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Crystal structure analysis of the nurse shark New antigen Receptor PBLA8 variable domain in complex with lysozyme

X-ray diffraction
1.8Å resolution
PDB entry 2i25 coloured by chain, front view.
PDB entry 2i25 coloured by chain, side view.
PDB entry 2i25 coloured by chain, top view.
Source organisms:
Assembly composition:
hetero dimer (preferred)
Entry contents: 2 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Ig-like domain-containing protein and Lysozyme C
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Multimeric state: hetero dimer
Accessible surface area: 11639.45 Å2
Buried surface area: 1422.88 Å2
Dissociation area: 711.44 Å2
Dissociation energy (ΔGdiss): -3.54 kcal/mol
Dissociation entropy (TΔSdiss): 10.96 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-132863
Assembly 2
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Assembly Name: Ig-like domain-containing protein and Lysozyme C
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Multimeric state: hetero dimer
Accessible surface area: 12089.02 Å2
Buried surface area: 1371.45 Å2
Dissociation area: 685.73 Å2
Dissociation energy (ΔGdiss): -3.6 kcal/mol
Dissociation entropy (TΔSdiss): 11.01 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-132863

Macromolecules

Ig-like domain-containing protein
Chains: N, O
Length: 121 amino acids
Theoretical weight: 13.44 KDa
Source organism: Ginglymostoma cirratum
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8AXH5 (Residues: 1-89, 90-112; Coverage: 99%)
Pfam: Immunoglobulin V-set domain
InterPro:
CATH: Immunoglobulins
Ig-like domain-containing protein in PDB entry 2i25, assembly 1, front view.
Ig-like domain-containing protein in PDB entry 2i25, assembly 1, side view.
Ig-like domain-containing protein in PDB entry 2i25, assembly 1, top view.
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Lysozyme C
Chains: L, M
Length: 129 amino acids
Theoretical weight: 14.33 KDa
Source organism: Gallus gallus
UniProt:
  • Canonical: P00698 (Residues: 19-147; Coverage: 100%)
Gene name: LYZ
Pfam: C-type lysozyme/alpha-lactalbumin family
InterPro:
CATH: Lysozyme
SCOP: C-type lysozyme
Lysozyme C in PDB entry 2i25, assembly 1, front view.
Lysozyme C in PDB entry 2i25, assembly 1, side view.
Lysozyme C in PDB entry 2i25, assembly 1, top view.
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