SMTL ID : 8qkt.1 (1 other biounit)

Structure of a nucleosome composed of a palindromic 167-base pair blunt-ended DNA fragment

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.26 Å

Oligo State

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

Ligands

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

MN.1: 1 residues within 4Å: Chain I: G.23 No protein-ligand interaction detected (PLIP) MN.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MN.3: 1 residues within 4Å: Chain I: G.111 No protein-ligand interaction detected (PLIP) MN.4: 2 residues within 4Å: Chain I: A.112, G.113 No protein-ligand interaction detected (PLIP) MN.5: 2 residues within 4Å: Chain I: G.134, G.135 No protein-ligand interaction detected (PLIP) MN.6: 2 residues within 4Å: Chain I: G.146, G.147 No protein-ligand interaction detected (PLIP) MN.7: 2 residues within 4Å: Chain I: G.81, G.82 No protein-ligand interaction detected (PLIP) MN.8: 1 residues within 4Å: Chain I: G.122 No protein-ligand interaction detected (PLIP) MN.9: 1 residues within 4Å: Chain I: G.104 No protein-ligand interaction detected (PLIP) MN.10: 1 residues within 4Å: Chain I: G.35 No protein-ligand interaction detected (PLIP) MN.11: 2 residues within 4Å: Chain I: A.49, G.50 No protein-ligand interaction detected (PLIP) MN.12: 3 residues within 4Å: Chain J: G.146, G.147, G.148 No protein-ligand interaction detected (PLIP) MN.13: 3 residues within 4Å: Chain I: G.132 Chain J: G.35, C.36 No protein-ligand interaction detected (PLIP) MN.14: 2 residues within 4Å: Chain J: G.81, G.82 No protein-ligand interaction detected (PLIP) MN.15: 2 residues within 4Å: Chain J: C.22, G.23 No protein-ligand interaction detected (PLIP) MN.16: 1 residues within 4Å: Chain J: G.50 No protein-ligand interaction detected (PLIP) MN.17: 1 residues within 4Å: Chain J: G.134 No protein-ligand interaction detected (PLIP) MN.18: 1 residues within 4Å: Chain J: G.122 No protein-ligand interaction detected (PLIP) MN.19: 2 residues within 4Å: Chain J: G.104, G.105 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ma, Z. et al., Structure of a nucleosome composed of a palindromic 167-base pair blunt-ended DNA fragment. To Be Published

Release Date

2023-10-18

Peptides

Histone H3.1: AE
Histone H4: BF
Histone H2A: C
Histone H2B type 1-J: D
Histone H2A: G
Histone H2B type 1-J: H

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

E
EEE

B
BBB

F
FFF

C
CCC

D
DDD

G
GGG

H
HHH

Histone H3.1

Histone H4

Histone H2A

Histone H2B type 1-J

Histone H2A

Histone H2B type 1-J

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