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SMTL ID : 3x1s.1

Crystal structure of the nucleosome core particle

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.81 Å

Oligo State

hetero-2-2-2-2-mer

Ligands

6 x MN: MANGANESE (II) ION(Non-covalent)(Non-functional Binders)

MN.1:	3 residues within 4Å: Chain D: Q.47, V.48 Ligands: MN.2 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:V.48
MN.2:	3 residues within 4Å: Chain C: E.64 Chain D: V.48 Ligands: MN.1 1 PLIP interactions: 1 interactions with chain D Metal complexes: D:V.48
MN.3:	7 residues within 4Å: Chain G: G.44, A.45, G.46, A.47 Chain H: T.90, S.91 Chain I: A.111 No protein-ligand interaction detected (PLIP)
MN.4:	2 residues within 4Å: Chain I: G.138, A.139 No protein-ligand interaction detected (PLIP)
MN.5:	1 residues within 4Å: Chain I: G.18 No protein-ligand interaction detected (PLIP)
MN.6:	1 residues within 4Å: Chain I: C.114 No protein-ligand interaction detected (PLIP)

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.7:	2 residues within 4Å: Chain I: C.132, A.133 Ligand excluded by PLIP
CL.8:	1 residues within 4Å: Chain J: G.100 Ligand excluded by PLIP

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Padavattan, S. et al., Structural and functional analyses of nucleosome complexes with mouse histone variants TH2a and TH2b, involved in reprogramming. Biochem.Biophys.Res.Commun. (2015)

Release Date

2015-09-23

Peptides

Histone H3.1: AE
Histone H4: BF
Histone H2A type 1-B/E: CG
Histone H2B type 1-B: DH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
E

B
B

F
F

C
C

G
G

D
D

H
H

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Histone H3.1

Histone H4

Histone H2A type 1-B/E

Histone H2B type 1-B

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