› 3khk

X-ray diffraction
2.55Å resolution

Crystal structure of type-I restriction-modification system methylation subunit (MM_0429) from Methanosarchina mazei.

Released:
DOI: 10.2210/pdb3khk/pdb
PDB entry 3khk coloured by chain, front view.
PDB entry 3khk coloured by chain, side view.
PDB entry 3khk coloured by chain, top view.
Source organism: Methanosarcina mazei
Entry authors: Ramagopal UA, Toro R, Burley SK, Almo SC, New York SGX Research Center for Structural Genomics (NYSGXRC)

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + adenine in DNA = S-adenosyl-L-homocysteine + N-6-methyladenine in DNA
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-185836 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
site-specific DNA-methyltransferase (adenine-specific) Chains: A, B
Molecule details ›
Chains: A, B
Length: 544 amino acids
Theoretical weight: 62.87 KDa
Source organism: Methanosarcina mazei
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q8PZR3 (Residues: 3-535; Coverage: 93%)
Gene name: MM_0429
Sequence domains:
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P41
Unit cell:
a: 80.648Å b: 80.648Å c: 179.973Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.214 0.213 0.242
Expression system: Escherichia coli BL21(DE3)

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