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I-SmaMI K103A mutant

X-ray diffraction
2.29Å resolution
PDB entry 5e5s coloured by chain, front view.
PDB entry 5e5s coloured by chain, side view.
PDB entry 5e5s coloured by chain, top view.
Source organisms:
Assembly composition:
hetero tetramer (preferred)
Entry contents: 1 distinct polypeptide molecule
3 distinct DNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Homing endonuclease LAGLIDADG domain-containing protein and DNA
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Multimeric state: hetero tetramer
Accessible surface area: 18033.82 Å2
Buried surface area: 9322.98 Å2
Dissociation area: 1,307.85 Å2
Dissociation energy (ΔGdiss): 25.19 kcal/mol
Dissociation entropy (TΔSdiss): 10.12 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-118613

Macromolecules

Homing endonuclease LAGLIDADG domain-containing protein
Chain: A
Length: 302 amino acids
Theoretical weight: 34.09 KDa
Source organism: Sordaria macrospora k-hell
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: F7WD42 (Residues: 114-415; Coverage: 70%)
Gene name: SMAC_12671
Pfam: LAGLIDADG endonuclease
InterPro:
CATH: Homing endonucleases
Homing endonuclease LAGLIDADG domain-containing protein in PDB entry 5e5s, assembly 1, front view.
Homing endonuclease LAGLIDADG domain-containing protein in PDB entry 5e5s, assembly 1, side view.
Homing endonuclease LAGLIDADG domain-containing protein in PDB entry 5e5s, assembly 1, top view.
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DNA chain B
Name: Bottom strand DNA
Representative chains: B
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 25 nucleotides
Theoretical weight: 7.69 KDa
Bottom strand DNA in PDB entry 5e5s, assembly 1, front view.
Bottom strand DNA in PDB entry 5e5s, assembly 1, side view.
Bottom strand DNA in PDB entry 5e5s, assembly 1, top view.
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DNA chain C
Name: Top strand DNA left site
Representative chains: C
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 15 nucleotides
Theoretical weight: 4.53 KDa
Top strand DNA left site in PDB entry 5e5s, assembly 1, front view.
Top strand DNA left site in PDB entry 5e5s, assembly 1, side view.
Top strand DNA left site in PDB entry 5e5s, assembly 1, top view.
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DNA chain D
Name: DNA (5'-D(P*CP*AP*GP*GP*TP*GP*TP*AP*CP*G)-3')
Representative chains: D
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 10 nucleotides
Theoretical weight: 3.09 KDa
DNA (5'-D(P*CP*AP*GP*GP*TP*GP*TP*AP*CP*G)-3') in PDB entry 5e5s, assembly 1, front view.
DNA (5'-D(P*CP*AP*GP*GP*TP*GP*TP*AP*CP*G)-3') in PDB entry 5e5s, assembly 1, side view.
DNA (5'-D(P*CP*AP*GP*GP*TP*GP*TP*AP*CP*G)-3') in PDB entry 5e5s, assembly 1, top view.
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