KEY RESOURCES TABLE
| REAGENT OR RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Bacterial and virus strains | ||
| BL21 pLysS | Thermo Fisher Scientific | Cat#: C606010 |
| DH5alpha | New England Biolabs | Cat#: C2987H |
| Ominimax | Homemade | N/A |
| Rosetta (DE3) | Homemade | N/A |
| MAX Efficiency™ DH10Bac Competent Cells | Thermo Fisher Scientific | Cat#: 10361012 |
| DH10Bac Competent Cells | Homemade | N/A |
| Chemicals, peptides, and recombinant proteins | ||
| Glutaraldehyde solution | Sigma-Aldrich | Cat#: G7651 |
| BS3 (bis(sulfosuccinimidyl)suberate) | Thermo Fisher Scientific | Cat#: A39266 |
| S-Adenosylhomocysteine (SAH) | Cayman Chemical | Item No. 13603 |
| S-adenosylmethionine (SAM) | New England Biolabs | Cat#: B9003S |
| Histone H3 (1–20) - 1 mg | AnaSpec | Cat#: AS-62753 |
| Human H3K36me2 Histone | KS-V Peptide | Cat#: H3111 |
| Xenopus H3 K36me3 C110A (trimethylated K36) | The Histone Source at Colorado State University | Cat#: XH3_K36me3 |
| Xenopus H2B | The Histone Source at Colorado State University | Cat#: XH2B |
| Xenopus H4 | The Histone Source at Colorado State University | Cat#: XH4 |
| MTase-Glo™ Methyltransferase Assay | Promega | Cat#: V7601 |
| Deposited data | ||
| Composite structure of DNMT3A2/3B3-10n8n10-dinucleosome complex | This work | EMD-47344 PDB: 9E00 |
| Upper DNMT tetramer structure of DNMT3A2/3B3-10n8n10-dinucleosome complex | This work | EMD-47354 PDB: 9E0F |
| Lower DNMT tetramer structure of DNMT3A2/3B3-10n8n10-dinucleosome complex | This work | EMD-47355 PDB: 9E0G |
| Upper nucleosome structure of DNMT3A2/3B3-10n8n10-dinucleosome complex | This work | EMD-47367 PDB: 9E0R |
| Lower nucleosome structure of DNMT3A2/3B3-10n8n10-dinucleosome complex | This work | EMD-47353 PDB: 9E09 |
| Consensus structure of DNMT3A2/3B3-10n8n10dinucleosome complex | This work | EMD-47349 PDB: 9E05 |
| Consensus structure of DNMT3A2/3B3-10n5n10-dinucleosome complex | This work | EMD-47448 PDB: 9E2D |
| Consensus structure of 10n5n10-dinucleosome alone | This work | EMD-47450 PDB: 9E2F |
| Consensus structure of DNMT3A2/3B3-10n6n10-dinucleosome complex | This work | EMD-47461 PDB: 9E2Q |
| Consensus structure of DNMT3A2/3B3-10n8n10-dinucleosome -H3(1–20) complex | This work | EMD-47462 PDB: 9E2R |
| Consensus structure of DNMT3A2/3B3DPWWP - 10n8n10-dinucleosome complex | This work | EMD-47495 PDB: 9E3R |
| Consensus structure of DNMT3A2/3B3-10n25n10-dinucleosome complex | This work | EMD-47496 PDB: 9E3U |
| Consensus structure of 10n8n10-dinucleosome alone | This work | EMD-47499 PDB: 9E49 |
| Consensus structure of DNMT3A2/3B3-10n8n10-H3K36me2-dinucleosome complex | This work | EMD: 71604 |
| Upper Nuc. and PWWP structure of DNMT3A2/3B3-10n8n10-H3K36me2-dinucleosome complex | This work | EMD: 71609 |
| Upper Nucleosome structure of DNMT3A2/3B3-10n8n10-H3K36me2-dinucleosome complex | This work | EMD: 71607 |
| Lower Nucleosome structure of DNMT3A2/3B3-10n8n10-H3K36me2-dinucleosome complex | This work | EMD: 71608 |
| Upper DNMT tetramer structure of DNMT3A2/3B3-10n8n10-H3K36me2-dinucleosome complex | This work | EMD: 71605 |
| Lower DNMT tetramer structure of DNMT3A2/3B3-10n8n10-H3K36me2-dinucleosome complex | This work | EMD: 71606 |
| Composite structure of DNMT3A2/3B3-10n8n10-H3K36me2-dinucleosome complex | This work | EMD: 72487 PDB: 9Y4P |
| Consensus structure of DNMT3A2/3B3-H3K36me2-mononucleosome complex | This work | EMD: 71301 |
| Nucleosome structure of DNMT3A2/3B3-H3K36me2-mononucleosome complex | This work | EMD: 71306 |
| DNMT tetramer structure of DNMT3A2/3B3-H3K36me2-mononucleosome complex | This work | EMD: 71302 |
| PWWP1 structure of DNMT3A2/3B3-H3K36me2-mononucleosome complex | This work | EMD: 71304 |
| PWWP2 structure of DNMT3A2/3B3-H3K36me2-mononucleosome complex | This work | EMD: 71305 |
| Composite structure of DNMT3A2/3B3-H3K36me2-mononucleosome complex | This work | EMD: 72318 PDB: 9Q7U |
| Unprocessed gel images | Mendeley data | DOI: 10.17632/hcj5zyc3kp.1 |
| Experimental models: Cell lines | ||
| SF9 insect cells | Thermo Fisher | Cat#: 11496015 |
| Oligonucleotides | ||
| GAAGACCTCAACGGCCGCCACAGGATGTATATATC | This work | 167_BbsI F |
| GAAGACAGACCAGGCCGCCCTGGAGAATCCCGGTG | This work | 167_BbsI R |
| GATAGATAGTTGTTGAATTAATGGGATT | This work | Bisulfite sequencing F |
| CTTCATCTTACCAACCAATTAAACAA | This work | Bisulfite sequencing R |
| ATCGGCCGCCCTGGAGAATCC | This work | 167_F |
| ATCGGCCGCCACAGGATGTATATATC | This work | 167_R |
| Recombinant DNA | ||
| pEWL1 | This work; GenScript | N/A |
| pEWL2 | This work; GenScript | N/A |
| pEWL3 | This work; GenScript | N/A |
| pEWL4 | This work; GenScript | N/A |
| pEWL5 | This work; GenScript | N/A |
| pEWL6 | This work; GenScript | N/A |
| pEWL7 | This work; GenScript | N/A |
| pEWL8 | This work; GenScript | N/A |
| pEWL9 | This work; GenScript | N/A |
| pEWL10 | This work; GenScript | N/A |
| pEWL11 | This work; GenScript | N/A |
| pEWL12 | This work; GenScript | N/A |
| pEWL13 | This work; GenScript | N/A |
| pEWL14 | Xu et al. (2020)13 | N/A |
| pEWL15 | This work | N/A |
| pEWL16 | Xu et al. (2020)13 | N/A |
| pEWL17 | This work | N/A |
| pEWL18 | Xu et al. (2020)13 | N/A |
| Software and algorithms | ||
| CryoSPARC | Punjani et al. (2017)54 | RRID:SCR_016501 |
| PHENIX | Adams et al. (2010)55 | RRID:SCR_014224 |
| COOT | Emsley et al. (2004)56 | RRID:SCR_014222 |
| BISulfite-seq CUI Toolkit (BISCUIT) | https://huishenlab.github.io/biscuit/ | N/A |
| UCSF ChimeraX | Goddard et. al. (2018)57 | RRID:SCR_015872 |
| GraphPad Prism 10 | https://www.graphpad.com | RRID:SCR_000306 |
| R (v4.3.1) | https://www.r-project.org/ | RRID:SCR_001905 |
| LUMICKS Bluelake software version 1.6.16 | https://lumicks.github.io/bluelakeapi/1.6.16/index.html | N/A |