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SMTL ID : 9dby.1

ncPRC1RYBP bound to singly modified H2AK119Ub nucleosome

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-1-2-1-1-1-1-1-mer

Ligands

5 x ZN: ZINC ION(Non-covalent)

ZN.1:	4 residues within 4Å: Chain K: C.18, C.21, C.39, C.42 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.18, K:C.21, K:C.39, K:C.42
ZN.2:	4 residues within 4Å: Chain K: C.34, H.36, C.53, C.56 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.34, K:H.36, K:C.53, K:C.56
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.27, C.30, C.41, C.44 4 PLIP interactions: 4 interactions with chain M Metal complexes: M:C.27, M:C.30, M:C.41, M:C.44

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Godinez-Lopez, V. et al., Structural visualization of read-write mechanisms of histone H2A lysine 119 mono-ubiquitination by Polycomb Repressive Complex 1. To Be Published

Release Date

2024-11-20

Peptides

Histone H3.2: AE
Histone H4: BF
Histone H2A type 1: C
Histone H2B 1.1: DH
Histone H2A type 1: G
Polycomb complex protein BMI-1: K
E3 ubiquitin-protein ligase RING2: L
RING1 and YY1-binding protein: M
Ubiquitin: N

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
E

B
B

F
F

C
C

D
D

H
H

G
G

K
K

L
L

M
M

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 type 1

Histone H2B 1.1

Toggle Identical (DH)

Histone H2A type 1

Polycomb complex protein BMI-1

E3 ubiquitin-protein ligase RING2

RING1 and YY1-binding protein

Ubiquitin

Related Entries With Identical Sequence

1eqz.1 | 1f66.1 | 1hq3.1 | 1tzy.1 | 1u35.1 | 2aro.1 | 2cv5.1 | 2f8n.1 | 2k6d.1 | 2kjh.1 | 2n13.1 | 3lel.1 | 3lel.2 | 3nqu.1 | 3r45.1 | 4bbn.1 | 4dhj.3 | 4dhj.6 | 4dhz.2 | 4hga.1 | 4kgc.1 | 4ld9.1 | 4z2m.1 | 4zux.1 | 4zux.2 | 5bnb.1 | 5bnb.2 | 5bnb.3 | 5bnb.4 | 5c3i.1 more...less...

5c3i.2 | 5c3i.3 | 5c3i.4 | 5c3i.5 | 5c3i.6 | 5e5a.1 | 5kgf.1 | 5o9g.1 | 5omx.1 | 5ong.1 | 5onw.1 | 5oxv.1 | 5oy7.1 | 5wvo.1 | 5x0x.1 | 5xf3.1 | 5xf4.1 | 5xf5.1 | 6buz.1 | 6e0c.1 | 6e0p.1 | 6ftx.1 | 6fx4.1 | 6fx4.2 | 6fyh.1 | 6g0l.1 | 6hts.1 | 6i84.1 | 6j99.1 | 6kiu.1 | 6kiv.1 | 6kiw.1 | 6kw3.1 | 6kw4.1 | 6kw5.1 | 6l9z.1 | 6la2.1 | 6la8.1 | 6la9.1 | 6lab.1 | 6ler.1 | 6ler.2 | 6ltj.1 | 6m3v.1 | 6m44.1 | 6m4d.1 | 6m4g.1 | 6m4h.1 | 6ne3.1 | 6nzo.1 | 6o1d.1 | 6o22.1 | 6o96.1 | 6om3.1 | 6om3.2 | 6pa7.1 | 6pwv.1 | 6pww.1 | 6pwx.1 | 6px1.1 | 6px3.1 | 6r0c.1 | 6r8y.1 | 6rny.1 | 6ryr.1 | 6ryu.1 | 6se0.1 | 6se6.1 | 6see.1 | 6sef.1 | 6seg.1 | 6t79.1 | 6t7a.1 | 6t7b.1 | 6t7c.1 | 6t7d.1 | 6tem.1 | 6uh5.1 | 6ulh.1 | 6ump.1 | 6ums.1 | 6upk.1 | 6upl.1 | 6v92.1 | 6vz4.1 | 6w5i.1 | 6w5m.1 | 6w5n.1 | 6wkr.1 | 6y5d.1 | 6zhx.1 | 6zhy.1 | 7bwd.1 | 7dbp.1 | 7jo9.1 | 7joa.1 | 7k5x.1 | 7k5y.1 | 7k60.1 | 7k61.1 | 7k63.1 | 7k6p.1 | 7k6q.1 | 7kbd.1 | 7kbe.1 | 7kbf.1 | 7m1x.1 | 7mbm.1 | 7mbn.1 | 7mex.1 | 7nkx.1 | 7nky.1 | 7nl0.1 | 7otq.1 | 7pet.1 | 7peu.1 | 7pev.1 | 7pew.1 | 7pex.1 | 7pey.1 | 7pez.1 | 7pf0.1 | 7pf2.1 | 7pf3.1 | 7pf4.1 | 7pf5.1 | 7pf6.1 | 7pfa.1 | 7pfc.1 | 7pfd.1 | 7pfe.1 | 7pff.1 | 7pft.1 | 7pfu.1 | 7pfv.1 | 7pfw.1 | 7pfx.1 | 7pii.1 | 7r5r.1 | 7ssa.1 | 7tan.1 | 7u0g.1 | 7u0i.1 | 7u0j.1 | 7u46.1 | 7u47.1 | 7u4d.1 | 7ud5.1 | 7unc.1 | 7und.1 | 7unk.1 | 7ux9.1 | 7v90.1 | 7v96.1 | 7v9c.1 | 7v9j.1 | 7v9k.1 | 7v9s.1 | 7va4.1 | 7vcq.1 | 7vcq.2 | 7vcq.3 | 7vdt.1 | 7vdv.1 | 7vvu.1 | 7vvz.1 | 7x3t.1 | 7x3v.1 | 7x3w.1 | 7x3x.1 | 7xfc.1 | 7xfh.1 | 7xfi.1 | 7xfj.1 | 7xfl.1 | 7xfm.1 | 7xfn.1 | 7xnp.1 | 7y5u.1 | 7y5v.1 | 7y5w.1 | 7y60.1 | 7y61.1 | 7ywx.1 | 7yyh.1 | 7zi4.1 | 8a3y.1 | 8aag.1 | 8b0a.1 | 8bvw.1 | 8byq.1 | 8bz1.1 | 8dk5.1 | 8du4.1 | 8efw.1 | 8efx.1 | 8ett.1 | 8etv.1 | 8eu2.1 | 8eue.1 | 8euj.1 | 8evg.1 | 8evh.1 | 8evi.1 | 8evj.1 | 8g6g.1 | 8g6h.1 | 8g6q.1 | 8g6s.1 | 8gpn.1 | 8h1t.1 | 8iqf.1 | 8iqg.1 | 8ivb.1 | 8j6s.1 | 8j6t.1 | 8jh2.1 | 8jh3.1 | 8jh4.1 | 8of4.1 | 8off.1 | 8pki.1 | 8pkj.1 | 8rbx.1 | 8skz.1 | 8sps.1 | 8spu.1 | 8svf.1 | 8syp.1 | 8t9g.1 | 8tas.1 | 8tb9.1 | 8thu.1 | 8tof.1 | 8u5h.1 | 8uw1.1 | 8v25.1 | 8v26.1 | 8v27.1 | 8v28.1 | 8vfx.1 | 8vfy.1 | 8vfz.1 | 8vg0.1 | 8vg1.1 | 8vg2.1 | 8vx5.1 | 8vx6.1 | 8w9d.1 | 8w9e.1 | 8w9f.1 | 8wg5.1 | 8x15.1 | 8x19.1 | 8x1c.1 | 8x7i.1 | 8x7j.1 | 8xjv.24 | 8xjv.25 | 8xjv.26 | 8xjv.27 | 8xjv.28 | 8xjv.29 | 8xjv.30 | 8xjv.31 | 8xjv.32 | 8xjv.33 | 8xjv.34 | 8xjv.35 | 8xjv.36 | 8xjv.37 | 8xjv.38 | 8xjv.39 | 8xjv.40 | 8xjv.41 | 8xjv.42 | 8xjv.43 | 8xjv.44 | 8xjv.45 | 8xjv.46 | 8xjv.47 | 8xjv.48 | 8xjv.49 | 8xjv.50 | 8xjv.51 | 8xjv.52 | 8xjv.53 | 8xjv.54 | 8xjv.55 | 8xjv.56 | 8xjv.57 | 8xjv.58 | 8xjv.59 | 8xjv.60 | 8xjv.61 | 8xjv.62 | 8xjv.63 | 8xjv.64 | 8xjv.65 | 8xjv.66 | 8xjv.67 | 8xjv.68 | 8xjv.69 | 8xjv.70 | 8xjv.71 | 8yjf.1 | 8yjm.1 | 8yti.1 | 8z50.1 | 9azj.1 | 9b3p.1 | 9dde.1 | 9dg3.1 | 9dgg.1 | 9fgq.1 | 9fh9.1 | 9gd0.1 | 9gd1.1 | 9gd2.1 | 9gd3.1

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Background

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