Phase 6C.1 · Original deposited experimental coordinates

Comprehensive structure quality

Residue and heavy-atom completeness calculated directly from 230 source PDBx/mmCIF files, each verified against its frozen historical checksum. Each mapped PWWP chain/domain, NMR model and qualified source-supported ligand environment is tracked individually.

230Historically verified coordinate files

496Chain/domains with an observed PWWP core

283Source-supported ligand environments calculated

170Mapped chain/domains lacking observed core coordinates

Experimental-coordinate case studies

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9FOC · NSD2 PWWP1

Newly assessed ligand-bearing structure

Protein and bound ligand coordinates are deposited, but the literature's assayed compound 11 preparation remains stereochemically unresolved. Structural components do not fix that ambiguity.

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2M16 · PSIP1 PWWP

Deposited NMR ensemble

All model-specific atom observations are retained. Ensemble variation is not represented by a single first-model structure alone.

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11OA · DNMT3A PWWP1

Independently confirmed side-chain gaps

Five observed-core chains each lack 198 standard side-chain heavy atoms; 13 other mapped chains contain no observed core coordinates.

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All 666 original chain/domain mappings

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666 matching chain/domain records. Filters must be satisfied by the same experimental chain/domain. Model-specific assessment is available within each detail record.

PDB · chain	Target/domain	Core observed	Experiment	Missing side-chain atoms	Backbone gaps	Research ligand environments	Assessment
4LD6 · A	PWWP2B PWWP1	61 / 61	X-RAY DIFFRACTION · 1.7 Å	0	0	0	atomic completeness calculated
4N4G · A	Zmynd11 PWWP1	52 / 52	X-RAY DIFFRACTION · 1.947 Å	0	0	0	atomic completeness calculated
4N4H · A	Zmynd11 PWWP1	52 / 52	X-RAY DIFFRACTION · 2.302 Å	0	0	0	atomic completeness calculated
4N4I · A	Zmynd11 PWWP1	52 / 52	X-RAY DIFFRACTION · 1.999 Å	0	0	0	atomic completeness calculated
4NS5 · A	ZMYND11 PWWP1	52 / 52	X-RAY DIFFRACTION · 1.9 Å	0	0	0	atomic completeness calculated
4RXJ · A	NSD3 PWWP2	63 / 63	X-RAY DIFFRACTION · 2.1 Å	18	0	0	atomic completeness calculated
4Z02 · A	BRD1 PWWP1	84 / 84	X-RAY DIFFRACTION · 1.87 Å	18	1	1	atomic completeness calculated
4Z02 · B	BRD1 PWWP1	69 / 84	X-RAY DIFFRACTION · 1.87 Å	28	0	1	atomic completeness calculated
5B73 · A	ZMYND8 PWWP1	51 / 51	X-RAY DIFFRACTION · 1.8 Å	0	0	0	atomic completeness calculated
5C6S · A	BRPF1 PWWP1	84 / 84	X-RAY DIFFRACTION · 1.3 Å	14	0	1	atomic completeness calculated
5CIU · A	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.24 Å	4	0	0	atomic completeness calculated
5CIU · B	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.24 Å	5	0	0	atomic completeness calculated
5NR3 · A	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.3 Å	0	0	1	atomic completeness calculated
5NR3 · B	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.3 Å	0	0	1	atomic completeness calculated
5NRR · A	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 1.7 Å	0	0	1	atomic completeness calculated
5NRR · B	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 1.7 Å	0	0	1	atomic completeness calculated
5NRS · A	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.3 Å	0	0	1	atomic completeness calculated
5NRS · B	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.3 Å	0	0	1	atomic completeness calculated
5NRV · A	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.075 Å	0	0	1	atomic completeness calculated
5NRV · B	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.075 Å	0	0	1	atomic completeness calculated
5NV0 · A	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.399 Å	0	0	1	atomic completeness calculated
5NV0 · B	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.399 Å	0	0	1	atomic completeness calculated
5NV2 · A	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.029 Å	0	0	1	atomic completeness calculated
5NV2 · B	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.029 Å	0	0	1	atomic completeness calculated
5NV7 · A	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.568 Å	0	0	1	atomic completeness calculated
5NV7 · B	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.568 Å	0	0	1	atomic completeness calculated
5NVO · A	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.4 Å	0	0	1	atomic completeness calculated
5NVO · B	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.4 Å	0	0	1	atomic completeness calculated
5VC8 · A	NSD2 PWWP1	60 / 65	X-RAY DIFFRACTION · 1.8 Å	10	0	0	atomic completeness calculated with chemistry limitations
5VC8 · B	NSD2 PWWP1	65 / 65	X-RAY DIFFRACTION · 1.8 Å	17	0	0	atomic completeness calculated with chemistry limitations
5XSK · C	Hdgf PWWP1	58 / 58	X-RAY DIFFRACTION · 2.84 Å	0	0	0	atomic completeness calculated
5XSK · D	Hdgf PWWP1	58 / 58	X-RAY DIFFRACTION · 2.84 Å	0	0	0	atomic completeness calculated
5XSL · A	Hdgf PWWP1	55 / 58	X-RAY DIFFRACTION · 3.3 Å	0	0	0	atomic completeness calculated
5Y1Z · C	ZMYND8 PWWP1	51 / 51	X-RAY DIFFRACTION · 2.676 Å	23	0	0	atomic completeness calculated
5Y1Z · D	ZMYND8 PWWP1	51 / 51	X-RAY DIFFRACTION · 2.676 Å	6	0	0	atomic completeness calculated
6G24 · A	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 2.1 Å	0	0	1	atomic completeness calculated
6G25 · A	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 1.432 Å	0	0	1	atomic completeness calculated
6G27 · A	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 1.65 Å	0	0	1	atomic completeness calculated
6G29 · A	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 1.7 Å	0	0	1	atomic completeness calculated
6G2B · A	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 1.61 Å	0	0	1	atomic completeness calculated
6G2C · A	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 1.76 Å	0	0	1	atomic completeness calculated
6G2E · A	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 1.85 Å	0	0	1	atomic completeness calculated
6G2F · A	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 1.74 Å	0	0	1	atomic completeness calculated
6G2O · A	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 1.81 Å	0	0	1	atomic completeness calculated
6G3P · A	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 2.8 Å	0	0	0	atomic completeness calculated with chemistry limitations
6G3P · B	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 2.8 Å	0	0	0	atomic completeness calculated with chemistry limitations
6G3P · C	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 2.8 Å	0	0	0	atomic completeness calculated with chemistry limitations
6G3P · D	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 2.8 Å	0	0	0	atomic completeness calculated with chemistry limitations
6G3T · A	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 2.53 Å	0	0	0	atomic completeness calculated
6G3T · B	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 2.53 Å	0	0	0	atomic completeness calculated
6G3T · C	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 2.53 Å	0	0	0	atomic completeness calculated
6G3T · D	NSD3 PWWP1	64 / 64	X-RAY DIFFRACTION · 2.53 Å	0	0	0	atomic completeness calculated
6IIP · A	HDGFL3 PWWP1	58 / 58	X-RAY DIFFRACTION · 0.951 Å	0	0	0	atomic completeness calculated
6IIP · B	HDGFL3 PWWP1	58 / 58	X-RAY DIFFRACTION · 0.951 Å	0	0	0	atomic completeness calculated
6IIQ · A	HDGFL3 PWWP1	58 / 58	X-RAY DIFFRACTION · 1.85 Å	0	0	0	atomic completeness calculated
6IIQ · B	HDGFL3 PWWP1	58 / 58	X-RAY DIFFRACTION · 1.85 Å	0	0	0	atomic completeness calculated
6IIQ · C	HDGFL3 PWWP1	58 / 58	X-RAY DIFFRACTION · 1.85 Å	0	0	0	atomic completeness calculated
6IIR · A	HDGFL3 PWWP1	58 / 58	X-RAY DIFFRACTION · 2.2 Å	0	0	0	atomic completeness calculated
6IIR · B	HDGFL3 PWWP1	58 / 58	X-RAY DIFFRACTION · 2.2 Å	0	0	0	atomic completeness calculated
6IIS · A	HDGFL3 PWWP1	58 / 58	X-RAY DIFFRACTION · 2.358 Å	0	0	0	atomic completeness calculated
6IIS · B	HDGFL3 PWWP1	58 / 58	X-RAY DIFFRACTION · 2.358 Å	0	0	0	atomic completeness calculated
6IIT · A	HDGFL3 PWWP1	58 / 58	X-RAY DIFFRACTION · 2.1 Å	0	0	0	atomic completeness calculated
6IIT · B	HDGFL3 PWWP1	58 / 58	X-RAY DIFFRACTION · 2.1 Å	0	0	0	atomic completeness calculated
6KCO · A	Jasper PWWP1	52 / 52	X-RAY DIFFRACTION · 2.4 Å	10	0	0	atomic completeness calculated
6KCO · B	Jasper PWWP1	52 / 52	X-RAY DIFFRACTION · 2.4 Å	10	0	0	atomic completeness calculated
6KCO · C	Jasper PWWP1	50 / 52	X-RAY DIFFRACTION · 2.4 Å	0	0	0	atomic completeness calculated
6KCO · D	Jasper PWWP1	51 / 52	X-RAY DIFFRACTION · 2.4 Å	0	0	0	atomic completeness calculated
6KCO · E	Jasper PWWP1	51 / 52	X-RAY DIFFRACTION · 2.4 Å	7	0	0	atomic completeness calculated
6KCO · F	Jasper PWWP1	51 / 52	X-RAY DIFFRACTION · 2.4 Å	0	0	0	atomic completeness calculated
6KCO · G	Jasper PWWP1	50 / 52	X-RAY DIFFRACTION · 2.4 Å	0	0	0	atomic completeness calculated
6KCO · H	Jasper PWWP1	50 / 52	X-RAY DIFFRACTION · 2.4 Å	0	0	0	atomic completeness calculated
6KCO · I	Jasper PWWP1	50 / 52	X-RAY DIFFRACTION · 2.4 Å	0	0	0	atomic completeness calculated
6KCO · J	Jasper PWWP1	50 / 52	X-RAY DIFFRACTION · 2.4 Å	4	0	0	atomic completeness calculated
6KCO · K	Jasper PWWP1	50 / 52	X-RAY DIFFRACTION · 2.4 Å	0	0	0	atomic completeness calculated
6KCO · L	Jasper PWWP1	50 / 52	X-RAY DIFFRACTION · 2.4 Å	0	0	0	atomic completeness calculated
6KCO · M	Jasper PWWP1	52 / 52	X-RAY DIFFRACTION · 2.4 Å	0	0	0	atomic completeness calculated
6KCO · N	Jasper PWWP1	51 / 52	X-RAY DIFFRACTION · 2.4 Å	3	0	0	atomic completeness calculated
6KCO · O	Jasper PWWP1	50 / 52	X-RAY DIFFRACTION · 2.4 Å	4	0	0	atomic completeness calculated
6KCO · P	Jasper PWWP1	50 / 52	X-RAY DIFFRACTION · 2.4 Å	3	0	0	atomic completeness calculated
6KCP · A	Jasper PWWP1	52 / 52	X-RAY DIFFRACTION · 1.8 Å	0	0	0	atomic completeness calculated
6KCP · B	Jasper PWWP1	52 / 52	X-RAY DIFFRACTION · 1.8 Å	0	0	0	atomic completeness calculated
6KCP · C	Jasper PWWP1	50 / 52	X-RAY DIFFRACTION · 1.8 Å	0	0	0	atomic completeness calculated
6KCP · E	Jasper PWWP1	52 / 52	X-RAY DIFFRACTION · 1.8 Å	0	0	0	atomic completeness calculated
6KCU · A	Jasper PWWP1	52 / 52	X-RAY DIFFRACTION · 1.65 Å	0	0	0	atomic completeness calculated
6KD6 · A	Jasper PWWP1	50 / 52	X-RAY DIFFRACTION · 1.58 Å	0	0	0	atomic completeness calculated
6KD6 · B	Jasper PWWP1	51 / 52	X-RAY DIFFRACTION · 1.58 Å	0	0	0	atomic completeness calculated
6KD6 · C	Jasper PWWP1	50 / 52	X-RAY DIFFRACTION · 1.58 Å	0	0	0	atomic completeness calculated
6KD6 · D	Jasper PWWP1	49 / 52	X-RAY DIFFRACTION · 1.58 Å	0	0	0	atomic completeness calculated
6L87 · A	ARID4A PWWP1	92 / 93	SOLUTION NMR · 20 models	0	0	0	atomic completeness calculated
6OQM · A	MSH6 PWWP1	63 / 63	X-RAY DIFFRACTION · 2.2 Å	7	0	0	atomic completeness calculated
6PA7 · K	DNMT3A PWWP1	0 / 59	ELECTRON MICROSCOPY · 2.94 Å	Core not observed	0	0	domain not observed in deposit
6PA7 · L	DNMT3B PWWP1	0 / 59	ELECTRON MICROSCOPY · 2.94 Å	Core not observed	0	0	domain not observed in deposit
6PA7 · M	DNMT3A PWWP1	0 / 59	ELECTRON MICROSCOPY · 2.94 Å	Core not observed	0	0	domain not observed in deposit
6PA7 · N	DNMT3B PWWP1	0 / 59	ELECTRON MICROSCOPY · 2.94 Å	Core not observed	0	0	domain not observed in deposit
6R3E · A	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.269 Å	0	0	1	atomic completeness calculated
6R3E · B	DNMT3B PWWP1	59 / 59	X-RAY DIFFRACTION · 2.269 Å	0	0	0	atomic completeness calculated
6S01 · K	PSIP1 PWWP1	59 / 64	ELECTRON MICROSCOPY · 3.2 Å	0	1	0	atomic completeness calculated
6UE6 · A	NSD2 PWWP1	62 / 65	X-RAY DIFFRACTION · 2.4 Å	19	0	2	atomic completeness calculated
6UE6 · B	NSD2 PWWP1	65 / 65	X-RAY DIFFRACTION · 2.4 Å	25	0	2	atomic completeness calculated
6UE6 · C	NSD2 PWWP1	62 / 65	X-RAY DIFFRACTION · 2.4 Å	12	2	2	atomic completeness calculated

Reproducible scientific exports

Individual experimental mmCIF files are verified by their original SHA-256. Core coordinates, standard heavy-atom templates and source UniProt mappings are analyzed model-by-model. Union-of-alternates and conformer-consistent completeness are distinct; 5 Å and 6 Å geometric proximity are not equivalent to a validated interaction.

NMR and model assessments Ligand environment evidence Contact residue distances Coordinate provenance Calculation manifest