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Structure of the Epstein-Barr Virus gp42 Protein Bound to the MHC class II Receptor HLA-DR1

Source organisms:
Biochemical function: not assigned
Biological process: antigen processing and presentation
Cellular component: MHC class II protein complex

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GO terms

Biochemical function:
  • not assigned
Biological process:
Cellular component:

Sequence families

Pfam Protein families (Pfam)
PF07654
Domain description: Immunoglobulin C1-set domain
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
  2. HLA class II histocompatibility antigen, DRB1 beta chain
The deposited structure of PDB entry 1kg0 contains 1 copy of Pfam domain PF07654 (Immunoglobulin C1-set domain) in HLA class II histocompatibility antigen, DR alpha chain. Showing 1 copy in chain A.
The deposited structure of PDB entry 1kg0 contains 1 copy of Pfam domain PF07654 (Immunoglobulin C1-set domain) in HLA class II histocompatibility antigen, DRB1 beta chain. Showing 1 copy in chain B.

PF00969
Domain description: Class II histocompatibility antigen, beta domain
Occurring in:
  1. HLA class II histocompatibility antigen, DRB1 beta chain
The deposited structure of PDB entry 1kg0 contains 1 copy of Pfam domain PF00969 (Class II histocompatibility antigen, beta domain) in HLA class II histocompatibility antigen, DRB1 beta chain. Showing 1 copy in chain B.

PF00993
Domain description: Class II histocompatibility antigen, alpha domain
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
The deposited structure of PDB entry 1kg0 contains 1 copy of Pfam domain PF00993 (Class II histocompatibility antigen, alpha domain) in HLA class II histocompatibility antigen, DR alpha chain. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR003597
Domain description: Immunoglobulin C1-set
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
  2. HLA class II histocompatibility antigen, DRB1 beta chain
IPR000353
Domain description: MHC class II, beta chain, N-terminal
Occurring in:
  1. HLA class II histocompatibility antigen, DRB1 beta chain
IPR003006
Domain description: Immunoglobulin/major histocompatibility complex, conserved site
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
  2. HLA class II histocompatibility antigen, DRB1 beta chain
IPR007110
Domain description: Immunoglobulin-like domain
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
  2. HLA class II histocompatibility antigen, DRB1 beta chain
IPR036179
Domain description: Immunoglobulin-like domain superfamily
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
  2. HLA class II histocompatibility antigen, DRB1 beta chain
IPR013783
Domain description: Immunoglobulin-like fold
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
  2. HLA class II histocompatibility antigen, DRB1 beta chain
IPR011162
Domain description: MHC classes I/II-like antigen recognition protein
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
  2. HLA class II histocompatibility antigen, DRB1 beta chain
IPR001003
Domain description: MHC class II, alpha chain, N-terminal
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
IPR014745
Domain description: MHC class II, alpha/beta chain, N-terminal
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
  2. HLA class II histocompatibility antigen, DRB1 beta chain
IPR016187
Domain description: C-type lectin fold
Occurring in:
  1. Soluble gp42
IPR016186
Domain description: C-type lectin-like/link domain superfamily
Occurring in:
  1. Soluble gp42

Structure domains

CATH CATH domains
2.60.40.10
Class: Mainly Beta
Architecture: Sandwich
Topology: Immunoglobulin-like
Homology: Immunoglobulins
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
  2. HLA class II histocompatibility antigen, DRB1 beta chain
The deposited structure of PDB entry 1kg0 contains 1 copy of CATH domain 2.60.40.10 (Immunoglobulin-like) in HLA class II histocompatibility antigen, DR alpha chain. Showing 1 copy in chain A.
The deposited structure of PDB entry 1kg0 contains 1 copy of CATH domain 2.60.40.10 (Immunoglobulin-like) in HLA class II histocompatibility antigen, DRB1 beta chain. Showing 1 copy in chain B.
3.10.320.10
Class: Alpha Beta
Architecture: Roll
Topology: Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1
Homology: Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
  2. HLA class II histocompatibility antigen, DRB1 beta chain
The deposited structure of PDB entry 1kg0 contains 1 copy of CATH domain 3.10.320.10 (Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1) in HLA class II histocompatibility antigen, DR alpha chain. Showing 1 copy in chain A.
The deposited structure of PDB entry 1kg0 contains 1 copy of CATH domain 3.10.320.10 (Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1) in HLA class II histocompatibility antigen, DRB1 beta chain. Showing 1 copy in chain B.
3.10.100.10
Class: Alpha Beta
Architecture: Roll
Topology: Mannose-Binding Protein A; Chain A
Homology: Mannose-Binding Protein A, subunit A
Occurring in:
  1. Soluble gp42
The deposited structure of PDB entry 1kg0 contains 1 copy of CATH domain 3.10.100.10 (Mannose-Binding Protein A; Chain A) in Soluble gp42. Showing 1 copy in chain D [auth C].
SCOP SCOP annotations
48942
Class: All beta proteins
Fold: Immunoglobulin-like beta-sandwich
Superfamily: Immunoglobulin
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
  2. HLA class II histocompatibility antigen, DRB1 beta chain
The deposited structure of PDB entry 1kg0 contains 1 copy of SCOP domain 48942 (C1 set domains (antibody constant domain-like)) in HLA class II histocompatibility antigen, DR alpha chain. Showing 1 copy in chain A.
The deposited structure of PDB entry 1kg0 contains 1 copy of SCOP domain 48942 (C1 set domains (antibody constant domain-like)) in HLA class II histocompatibility antigen, DRB1 beta chain. Showing 1 copy in chain B.
54453
Class: Alpha and beta proteins (a+b)
Fold: MHC antigen-recognition domain
Superfamily: MHC antigen-recognition domain
Occurring in:
  1. HLA class II histocompatibility antigen, DR alpha chain
  2. HLA class II histocompatibility antigen, DRB1 beta chain
The deposited structure of PDB entry 1kg0 contains 1 copy of SCOP domain 54453 (MHC antigen-recognition domain) in HLA class II histocompatibility antigen, DR alpha chain. Showing 1 copy in chain A.
The deposited structure of PDB entry 1kg0 contains 1 copy of SCOP domain 54453 (MHC antigen-recognition domain) in HLA class II histocompatibility antigen, DRB1 beta chain. Showing 1 copy in chain B.
56437
Class: Alpha and beta proteins (a+b)
Fold: C-type lectin-like
Superfamily: C-type lectin-like
Occurring in:
  1. Soluble gp42
The deposited structure of PDB entry 1kg0 contains 1 copy of SCOP domain 56437 (C-type lectin domain) in Soluble gp42. Showing 1 copy in chain D [auth C].

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