4r8p.1 | SWISS-MODEL Template Library

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SMTL ID : 4r8p.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.28 Å

Oligo State

hetero-2-2-2-2-2-2-mer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1:	4 residues within 4Å: Chain K: C.19, C.22, C.40, C.43 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.19, K:C.22, K:C.40, K:C.43
ZN.2:	5 residues within 4Å: Chain K: I.32, C.35, H.37, C.54, C.57 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.35, K:H.37, K:C.54, K:C.57
ZN.3:	4 residues within 4Å: Chain L: C.51, C.54, C.72, C.75 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:C.51, L:C.54, L:C.72, L:C.75
ZN.4:	5 residues within 4Å: Chain L: C.67, H.69, C.87, T.89, C.90 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:C.67, L:H.69, L:C.87, L:C.90
ZN.5:	4 residues within 4Å: Chain M: C.19, C.22, C.40, C.43 4 PLIP interactions: 4 interactions with chain M Metal complexes: M:C.19, M:C.22, M:C.40, M:C.43
ZN.6:	4 residues within 4Å: Chain M: C.35, H.37, C.54, C.57 4 PLIP interactions: 4 interactions with chain M Metal complexes: M:C.35, M:H.37, M:C.54, M:C.57
ZN.7:	5 residues within 4Å: Chain N: C.51, C.54, C.72, C.75, R.121 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:C.51, N:C.54, N:C.72, N:C.75
ZN.8:	5 residues within 4Å: Chain N: C.67, H.69, C.87, T.89, C.90 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:C.67, N:H.69, N:C.87, N:C.90

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

McGinty, R.K. et al., Crystal structure of the PRC1 ubiquitylation module bound to the nucleosome. Nature (2014)

Release Date

2014-11-05

Peptides

Histone H3.2: AE
Histone H4: BF
Histone H2A: CG
Histone H2B 1.1: DH
Polycomb complex protein BMI-1: KM
E3 ubiquitin-protein ligase RING2, Ubiquitin-conjugating enzyme E2 D3: LN

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
E

B
B

F
F

C
C

G
G

D
D

H
H

K
K

M
M

L
L

N
N

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Histone H3.2

Histone H4

Histone H2A

Histone H2B 1.1

Toggle Identical (DH)

Polycomb complex protein BMI-1

E3 ubiquitin-protein ligase RING2, Ubiquitin-conjugating enzyme E2 D3

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