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SMTL ID : 6ryr.1

Nucleosome-CHD4 complex structure (single CHD4 copy)

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

1 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1:

21 residues within 4Å:

Chain K: G.727, T.728, H.730, Q.733, M.756, G.757, L.758, G.759, K.760, T.761, V.762, E.796, W.800, E.877, L.1134, G.1135, N.1137, R.1162, R.1165, I.1166
Ligands: MG.2

14 PLIP interactions:

14 interactions with chain K

Hydrogen bonds: K:T.728, K:H.730, K:Q.733, K:G.757, K:K.760, K:K.760, K:T.761, K:T.761, K:E.796, K:R.1162, K:R.1162, K:R.1165, K:R.1165
Salt bridges: K:R.1165

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2:

2 residues within 4Å:

Chain K: T.761
Ligands: ANP.1

No protein-ligand interaction detected (PLIP)

2 x ZN: ZINC ION(Non-covalent)

ZN.3:	4 residues within 4Å: Chain K: C.455, C.458, H.475, C.478 3 PLIP interactions: 3 interactions with chain K Metal complexes: K:C.455, K:C.458, K:C.478
ZN.4:	5 residues within 4Å: Chain K: C.467, C.470, S.472, C.493, C.496 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.467, K:C.470, K:C.493, K:C.496

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Farnung, L. et al., Nucleosome-CHD4 chromatin remodeller structure maps human disease mutations. Elife (2020)

Release Date

2020-07-15

Peptides

Histone H3.2: AE
Histone H4: BF
Histone H2A type 1: CG
Histone H2B 1.1: DH
Chromodomain-helicase-DNA-binding protein 4,Chromodomain-helicase-DNA-binding protein 4,Chromodomain-helicase-DNA-binding protein 4: K

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
W

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

Chromodomain-helicase-DNA-binding protein 4,Chromodomain-helicase-DNA-binding protein 4,Chromodomain-helicase-DNA-binding protein 4

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