1r5i Summary

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Crystal structure of the MAM-MHC complex

The structure was published by Zhao, Y., Li, Z., Drozd, S.J., Guo, Y., Mourad, W., and Li, H., in 2004 in a paper entitled "Crystal structure of Mycoplasma arthritidis mitogen complexed with HLA-DR1 reveals a novel superantigen fold and a dimerized superantigen-MHC complex." (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 2.6 Å and deposited in 2003.

The experimental data on which the structure is based was also deposited.

This entry contains 18 copies of 4 unique biopolymers (complete list).

It also contains one or more heterogenic compounds (e.g., ligands, co-factors, ions, modified amino acids, etc.); see here for a complete list.

The molecule has more than one probable quaternary state observed. For more details see the quaternary structure page.

The following tables show cross-reference information to other databases (to obtain a list of all PDB entries sharing the same property or classification, click on the magnifying glass icon):


Chain Name UniProt Name of source organism % of UniProt sequence present in the sample Residues in the sample molecules % of residues observed
A HLA class II histocompatibility antigen, DR alpha chain P01903 (26-206) (DRA_HUMAN)search Homo sapienssearch < 90% 181 100%
E HLA class II histocompatibility antigen, DR alpha chain P01903 (26-206) (DRA_HUMAN)search Homo sapienssearch < 90% 181 100%
B HLA class II histocompatibility antigen, DRB1-1 beta chain P04229 (30-219) (2B11_HUMAN)search Homo sapienssearch < 90% 190 100%
F HLA class II histocompatibility antigen, DRB1-1 beta chain P04229 (30-219) (2B11_HUMAN)search Homo sapienssearch < 90% 190 100%
C Hemagglutinin peptide P11133 (306-318) (HEMA_I78A9)search Influenza A virus (A/swine/Hong Kong/81/1978(H3N2))search < 90% 13 100%
G Hemagglutinin peptide P11133 (306-318) (HEMA_I78A9)search Influenza A virus (A/swine/Hong Kong/81/1978(H3N2))search < 90% 13 100%
D superantigen Q48898 (26-238) (Q48898_MYCAT)search Mycoplasma arthritidissearch 100% 216 99%
H superantigen Q48898 (26-238) (Q48898_MYCAT)search Mycoplasma arthritidissearch 100% 216 99%


This entry contains 4 unique UniProt proteins:

UniProt accession Name Organism PDB
P01903 (26 - 206) HLA class II histocompatibility antigen, DR alpha chain Homo sapiens
P04229 (30 - 219) HLA class II histocompatibility antigen, DRB1-1 beta chain Homo sapiens
P11133 (306 - 318) Hemagglutinin peptide
Q48898 (26 - 238) superantigen Mycoplasma arthritidis

Chain Structural classification (SCOP) Structural classification (CATH) Sequence family (Pfam)
A, E C1 set domains (antibody constant domain-like)search, MHC antigen-recognition domainsearch Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1search, Immunoglobulinssearch Class II histocompatibility antigen, alpha domainsearch, Immunoglobulin C1-set domainsearch
B, F C1 set domains (antibody constant domain-like)search, MHC antigen-recognition domainsearch Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1search, Immunoglobulinssearch Class II histocompatibility antigen, beta domainsearch, Immunoglobulin C1-set domainsearch
C, G Haemagglutininsearch
D, H Superantigen MAMsearch Hla class ii histocompatibility antigen, dr alpha chain. Chain D, domain 1search, mam-mhc complex, Chain D, Domain 2search Mycoplasma arthritidis-derived mitogensearch

Chain ID Biological process (GO) Cellular component (GO)
A, E (P01903) immune responsesearch antigen processing and presentationsearch membranesearch MHC class II protein complexsearch
B, F (P04229) antigen processing and presentationsearch immune responsesearch MHC class II protein complexsearch membranesearch

Chain InterPro annotation
A, E MHC class II, alpha chain, N-terminalsearch Immunoglobulin/major histocompatibility complex, conserved sitesearch Immunoglobulin C1-setsearch Immunoglobulin-like domainsearch MHC classes I/II-like antigen recognition proteinsearch Immunoglobulin-like foldsearch MHC class II, alpha/beta chain, N-terminalsearch
B, F MHC class II, beta chain, N-terminalsearch Immunoglobulin/major histocompatibility complex, conserved sitesearch Immunoglobulin C1-setsearch Immunoglobulin-like domainsearch MHC classes I/II-like antigen recognition proteinsearch Immunoglobulin-like foldsearch MHC class II, alpha/beta chain, N-terminalsearch
C, G
D, H Mycoplasma arthritidis-derived mitogen, C-terminalsearch Mycoplasma arthritidis-derived mitogen, N-terminalsearch Mycoplasma arthritidis-derived mitogensearch