› 3lkd

X-ray diffraction
2.25Å resolution

Crystal Structure of the type I restriction-modification system methyltransferase subunit from Streptococcus thermophilus, Northeast Structural Genomics Consortium Target SuR80

Released:
DOI: 10.2210/pdb3lkd/pdb
PDB entry 3lkd coloured by chain, front view.
PDB entry 3lkd coloured by chain, side view.
PDB entry 3lkd coloured by chain, top view.
Source organism: Streptococcus thermophilus LMG 18311
Entry authors: Vorobiev S, Su M, Seetharaman J, Mao M, Xiao R, Foote EL, Ciccosanti C, Wang D, Everett JK, Nair R, Acton TB, Rost B, Montelione GT, Tong L, Hunt JF, Northeast Structural Genomics Consortium (NESG)

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:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-177597 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
site-specific DNA-methyltransferase (adenine-specific) Chains: A, B
Molecule details ›
Chains: A, B
Length: 542 amino acids
Theoretical weight: 62.2 KDa
Source organism: Streptococcus thermophilus LMG 18311
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q5M500 (Residues: 1-534; Coverage: 100%)
Gene names: hsdM1, stu0711
Sequence domains:
Structure domains:

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 34 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X4A
Spacegroup: P21
Unit cell:
a: 60.866Å b: 83.128Å c: 96.678Å
α: 90° β: 98.13° γ: 90°
R-values:
R R work R free
0.186 0.186 0.21
Expression system: Escherichia coli BL21(DE3)

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