3s5l Summary

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Crystal structure of CD4 mutant bound to HLA-DR1

The structure was published by Wang, X.X., Li, Y., Yin, Y., et al., Gao, W., Wang, L., and Mariuzza, R.A., in 2011 in a paper entitled "Affinity maturation of human CD4 by yeast surface display and crystal structure of a CD4-HLA-DR1 complex." (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 2.1 Å and deposited in 2011.

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

This entry contains 26 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 (26-207) (DRA_HUMAN)search Homo sapienssearch < 90% 182 98%
D HLA class II histocompatibility antigen, DR alpha chain P01903 (26-207) (DRA_HUMAN)search Homo sapienssearch < 90% 182 98%
B HLA class II histocompatibility antigen, DRB1-1 beta chain P04229 (30-221) (2B11_HUMAN)search Homo sapienssearch < 90% 193 98%
E HLA class II histocompatibility antigen, DRB1-1 beta chain P04229 (30-221) (2B11_HUMAN)search Homo sapienssearch < 90% 193 98%
C HA peptide P03437 (322-334) (HEMA_I68A0)search Influenza A virus (A/Aichi/2/1968(H3N2))search 90% 13 100%
F HA peptide P03437 (322-334) (HEMA_I68A0)search Influenza A virus (A/Aichi/2/1968(H3N2))search 90% 13 100%
G T-cell surface glycoprotein CD4 P01730 (26-203) (CD4_HUMAN)search Homo sapienssearch < 90% 191 92%
H T-cell surface glycoprotein CD4 P01730 (26-203) (CD4_HUMAN)search Homo sapienssearch < 90% 191 92%


This entry contains 4 unique UniProt proteins:

UniProt accession Name Organism PDB
P01903 (26 - 207) HLA class II histocompatibility antigen, DR alpha chain Homo sapiens
P04229 (30 - 221) HLA class II histocompatibility antigen, DRB1-1 beta chain Homo sapiens
P03437 (322 - 334) HA peptide Homo Sapiens
P01730 (26 - 203) T-cell surface glycoprotein CD4 Homo sapiens

Chain Structural classification (CATH) Sequence family (Pfam)
A, D Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1search, Immunoglobulinssearch Class II histocompatibility antigen, alpha domainsearch, Immunoglobulin C1-set domainsearch
B, E Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1search, Immunoglobulinssearch Class II histocompatibility antigen, beta domainsearch, Immunoglobulin C1-set domainsearch
C, F (P03437) PF00509: Haemagglutininsearch
G, H Immunoglobulinssearch Immunoglobulin C2-set domainsearch, Immunoglobulin V-set domainsearch

Chain ID Biological process (GO) Cellular component (GO)
A, D (P01903) immune responsesearch antigen processing and presentationsearch MHC class II protein complexsearch membranesearch
B, E (P04229) immune responsesearch antigen processing and presentationsearch MHC class II protein complexsearch membranesearch
G, H (P01730) cell adhesionsearch integral component of membranesearch

Chain InterPro annotation
A, D 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, E 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, F
G, H search Immunoglobulin subtypesearch Immunoglobulin-like domainsearch Immunoglobulin C2-setsearch Immunoglobulin V-set domainsearch Immunoglobulin-like foldsearch