Experimental structure
9Y61
Cryo-EM structure of ternary complex NSD2-PWWP1:CRBN:DDB1 in complex with NSD2-LDD, an LDD degrader
Original coordinates
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Original coordinates are available from a locally verified historical archive or the bundled source and load on request.
Coordinate coverage
Mapped chains
Label and author chain identifiers are kept separately. Observed Cα counts refer to each mapped annotation core.
| Protein | Label chain | Author chain | Domain | Observed Cα / core | Observed substitutions |
|---|---|---|---|---|---|
| NSD2 | A | ["A"] | UP:O96028:PWWP1 | 65 / 65 | 0 |
Chemical identity
Chemical components and interpretation
| CCD | Name | Role | Full InChIKey |
|---|---|---|---|
| A1CSQ | 1-(5-{9-[(4-{2-[(2S,3R)-2-(3,5-dichloro-4-fluorophenyl)-5-oxomorpholin-3-yl]ethyl}piperazin-1-yl)methyl]-3-azaspiro[5.5]undecane-3-carbonyl}-2-methylphenyl)-1,3-diazinane-2,4-dione | experimentally studied degrader functional | LDKYLKMCPUFNTL-PJTQZDKOSA-N |
| ZN | ZINC ION | ion/cofactor_requires_context incidental | PTFCDOFLOPIGGS-UHFFFAOYSA-N |
Geometry, with defined scope
Independent contact evidence
Inspect 1 retained contact records
| CCD / instance | Protein chain | Contact class | Minimum core / broader domain distance Å |
|---|---|---|---|
| A1CSQ · C | NSD2 · A | native annotation core contact | 3.08 / 2.9 |
Biological partners
Protein cereblon · protein/peptide · label chains ["B"]
Source interpretation
Focused scientific audit
retain with stated interpretation/caveats. Complex supported by polymer and degrader contacts. The same deposit also contains a compound; mutually exclusive folder placement is a display choice, not mutually exclusive biology.