PDBsum entry 5b40

Structural protein/DNA

PDB id: 5b40

Contents

Protein chains

94 a.a.

78 a.a.

104 a.a.

93 a.a.

80 a.a.

DNA/RNA

PDB id:

5b40

Name:

Structural protein/DNA

Title:

The nucleosome structure containing h2b-k120 and h4-k31 monoubiquitinations

Structure:

Histone h3.2. Chain: a, e. Synonym: histone h3/m,histone h3/o. Engineered: yes. Mutation: yes. Histone h4. Chain: b, f. Engineered: yes. Mutation: yes.

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: hist2h3a, hist2h3c, h3f2, h3fm, hist2h3d. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008. Gene: hist1h4a, h4/a, h4fa, hist1h4b, h4/i, h4fi, hist1h4c, h4/g, h4fg, hist1h4d, h4/b, h4fb, hist1h4e, h4/j, h4fj, hist1h4f, h4/c, h4fc, hist1h4h, h4/h, h4fh, hist1h4i, h4/m, h4fm, hist1h4j, h4/e,

Resolution:

3.33Å R-factor: 0.205 R-free: 0.263

Authors:

S.Machida,S.Sekine,Y.Nishiyama,N.Horikoshi,H.Kurumizaka

Key ref:

S.Machida et al. Monoubiquitination of histones h2b and h4 changes the nucleosome stability without affecting the nucleosome structure. To be published, .

Date:

22-Mar-16 Release date: 22-Jun-16

Protein chains

Q71DI3  (H32_HUMAN) -  Histone H3.2 from Homo sapiens

Seq: 136 a.a.

Struc: 94 a.a.*

Protein chain

P62805  (H4_HUMAN) -  Histone H4 from Homo sapiens

Seq: 103 a.a.

Struc: 78 a.a.*

Protein chains

P04908  (H2A1B_HUMAN) -  Histone H2A type 1-B/E from Homo sapiens

Seq: 130 a.a.

Struc: 104 a.a.

Protein chains

P06899  (H2B1J_HUMAN) -  Histone H2B type 1-J from Homo sapiens

Seq: 126 a.a.

Struc: 93 a.a.*

Protein chain

P62805  (H4_HUMAN) -  Histone H4 from Homo sapiens

Seq: 103 a.a.

Struc: 80 a.a.*

* PDB and UniProt seqs differ at 4 residue positions (black crosses)

DNA/RNA chains

A-T-C-A-A-T-A-T-C-C-A-C-C-T-G-C-A-G-A-T-T-C-T-A-C-C-A-A-A-A-G-T-G-T-A-T-T-T-G- 146 bases

A-T-C-A-A-T-A-T-C-C-A-C-C-T-G-C-A-G-A-T-T-C-T-A-C-C-A-A-A-A-G-T-G-T-A-T-T-T-G- 146 bases