PDBsum entry 8hbb

Oxidoreductase

PDB id: 8hbb

Contents

Protein chains

255 a.a.

Metals

_CL ×4

_MN ×5

Waters ×9

PDB id:

8hbb

Name:

Oxidoreductase

Title:

Crystal structure of caenorhabditis elegans nmad-1 in complex with ligand iii

Structure:

DNA n6-methyl adenine demethylase. Chain: a, b, c, d. Synonym: n6-methyl adenine demethylase 1. Engineered: yes. Mutation: yes

Source:

Caenorhabditis elegans. Organism_taxid: 6239. Gene: nmad-1, f09f7.7. Expressed in: prokaryote coculture. Expression_system_taxid: 2746493

Resolution:

3.09Å R-factor: 0.261 R-free: 0.282

Authors:

G.Shang,Z.Chen

Key ref:

G.Shang et al. (2024). Structural basis of nucleic acid recognition and 6ma demethylation by caenorhabditis elegans nmad-1a.. Int j mol sci, 25, . PubMed id: 38255759 DOI: 10.3390/IJMS25020686

Date:

27-Oct-22 Release date: 07-Feb-24

Protein chains

Q8MNT9  (NMAD1_CAEEL) -  DNA N6-methyl adenine demethylase from Caenorhabditis elegans

Seq: 291 a.a.

Struc: 255 a.a.*

* PDB and UniProt seqs differ at 3 residue positions (black crosses)

Enzyme reactions

• Enzyme class: E.C.1.14.11.51 - Dna N(6)-methyladenine demethylase.
• Reaction: an N₆-methyl-2'-deoxyadenosine in DNA + 2-oxoglutarate + O2 = a 2'-deoxyadenosine in DNA + formaldehyde + succinate + CO2
• Cofactor: Fe(3+)

Molecule diagrams generated from .mol files obtained from the KEGG ftp site