9E3D

Cryo-EM structure of DNMT 3A2/3B3 tetramer in complex with a di-nucleosome with K120R mutant H2B

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A, E, I, M (A, E, M, Q)	Histone H3.2	polymer	135	15303.9	4	UniProt (Q71DI3) Pfam (PF00125)	Homo sapiens (human)	H3-clustered histone 13,H3-clustered histone 14,H3-clustered histone 15,Histone H3/m,Histone H3/o
2	B, F, J, N (B, F, N, R)	Histone H4	polymer	103	11394.4	4	UniProt (P62805) Pfam (PF15511)	Homo sapiens (human)
3	C, G, K, O (C, G, O, S)	Histone H2A	polymer	129	13978.2	4		Homo sapiens
4	D, H, L, P (D, H, P, T)	Histone H2B K120R	polymer	123	13684.0	4		Homo sapiens
5	Q (I)	DNA (320-MER)	polymer	320	99274.0	1		Homo sapiens
6	R (J)	DNA (320-MER)	polymer	320	98388.4	1		Homo sapiens
7	S, T (V, Z)	Isoform 3 of DNA (cytosine-5)-methyltransferase 3B	polymer	773	86702.4	2	UniProt (Q9UBC3) Pfam (PF00145) Pfam (PF00855) Pfam (PF17980) Pfam (PF21255)	Homo sapiens (human)	Dnmt3b,DNA methyltransferase HsaIIIB,DNA MTase HsaIIIB,M.HsaIIIB
8	U, V (U, Y)	DNA (cytosine-5)-methyltransferase 3A	polymer	689	77914.7	2	UniProt (Q9Y6K1) Pfam (PF00855) Pfam (PF17980) Pfam (PF21255) Pfam (PF00145)	Homo sapiens (human)	Dnmt3a,DNA methyltransferase HsaIIIA,M.HsaIIIA
9	AA, BA, DA, EA, FA... (U, Y, V)	ZINC ION	non-polymer		65.4	9	Chemie (ZN)
10	CA, GA (U, Y)	S-ADENOSYL-L-HOMOCYSTEINE	non-polymer		384.4	2	Chemie (SAH)

Sequence modifications

A, E, M, Q: 1 - 135 (UniProt: Q71DI3)

PDB	External Database	Details
Ala 102	Gly 103	conflict

V, Z: -2 - 770 (UniProt: Q9UBC3)

PDB	External Database	Details
Lys 391	-	insertion
Asp 392	-	insertion
Tyr 393	-	insertion

Contents of the asymmetric unit

Polymers	Number of chains	22
	Total formula weight	744338.8
Non-Polymers*	Number of molecules	11
	Total formula weight	1357.5
All*	Total formula weight	745696.3

*Water molecules are not included.