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crystal structure of BM3.3 ScFV TCR in complex with PBM8-H-2KBM8 MHC class I molecule

X-ray diffraction
2.9Å resolution
PDB entry 2ol3 coloured by chain, front view.
PDB entry 2ol3 coloured by chain, side view.
PDB entry 2ol3 coloured by chain, top view.
Source organism: Mus musculus
Assembly composition:
hetero pentamer (preferred)
Entry contents: 5 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero pentamer
Accessible surface area: 29185.52 Å2
Buried surface area: 7742.98 Å2
Dissociation area: 878.54 Å2
Dissociation energy (ΔGdiss): -5.57 kcal/mol
Dissociation entropy (TΔSdiss): 13.1 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-135041

Macromolecules

Ig-like domain-containing protein
Chain: A
Length: 142 amino acids
Theoretical weight: 15.57 KDa
Source organism: Mus musculus
Expression system: Mus musculus
UniProt:
  • Canonical: Q5R1F1 (Residues: 23-116; Coverage: 98%)
Gene names: TRADV16D, TRAV16
Pfam: Immunoglobulin V-set domain
InterPro:
CATH: Immunoglobulins
SCOP: V set domains (antibody variable domain-like)
Ig-like domain-containing protein in PDB entry 2ol3, assembly 1, front view.
Ig-like domain-containing protein in PDB entry 2ol3, assembly 1, side view.
Ig-like domain-containing protein in PDB entry 2ol3, assembly 1, top view.
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T-cell receptor beta chain V region E1
Chain: B
Length: 113 amino acids
Theoretical weight: 13.06 KDa
Source organism: Mus musculus
Expression system: Mus musculus
UniProt:
  • Canonical: P04214 (Residues: 22-136; Coverage: 97%)
Pfam: Immunoglobulin V-set domain
InterPro:
CATH: Immunoglobulins
SCOP: V set domains (antibody variable domain-like)
T-cell receptor beta chain V region E1 in PDB entry 2ol3, assembly 1, front view.
T-cell receptor beta chain V region E1 in PDB entry 2ol3, assembly 1, side view.
T-cell receptor beta chain V region E1 in PDB entry 2ol3, assembly 1, top view.
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H-2 class I histocompatibility antigen, K-B alpha chain
Chain: H
Length: 279 amino acids
Theoretical weight: 32.08 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P01901 (Residues: 22-300; Coverage: 80%)
Gene names: H2-K, H2-K1
Pfam:
InterPro:
CATH:
SCOP:
H-2 class I histocompatibility antigen, K-B alpha chain in PDB entry 2ol3, assembly 1, front view.
H-2 class I histocompatibility antigen, K-B alpha chain in PDB entry 2ol3, assembly 1, side view.
H-2 class I histocompatibility antigen, K-B alpha chain in PDB entry 2ol3, assembly 1, top view.
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Beta-2-microglobulin
Chain: L
Length: 100 amino acids
Theoretical weight: 11.84 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P01887 (Residues: 21-119; Coverage: 100%)
Gene name: B2m
Pfam: Immunoglobulin C1-set domain
InterPro:
CATH: Immunoglobulins
SCOP: C1 set domains (antibody constant domain-like)
Beta-2-microglobulin in PDB entry 2ol3, assembly 1, front view.
Beta-2-microglobulin in PDB entry 2ol3, assembly 1, side view.
Beta-2-microglobulin in PDB entry 2ol3, assembly 1, top view.
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RNA-binding protein 5
Chain: P
Length: 8 amino acids
Theoretical weight: 1.04 KDa
Source organism: Mus musculus
Expression system: Not provided
UniProt:
  • Canonical: Q91YE7 (Residues: 484-491; Coverage: 1%)
Gene names: Luca15, Rbm5
RNA-binding protein 5 in PDB entry 2ol3, assembly 1, front view.
RNA-binding protein 5 in PDB entry 2ol3, assembly 1, side view.
RNA-binding protein 5 in PDB entry 2ol3, assembly 1, top view.
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