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Crystal structure of HLA-DM bound to HLA-DR1

X-ray diffraction
2.599Å resolution
PDB entry 4fqx coloured by chain, front view.
PDB entry 4fqx coloured by chain, side view.
PDB entry 4fqx coloured by chain, top view.
Source organism: Homo sapiens
Assemblies composition:
hetero pentamer (preferred)
hetero dimer
hetero trimer
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: 34716.22 Å2
Buried surface area: 14996.24 Å2
Dissociation area: 478.3 Å2
Dissociation energy (ΔGdiss): 5.96 kcal/mol
Dissociation entropy (TΔSdiss): 6.42 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-135336
Assembly 2
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Assembly Name: HLA class II histocompatibility antigen, DM
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Multimeric state: hetero dimer
Accessible surface area: 18943.03 Å2
Buried surface area: 5355.68 Å2
Dissociation area: 2,677.84 Å2
Dissociation energy (ΔGdiss): 38.12 kcal/mol
Dissociation entropy (TΔSdiss): 13.15 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-151165
Assembly 3
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Multimeric state: hetero trimer
Accessible surface area: 18935.9 Å2
Buried surface area: 6477.85 Å2
Dissociation area: 478.3 Å2
Dissociation energy (ΔGdiss): 5.98 kcal/mol
Dissociation entropy (TΔSdiss): 6.4 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-219172

Macromolecules

HLA class II histocompatibility antigen, DM alpha chain
Chain: C
Length: 203 amino acids
Theoretical weight: 22.99 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P28067 (Residues: 27-225; Coverage: 85%)
Gene names: DMA, HLA-DMA, RING6
Pfam:
InterPro:
CATH:
HLA class II histocompatibility antigen, DM alpha chain in PDB entry 4fqx, assembly 1, front view.
HLA class II histocompatibility antigen, DM alpha chain in PDB entry 4fqx, assembly 1, side view.
HLA class II histocompatibility antigen, DM alpha chain in PDB entry 4fqx, assembly 1, top view.
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HLA class II histocompatibility antigen, DM beta chain
Chain: D
Length: 199 amino acids
Theoretical weight: 22.23 KDa
Source organism: Homo sapiens
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P28068 (Residues: 19-211; Coverage: 79%)
Gene names: DMB, HLA-DMB, RING7
Pfam:
InterPro:
CATH:
HLA class II histocompatibility antigen, DM beta chain in PDB entry 4fqx, assembly 1, front view.
HLA class II histocompatibility antigen, DM beta chain in PDB entry 4fqx, assembly 1, side view.
HLA class II histocompatibility antigen, DM beta chain in PDB entry 4fqx, assembly 1, top view.
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Synthetic peptide
Chain: E
Length: 11 amino acids
Theoretical weight: 1.21 KDa
Synthetic peptide in PDB entry 4fqx, assembly 1, front view.
Synthetic peptide in PDB entry 4fqx, assembly 1, side view.
Synthetic peptide in PDB entry 4fqx, assembly 1, top view.
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HLA class II histocompatibility antigen, DR alpha chain
Chain: A
Length: 191 amino acids
Theoretical weight: 22.11 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P01903 (Residues: 26-216; Coverage: 83%)
Gene names: HLA-DRA, HLA-DRA1
Pfam:
InterPro:
CATH:
HLA class II histocompatibility antigen, DR alpha chain in PDB entry 4fqx, assembly 1, front view.
HLA class II histocompatibility antigen, DR alpha chain in PDB entry 4fqx, assembly 1, side view.
HLA class II histocompatibility antigen, DR alpha chain in PDB entry 4fqx, assembly 1, top view.
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HLA class II histocompatibility antigen, DRB1 beta chain
Chain: B
Length: 208 amino acids
Theoretical weight: 23.74 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P01911 (Residues: 30-221; Coverage: 81%)
Gene name: HLA-DRB1
Pfam:
InterPro:
CATH:
HLA class II histocompatibility antigen, DRB1 beta chain in PDB entry 4fqx, assembly 1, front view.
HLA class II histocompatibility antigen, DRB1 beta chain in PDB entry 4fqx, assembly 1, side view.
HLA class II histocompatibility antigen, DRB1 beta chain in PDB entry 4fqx, assembly 1, top view.
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