PDBsum entry 8jkk

DNA binding protein/DNA

PDB id: 8jkk

Contents

Protein chains

376 a.a.

DNA/RNA

Ligands

OGA ×4

Metals

_MN ×4

Waters ×936

PDB id:

8jkk

Name:

DNA binding protein/DNA

Title:

Crystal structure of the dioxygenase cctet from coprinopsis cinerea bound to 12bp 5-methylcytosine (5mc) containing duplex DNA

Structure:

2ogfedo jbp1/tet oxygenase domain-containing protein. Chain: a, d, g, j. Engineered: yes. DNA (5'-d(p Cp Gp Ap Tp Cp (5Cm)p Gp Cp Tp Ap Cp G)-3'). Chain: b, e, h, k. Engineered: yes. DNA (5'-d(p Cp Gp Tp Ap Gp Cp Tp Gp Ap Tp Cp G)-3'). Chain: c, f, i, l. Engineered: yes

Source:

Coprinopsis cinerea (strain okayama-7 / 130 / atcc mya-4618 / fgsc 9003). Hormographiella aspergillata. Organism_taxid: 240176. Gene: cc1g_05589. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Homo sapiens.

Resolution:

2.30Å R-factor: 0.188 R-free: 0.216

Authors:

L.Zhang,L.Zhang

Key ref:

L.Zhang et al. Molecular basis of an atypical dsdna 5mc/6ma bifuncti dioxygenase cctet from coprinopsis cinerea in catalyz dsdna 5mc demethylation.. Nucleic acids res, . PubMed id: 38324471

Date:

01-Jun-23 Release date: 06-Mar-24

Protein chains

A8P1J0  (A8P1J0_COPC7) -  2OGFeDO JBP1/TET oxygenase domain-containing protein from Coprinopsis cinerea (strain Okayama-7 / 130 / ATCC MYA-4618 / FGSC 9003)

Seq: 430 a.a.

Struc: 376 a.a.

DNA/RNA chains

C-G-A-T-C-5CM-G-C-T-A-C-G 12 bases

C-G-T-A-G-C-T-G-A-T-C-G 12 bases

C-G-A-T-C-5CM-G-C-T-A-C-G 12 bases

C-G-T-A-G-C-T-G-A-T-C-G 12 bases

C-G-A-T-C-5CM-G-C-T-A-C-G 12 bases

C-G-T-A-G-C-T-G-A-T-C-G 12 bases

C-G-A-T-C-5CM-G-C-T-A-C-G 12 bases

G-T-A-G-C-T-G-A-T-C-G 11 bases