9DBY

ncPRC1RYBP bound to singly modified H2AK119Ub nucleosome

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A, E (A, E)	Histone H3.2	polymer	136	15435.1	2	UniProt (P84233) Pfam (PF00125)	Xenopus laevis (African clawed frog)	Histone H3
2	B, F (B, F)	Histone H4	polymer	103	11394.4	2	UniProt (P62799) Pfam (PF15511)	Xenopus laevis (African clawed frog)
3	C (C)	Histone H2A type 1	polymer	130	14093.4	1	UniProt (P06897) Pfam (PF00125) Pfam (PF16211)	Xenopus laevis (African clawed frog)
4	D, H (D, H)	Histone H2B 1.1	polymer	126	13979.3	2	UniProt (P02281) Pfam (PF00125)	Xenopus laevis (African clawed frog)
5	G (G)	Histone H2A type 1	polymer	130	14067.4	1	UniProt (P06897) Pfam (PF00125) Pfam (PF16211)	Xenopus laevis (African clawed frog)
6	I (I)	DNA (187-MER)	polymer	187	57982.9	1		synthetic construct
7	J (J)	DNA (187-MER)	polymer	187	57488.6	1		synthetic construct
8	K (K)	Polycomb complex protein BMI-1	polymer	326	37006.1	1	UniProt (P35226) Pfam (PF13923) Pfam (PF16207)	Homo sapiens (human)	Polycomb group RING finger protein 4,RING finger protein 51
9	L (L)	E3 ubiquitin-protein ligase RING2	polymer	336	37706.4	1	UniProt (Q99496) Pfam (PF13923) Pfam (PF16207)	Homo sapiens (human)	Huntingtin-interacting protein 2-interacting protein 3,HIP2-interacting protein 3,Protein DinG,RING finger protein 1B,RING1b,RING finger protein 2,RING finger protein BAP-1,RING-type E3 ubiquitin transferase RING2
10	M (M)	RING1 and YY1-binding protein	polymer	228	24863.6	1	UniProt (Q8N488) Pfam (PF00641) Pfam (PF17219)	Homo sapiens (human)	Apoptin-associating protein 1,APAP-1,Death effector domain-associated factor,DED-associated factor,YY1 and E4TF1-associated factor 1
11	N (N)	Ubiquitin	polymer	76	8622.9	1	UniProt (P0CG47) Pfam (PF00240) UniProt (by SIFTS) (P0CG48)	Homo sapiens (human)
12	O, P, Q, R, S (K, L, M)	ZINC ION	non-polymer		65.4	5	Chemie (ZN)

Sequence modifications

A, E: 0 - 135 (UniProt: P84233)

PDB	External Database	Details
Ala 102	Gly 103	engineered mutation

C: 0 - 129 (UniProt: P06897)

PDB	External Database	Details
Arg 99	Gly 100	engineered mutation

D, H: -3 - 122 (UniProt: P02281)

PDB	External Database	Details
Thr 29	Ser 33	engineered mutation

G: 0 - 129 (UniProt: P06897)

PDB	External Database	Details
Arg 99	Gly 100	engineered mutation
Cys 118	Lys 119	engineered mutation

N: 1 - 76 (UniProt: P0CG47)

PDB	External Database	Details
Cys 76	Gly 76	engineered mutation

Contents of the asymmetric unit

Polymers	Number of chains	14
	Total formula weight	333449.0
Non-Polymers*	Number of molecules	5
	Total formula weight	327.0
All*	Total formula weight	333776.0

*Water molecules are not included.