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Crystal structure of the aptamer minF-lysozyme complex.

X-ray diffraction
2.68Å resolution
PDB entry 4m6d coloured by chain, front view.
PDB entry 4m6d coloured by chain, side view.
PDB entry 4m6d coloured by chain, top view.
Source organism: Gallus gallus
Assembly composition:
hetero dimer (preferred)
Entry contents: 1 distinct polypeptide molecule
1 distinct RNA molecule

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Lysozyme C and RNA
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Multimeric state: hetero dimer
Accessible surface area: 12930.21 Å2
Buried surface area: 878.35 Å2
Dissociation area: 439.17 Å2
Dissociation energy (ΔGdiss): -5.93 kcal/mol
Dissociation entropy (TΔSdiss): 10.99 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-132870
Assembly 2
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Assembly Name: Lysozyme C and RNA
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Multimeric state: hetero dimer
Accessible surface area: 13222.62 Å2
Buried surface area: 907.89 Å2
Dissociation area: 453.95 Å2
Dissociation energy (ΔGdiss): -3.54 kcal/mol
Dissociation entropy (TΔSdiss): 11.02 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-132870
Assembly 3
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Assembly Name: Lysozyme C and RNA
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Multimeric state: hetero dimer
Accessible surface area: 12933.42 Å2
Buried surface area: 833.48 Å2
Dissociation area: 416.74 Å2
Dissociation energy (ΔGdiss): -3.71 kcal/mol
Dissociation entropy (TΔSdiss): 10.98 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-132870
Assembly 4
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Assembly Name: Lysozyme C and RNA
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Multimeric state: hetero dimer
Accessible surface area: 13121.41 Å2
Buried surface area: 938.87 Å2
Dissociation area: 469.43 Å2
Dissociation energy (ΔGdiss): -5.63 kcal/mol
Dissociation entropy (TΔSdiss): 11.03 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-132870
Assembly 5
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Assembly Name: Lysozyme C and RNA
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Multimeric state: hetero dimer
Accessible surface area: 12929.11 Å2
Buried surface area: 817.99 Å2
Dissociation area: 409 Å2
Dissociation energy (ΔGdiss): -2.52 kcal/mol
Dissociation entropy (TΔSdiss): 10.98 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-132870
Assembly 6
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Assembly Name: Lysozyme C and RNA
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Multimeric state: hetero dimer
Accessible surface area: 13209.46 Å2
Buried surface area: 890.04 Å2
Dissociation area: 445.02 Å2
Dissociation energy (ΔGdiss): -2.67 kcal/mol
Dissociation entropy (TΔSdiss): 11.04 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-132870

Macromolecules

Lysozyme C
Chains: A, C, E, G, I, K
Length: 129 amino acids
Theoretical weight: 14.33 KDa
Source organism: Gallus gallus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P00698 (Residues: 19-147; Coverage: 100%)
Gene name: LYZ
Pfam: C-type lysozyme/alpha-lactalbumin family
InterPro:
CATH: Lysozyme
Lysozyme C in PDB entry 4m6d, assembly 1, front view.
Lysozyme C in PDB entry 4m6d, assembly 1, side view.
Lysozyme C in PDB entry 4m6d, assembly 1, top view.
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RNA chains B, D, F, H, J, L
Name: aptamer
Representative chains: B, D, F, H, J, L
Source organism: Gallus gallus [9031]
Expression system: Not provided
Length: 45 nucleotides
Theoretical weight: 14.52 KDa
aptamer in PDB entry 4m6d, assembly 1, front view.
aptamer in PDB entry 4m6d, assembly 1, side view.
aptamer in PDB entry 4m6d, assembly 1, top view.
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