Crystal structure of CD1d-lipid-antigen complexed with Beta-2-Microglobulin, NKT15 Alpha-Chain and NKT15 Beta-Chain


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
GSCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8054547 3000071 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8054547 3000071 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8003766 3000071 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8003766 3000071 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyMHC antigen-recognition domain 8035878 3000521 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyImmunoglobulin (Ig) domain-like 8054665 3000071 SCOP2B (2022-06-29)
ASCOP2 FamilyMHC antigen-recognition domain 8023498 4001031 SCOP2 (2022-06-29)
ASCOP2 FamilyC1 set domains-like 8054664 4000202 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyMHC antigen-recognition domain 8035878 3000521 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyImmunoglobulin (Ig) domain-like 8054665 3000071 SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
HV-sete2po6H3 A: alpha arraysX: Subtilisin-likeH: Subtilisin-likeT: Subtilisin-likeF: V-setECOD (v295.2)
DV-sete2po6D3 A: alpha arraysX: Subtilisin-likeH: Subtilisin-likeT: Subtilisin-likeF: V-setECOD (v295.2)
GDAO, NAD_binding_8e2po6G1 A: alpha arraysX: HTHH: HTHT: tetra-helical, lambda repressor-likeF: DAO, NAD_binding_8ECOD (v295.2)
CDAO, NAD_binding_8e2po6C1 A: alpha arraysX: HTHH: HTHT: tetra-helical, lambda repressor-likeF: DAO, NAD_binding_8ECOD (v295.2)
FCopper-binde2po6F1 A: alpha arraysX: Phage tail fiber protein trimerization domainH: Phage tail fiber protein trimerization domainT: Phage tail fiber protein trimerization domainF: Copper-bindECOD (v295.2)
BCopper-binde2po6B1 A: alpha arraysX: Phage tail fiber protein trimerization domainH: Phage tail fiber protein trimerization domainT: Phage tail fiber protein trimerization domainF: Copper-bindECOD (v295.2)
ECopper-binde2po6E1 A: alpha arraysX: Phage tail fiber protein trimerization domainH: Phage tail fiber protein trimerization domainT: Phage tail fiber protein trimerization domainF: Copper-bindECOD (v295.2)
EAnthrax_toxAe2po6E2 A: alpha arraysX: ETN0001 domain-likeH: ETN0001 domain-likeT: Mss4-likeF: Anthrax_toxAECOD (v295.2)
ACopper-binde2po6A1 A: alpha arraysX: Phage tail fiber protein trimerization domainH: Phage tail fiber protein trimerization domainT: Phage tail fiber protein trimerization domainF: Copper-bindECOD (v295.2)
AAnthrax_toxAe2po6A2 A: alpha arraysX: ETN0001 domain-likeH: ETN0001 domain-likeT: Mss4-likeF: Anthrax_toxAECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

IMGT Antibody Annotation IMGT Database Homepage

ChainProtein NameDescriptionOrganism NameGene Allele Name(s)Domain Name(s)Receptor TypeReceptor DescriptionProvenance Source
D, H
TR NKT15 TRAV10*01-TRAJ18*01, TRBV25-1*01 semi-invariant TR-BETA-2 Homo sapiens (human) TRBV25-1*01, TRBJ2-7*01, TRBC2*01, TRBC2*02 V-DOMAIN V-BETA, C-DOMAIN C-BETA-2 TR TR-ALPHA_BETA-2 IMGT (202632-0)
C, G
TR NKT15 TRAV10*01-TRAJ18*01, TRBV25-1*01 semi-invariant TR-ALPHA Homo sapiens (human) TRAV10*01, TRAJ18*01, TRAC*01 V-DOMAIN V-ALPHA, C-DOMAIN C-ALPHA TR TR-ALPHA_BETA-2 IMGT (202632-0)
B, F
CD1D B2M Homo sapiens (human) B2M*01, B2M*02 C-LIKE-DOMAIN C-LIKE RPI-MH1Like MH1LIKE-ALPHA-LIKE_B2M IMGT (202632-0)
A, E
CD1D I-ALPHA-LIKE Homo sapiens (human) CD1D*01 G-DOMAIN G-ALPHA1-LIKE, G-DOMAIN G-ALPHA2-LIKE, C-LIKE-DOMAIN C-LIKE RPI-MH1Like MH1LIKE-ALPHA-LIKE_B2M IMGT (202632-0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
D, H
PF07686Immunoglobulin V-set domain (V-set)Immunoglobulin V-set domainThis domain is found in antibodies as well as neural protein P0 and CTL4 amongst others. Domain
D, H
PF07654Immunoglobulin C1-set domain (C1-set)Immunoglobulin C1-set domainDomain
C, G
PF09291Domain of unknown function (DUF1968) (DUF1968)Domain of unknown function (DUF1968)Members of this family are found in mammalian T-cell antigen receptor, and adopt an immunoglobulin-like beta-sandwich fold, with seven strands in two beta-sheets in a Greek-key topology. Their exact function has not, as yet, been determined. Domain
B, F
PF07654Immunoglobulin C1-set domain (C1-set)Immunoglobulin C1-set domainDomain
A, E
PF16497MHC-I family domain (MHC_I_3)MHC-I family domainDomain
A, E
PF07654Immunoglobulin C1-set domain (C1-set)Immunoglobulin C1-set domainDomain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
D, H
NKT15 beta-chain
C, G
NKT15 alpha-chain-
B, F
Beta-2-microglobulin
A, E
T-cell surface glycoprotein CD1d

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
D, H
IPR036179Immunoglobulin-like domain superfamilyHomologous Superfamily
D, H
IPR050413T cell receptor beta variableFamily
D, H
IPR003597Immunoglobulin C1-setDomain
D, H
IPR013783Immunoglobulin-like foldHomologous Superfamily
D, H
IPR013106Immunoglobulin V-set domainDomain
D, H
IPR003599Immunoglobulin domain subtypeDomain
D, H
IPR007110Immunoglobulin-like domainDomain
C, G
IPR013783Immunoglobulin-like foldHomologous Superfamily
C, G
IPR036179Immunoglobulin-like domain superfamilyHomologous Superfamily
C, G
IPR015370T-cell receptor alpha chain, constant domainDomain
B, F
IPR036179Immunoglobulin-like domain superfamilyHomologous Superfamily
B, F
IPR003006Immunoglobulin/major histocompatibility complex, conserved siteConserved Site
B, F
IPR013783Immunoglobulin-like foldHomologous Superfamily
B, F
IPR007110Immunoglobulin-like domainDomain
B, F
IPR050160Major Histocompatibility Complex/ImmunoglobulinFamily
B, F
IPR003597Immunoglobulin C1-setDomain
B, F
IPR015707Beta-2-MicroglobulinFamily
A, E
IPR036179Immunoglobulin-like domain superfamilyHomologous Superfamily
A, E
IPR050208Antigen-presenting and immune regulatory MHC class I-relatedFamily
A, E
IPR003597Immunoglobulin C1-setDomain
A, E
IPR011161MHC class I-like antigen recognition-likeDomain
A, E
IPR011162MHC classes I/II-like antigen recognition proteinHomologous Superfamily
A, E
IPR037055MHC class I-like antigen recognition-like superfamilyHomologous Superfamily
A, E
IPR013783Immunoglobulin-like foldHomologous Superfamily
A, E
IPR007110Immunoglobulin-like domainDomain

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
C, G
P01848
B, F
P61769
A, E
P15813