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Crystal structure of CLEC-2 in complex with rhodocytin

X-ray diffraction
2.98Å resolution
PDB entry 3wwk coloured by chain, front view.
PDB entry 3wwk coloured by chain, side view.
PDB entry 3wwk coloured by chain, top view.
Source organisms:
Assembly composition:
hetero trimer (preferred)
Entry contents: 3 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero trimer
Accessible surface area: 19165.76 Å2
Buried surface area: 4272.57 Å2
Dissociation area: 346.24 Å2
Dissociation energy (ΔGdiss): -9.1 kcal/mol
Dissociation entropy (TΔSdiss): 11.61 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-191509
Assembly 2
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Multimeric state: hetero trimer
Accessible surface area: 19307.13 Å2
Buried surface area: 4202.07 Å2
Dissociation area: 392.59 Å2
Dissociation energy (ΔGdiss): -8.13 kcal/mol
Dissociation entropy (TΔSdiss): 11.63 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-191509
Assembly 3
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Multimeric state: hetero trimer
Accessible surface area: 18913.24 Å2
Buried surface area: 4422.37 Å2
Dissociation area: 427.78 Å2
Dissociation energy (ΔGdiss): -7.94 kcal/mol
Dissociation entropy (TΔSdiss): 11.63 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-191509
Assembly 4
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Multimeric state: hetero trimer
Accessible surface area: 19123.05 Å2
Buried surface area: 4486.92 Å2
Dissociation area: 396.78 Å2
Dissociation energy (ΔGdiss): -7.94 kcal/mol
Dissociation entropy (TΔSdiss): 11.6 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-191509

Macromolecules

C-type lectin domain family 1 member B
Chains: C, F, I, L
Length: 128 amino acids
Theoretical weight: 15.16 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9P126 (Residues: 96-221; Coverage: 55%)
Gene names: CLEC1B, CLEC2, UNQ721/PRO1384
Pfam: Lectin C-type domain
InterPro:
CATH: Mannose-Binding Protein A, subunit A
C-type lectin domain family 1 member B in PDB entry 3wwk, assembly 1, front view.
C-type lectin domain family 1 member B in PDB entry 3wwk, assembly 1, side view.
C-type lectin domain family 1 member B in PDB entry 3wwk, assembly 1, top view.
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Snaclec rhodocytin subunit alpha
Chains: A, D, G, J
Length: 136 amino acids
Theoretical weight: 15.81 KDa
Source organism: Calloselasma rhodostoma
UniProt:
  • Canonical: Q9I841 (Residues: 1-136; Coverage: 100%)
Pfam: Lectin C-type domain
InterPro:
CATH: Mannose-Binding Protein A, subunit A
Snaclec rhodocytin subunit alpha in PDB entry 3wwk, assembly 1, front view.
Snaclec rhodocytin subunit alpha in PDB entry 3wwk, assembly 1, side view.
Snaclec rhodocytin subunit alpha in PDB entry 3wwk, assembly 1, top view.
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Snaclec rhodocytin subunit beta
Chains: B, E, H, K
Length: 146 amino acids
Theoretical weight: 16.79 KDa
Source organism: Calloselasma rhodostoma
UniProt:
  • Canonical: Q9I840 (Residues: 1-146; Coverage: 100%)
Pfam: Lectin C-type domain
InterPro:
CATH: Mannose-Binding Protein A, subunit A
Snaclec rhodocytin subunit beta in PDB entry 3wwk, assembly 1, front view.
Snaclec rhodocytin subunit beta in PDB entry 3wwk, assembly 1, side view.
Snaclec rhodocytin subunit beta in PDB entry 3wwk, assembly 1, top view.
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