Phase 6C · Actual deposited atom evidence
Experimental structure quality
Which PWWP regions have observed heavy atoms and experimentally defined ligand environments? Inspect the provenance, missing residues, and local contact limitations without generating receptor models or binding predictions.
Authoritative experimental observations
Source-supported pocket context
6G2O · NSD3 PWWP1
Observed EJE environment
One source-tagged experimental research ligand and a locally complete observed annotation core. Residue/ligand contacts are independently recalculated.
6XCG · NSD2 PWWP1
Three V01 ligand instances
Distinct deposited ligand instances and protein chains are retained. Local alternative-conformer and partial-occupancy annotations are visible separately.
11OA · DNMT3A PWWP1
Side-chain coordinate gap
Five observed cores contain 990 missing standard side-chain heavy atoms. Thirteen other mapped chains have no observed PWWP-core coordinates.
Directly calculated from the bundled coordinates
Measured structural differences
All 666 chain/domain records
Structural-quality inventory
666 matching chain/domain records. Filters apply to the same assessed row, not a mixture of unrelated structures. Displaying up to 100 records per page.
| PDB / label chain | Protein/domain | Core Cα | Original experiment | Observed missing side-chain atoms | Local research ligands | Processing | Receptor assessment |
|---|---|---|---|---|---|---|---|
| 9KNA · A | NSD2 PWWP1 | 62 / 65 | X-RAY DIFFRACTION · 2.92 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9KNA · B | NSD2 PWWP1 | 62 / 65 | X-RAY DIFFRACTION · 2.92 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9KNB · A | NSD2 PWWP1 | 59 / 65 | X-RAY DIFFRACTION · 1.84 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9LQ1 · A | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.36 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9LQ1 · D | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.36 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MP0 · A | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.66 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MP0 · B | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.66 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MP0 · C | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.66 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MP0 · D | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.66 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MP0 · E | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.66 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MP0 · F | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.66 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MP0 · G | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.66 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MP0 · H | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.66 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MPO · A | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.62 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MPO · B | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.62 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MPO · C | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.62 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MPO · D | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.62 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MPO · E | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.62 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MPO · F | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.62 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MPP · K | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.1 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9MPP · M | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.1 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9PRW · A | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.66 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9PRW · D | DNMT3A PWWP1 | 59 / 59 | ELECTRON MICROSCOPY · 3.66 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Q7U · K | DNMT3B PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.4 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Q7U · L | DNMT3B PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.4 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Q7U · M | DNMT3A PWWP1 | 59 / 59 | ELECTRON MICROSCOPY · 3.4 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Q7U · N | DNMT3A PWWP1 | 59 / 59 | ELECTRON MICROSCOPY · 3.4 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S28 · Q | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S28 · R | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S28 · S | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S28 · T | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S28 · U | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S28 · V | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S28 · W | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S28 · X | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S28 · Y | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S28 · Z | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S29 · AA | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S29 · BA | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S29 · CA | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S29 · DA | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S29 · EA | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S29 · FA | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S29 · K | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S29 · L | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S29 · M | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S29 · N | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S29 · O | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S29 · P | PSIP1 PWWP1 | 0 / 64 | ELECTRON MICROSCOPY · 2.8 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S81 · A | PSIP1 PWWP1 | 61 / 64 | X-RAY DIFFRACTION · 1.63 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S81 · B | PSIP1 PWWP1 | 55 / 64 | X-RAY DIFFRACTION · 1.63 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S81 · C | PSIP1 PWWP1 | 54 / 64 | X-RAY DIFFRACTION · 1.63 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9S83 · B | PSIP1 PWWP1 | 63 / 64 | X-RAY DIFFRACTION · 2.1 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9T2F · A | ZMYND8 PWWP1 | 51 / 51 | X-RAY DIFFRACTION · 1.68 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9T2G · A | ZMYND8 PWWP1 | 51 / 51 | X-RAY DIFFRACTION · 1.66 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9XYC · K | PSIP1 PWWP1 | 58 / 64 | ELECTRON MICROSCOPY · 3.5 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Y4P · S | DNMT3B PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.84 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Y4P · T | DNMT3B PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.84 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Y4P · U | DNMT3A PWWP1 | 59 / 59 | ELECTRON MICROSCOPY · 3.84 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Y4P · V | DNMT3A PWWP1 | 59 / 59 | ELECTRON MICROSCOPY · 3.84 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Y4P · W | DNMT3B PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.84 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Y4P · X | DNMT3B PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.84 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Y4P · Y | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.84 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Y4P · Z | DNMT3A PWWP1 | 0 / 59 | ELECTRON MICROSCOPY · 3.84 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Y60 · A | NSD2 PWWP1 | 65 / 65 | X-RAY DIFFRACTION · 2.023 Å | Not assessed | 0 | coordinates not packaged | not assessed |
| 9Y61 · A | NSD2 PWWP1 | 65 / 65 | ELECTRON MICROSCOPY · 3.1 Å | Not assessed | 0 | coordinates not packaged | not assessed |
Methods, receptor qualifications & downloads
One independent Gemmi parse checked first-model experimental protein atoms against the earlier Biopython results. Atom-name completeness uses the mmCIF's own standard amino-acid component definitions, excludes hydrogens, and never interprets missing coordinates as chemical inactivity. Ligand–residue geometric contacts use a declared 5 Å primary cutoff with sensitivity analyses, and are not hydrogen bonds, binding energies or density validation.