-2,6-dione C47 H50 Cl N9 O3 SDKKICDYRHTFNX-RWYGWLOXSA-N | |||
ZN Query on ZN | F [auth A], H [auth C] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |
Length ( Å ) | Angle ( ˚ ) |
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a = 43.882 | α = 96.44 |
b = 52.638 | β = 91.49 |
c = 130.348 | γ = 99.22 |
Software Name | Purpose |
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PHENIX | refinement |
xia2 | data reduction |
xia2.multiplex | data scaling |
PHASER | phasing |
Funding Organization | Location | Grant Number |
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Other private | -- |