4R8P

Crystal structure of the Ring1B/Bmi1/UbcH5c PRC1 ubiquitylation module bound to the nucleosome core particle

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A, E	Histone H3.2	polymer	135	15303.9	2	UniProt (P84233) Pfam (PF00125) In PDB	Xenopus laevis (clawed frog common platanna platanna)
2	B, F	Histone H4	polymer	102	11263.2	2	UniProt (P62799) Pfam (PF15511) In PDB	Xenopus laevis (clawed frog common platanna platanna)
3	C, G	Histone H2A	polymer	129	13978.2	2	UniProt (Q6AZJ8) Pfam (PF00125) Pfam (PF16211) UniProt (by SIFTS) (P06897) In PDB	Xenopus laevis (clawed frog common platanna platanna)
4	D, H	Histone H2B 1.1	polymer	122	13524.8	2	UniProt (P02281) Pfam (PF00125) In PDB	Xenopus laevis (clawed frog common platanna platanna)	H2B1.1
5	I	DNA (147-mer)	polymer	147	45138.8	1		Synthetic DNA
6	J	DNA (147-mer)	polymer	147	45610.0	1		Synthetic DNA
7	K, M	Polycomb complex protein BMI-1	polymer	110	12595.7	2	UniProt (P35226) Pfam (PF13923) In PDB	Homo sapiens (human)	Polycomb group RING finger protein 4, RING finger protein 51
8	L, N	E3 ubiquitin-protein ligase RING2, Ubiquitin-conjugating enzyme E2 D3	polymer	268	30118.6	2	UniProt (Q99496) UniProt (P61077) Pfam (PF13923) Pfam (PF00179) In PDB	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, Ubiquitin carrier protein D3, Ubiquitin-conjugating enzyme E2(17)KB 3, Ubiquitin-conjugating enzyme E2-17 kDa 3, Ubiquitin-protein ligase D3
9	K, L, M, N	ZINC ION	non-polymer		65.4	8	Chemie (ZN)

Sequence modifications

A, E: 1 - 135 (UniProt: P84233)

PDB	External Database	Details
Ala 102	Gly 103	conflict

D, H: 4 - 125 (UniProt: P02281)

PDB	External Database	Details
Thr 32	Ser 33	conflict

K, M: 2 - 109 (UniProt: P35226)

PDB	External Database	Details
Gly 0	-	expression tag
Ser 1	-	expression tag

L, N: 2 - 116 (UniProt: Q99496)

PDB	External Database	Details
Gly 1	-	expression tag
Gly 117	-	linker
Ser 118	-	linker
Gly 119	-	linker
Ser 120	-	linker
Arg 121	-	linker
Ser 122	-	linker

L, N: 202 - 347 (UniProt: P61077)

Contents of the asymmetric unit

Polymers	Number of chains	14
	Total formula weight	284317.9
Non-Polymers*	Number of molecules	8
	Total formula weight	523.3
All*	Total formula weight	284841.2

*Water molecules are not included.