Experimental structure
9Y4P
Cryo-EM structure of DNMT3A2/3B3 in complex with H3K36me2 di-nucleosome with eight base pair linker
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 |
|---|---|---|---|---|---|
| DNMT3A | U | ["a"] | UP:Q9Y6K1:PWWP1 | 59 / 59 | 0 |
| DNMT3A | V | ["c"] | UP:Q9Y6K1:PWWP1 | 59 / 59 | 0 |
| DNMT3A | Y | ["f"] | UP:Q9Y6K1:PWWP1 | 0 / 59 | 0 |
| DNMT3A | Z | ["d"] | UP:Q9Y6K1:PWWP1 | 0 / 59 | 0 |
| DNMT3B | S | ["b"] | UP:Q9UBC3:PWWP1 | 0 / 59 | 0 |
| DNMT3B | T | ["Z"] | UP:Q9UBC3:PWWP1 | 0 / 59 | 0 |
| DNMT3B | W | ["e"] | UP:Q9UBC3:PWWP1 | 0 / 59 | 0 |
| DNMT3B | X | ["g"] | UP:Q9UBC3:PWWP1 | 0 / 59 | 0 |
Chemical identity
Chemical components and interpretation
Geometry, with defined scope
Independent contact evidence
Inspect 22 retained contact records
| CCD / instance | Protein chain | Contact class | Minimum core / broader domain distance Å |
|---|---|---|---|
| SAH · GA | DNMT3A · U | noncore contact in multidomain chain | 51 / — |
| SAH · KA | DNMT3A · V | noncore contact in multidomain chain | 45.3 / — |
| SAH · RA | DNMT3A · Y | noncore contact in multidomain chain | — / — |
| SAH · VA | DNMT3A · Z | noncore contact in multidomain chain | — / — |
| ZN · AA | DNMT3B · S | noncore contact in multidomain chain | — / — |
| ZN · BA | DNMT3B · S | noncore contact in multidomain chain | — / — |
| ZN · CA | DNMT3B · S | noncore contact in multidomain chain | — / — |
| ZN · DA | DNMT3A · U | noncore contact in multidomain chain | 22 / — |
| ZN · EA | DNMT3A · U | noncore contact in multidomain chain | 15.5 / — |
| ZN · FA | DNMT3A · U | noncore contact in multidomain chain | 19.5 / — |
| ZN · HA | DNMT3A · V | noncore contact in multidomain chain | 35.8 / — |
| ZN · IA | DNMT3A · V | noncore contact in multidomain chain | 25 / — |
| ZN · JA | DNMT3A · V | noncore contact in multidomain chain | 22.8 / — |
| ZN · LA | DNMT3B · W | noncore contact in multidomain chain | — / — |
| ZN · MA | DNMT3B · W | noncore contact in multidomain chain | — / — |
| ZN · NA | DNMT3B · W | noncore contact in multidomain chain | — / — |
| ZN · OA | DNMT3A · Y | noncore contact in multidomain chain | — / — |
| ZN · PA | DNMT3A · Y | noncore contact in multidomain chain | — / — |
| ZN · QA | DNMT3A · Y | noncore contact in multidomain chain | — / — |
| ZN · SA | DNMT3A · Z | noncore contact in multidomain chain | — / — |
| ZN · TA | DNMT3A · Z | noncore contact in multidomain chain | — / — |
| ZN · UA | DNMT3A · Z | noncore contact in multidomain chain | — / — |
Biological partners
Histone H3 · histone or histone peptide · label chains ["A"]
Histone H4 · histone or histone peptide · label chains ["B","F","K","O"]
Histone H2A type 1 · histone or histone peptide · label chains ["C","G","L","P"]
Histone H2B 1.1 · histone or histone peptide · label chains ["D","H","M","Q"]
Histone H3.2 · histone or histone peptide · label chains ["E","J","N"]
DNA (321-MER) · nucleic acid · label chains ["I"]
DNA (321-MER) · nucleic acid · label chains ["R"]
Isoform 7 of DNA (cytosine-5)-methyltransferase 3B · protein/peptide · label chains ["S","T","W","X"]
DNA (cytosine-5)-methyltransferase 3A · protein/peptide · label chains ["U","V","Y","Z"]
Source interpretation
Focused scientific audit
This entry was included in all-entry coordinate/contact calculations but not in the 36-entry focused structural sample.