6CPL
Crystal structure of DR11 presenting the gag293 epitope
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000139 | cellular_component | Golgi membrane |
| A | 0001772 | cellular_component | immunological synapse |
| A | 0001916 | biological_process | positive regulation of T cell mediated cytotoxicity |
| A | 0002250 | biological_process | adaptive immune response |
| A | 0002469 | biological_process | myeloid dendritic cell antigen processing and presentation |
| A | 0002491 | biological_process | antigen processing and presentation of endogenous peptide antigen via MHC class II |
| A | 0002503 | biological_process | peptide antigen assembly with MHC class II protein complex |
| A | 0002504 | biological_process | antigen processing and presentation of peptide or polysaccharide antigen via MHC class II |
| A | 0005515 | molecular_function | protein binding |
| A | 0005764 | cellular_component | lysosome |
| A | 0005765 | cellular_component | lysosomal membrane |
| A | 0005768 | cellular_component | endosome |
| A | 0005783 | cellular_component | endoplasmic reticulum |
| A | 0005789 | cellular_component | endoplasmic reticulum membrane |
| A | 0005886 | cellular_component | plasma membrane |
| A | 0006955 | biological_process | immune response |
| A | 0009986 | cellular_component | cell surface |
| A | 0012507 | cellular_component | ER to Golgi transport vesicle membrane |
| A | 0016020 | cellular_component | membrane |
| A | 0019882 | biological_process | antigen processing and presentation |
| A | 0019886 | biological_process | antigen processing and presentation of exogenous peptide antigen via MHC class II |
| A | 0023026 | molecular_function | MHC class II protein complex binding |
| A | 0030247 | molecular_function | polysaccharide binding |
| A | 0030658 | cellular_component | transport vesicle membrane |
| A | 0030666 | cellular_component | endocytic vesicle membrane |
| A | 0030669 | cellular_component | clathrin-coated endocytic vesicle membrane |
| A | 0031901 | cellular_component | early endosome membrane |
| A | 0031902 | cellular_component | late endosome membrane |
| A | 0032395 | molecular_function | MHC class II receptor activity |
| A | 0032588 | cellular_component | trans-Golgi network membrane |
| A | 0032831 | biological_process | positive regulation of CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation |
| A | 0042605 | molecular_function | peptide antigen binding |
| A | 0042608 | molecular_function | T cell receptor binding |
| A | 0042613 | cellular_component | MHC class II protein complex |
| A | 0043382 | biological_process | positive regulation of memory T cell differentiation |
| A | 0045622 | biological_process | regulation of T-helper cell differentiation |
| A | 0050778 | biological_process | positive regulation of immune response |
| A | 0050870 | biological_process | positive regulation of T cell activation |
| A | 0050890 | biological_process | cognition |
| A | 0070062 | cellular_component | extracellular exosome |
| A | 0098553 | cellular_component | lumenal side of endoplasmic reticulum membrane |
| A | 0120281 | cellular_component | autolysosome membrane |
| A | 2000516 | biological_process | positive regulation of CD4-positive, alpha-beta T cell activation |
| B | 0006955 | biological_process | immune response |
| B | 0016020 | cellular_component | membrane |
| B | 0019882 | biological_process | antigen processing and presentation |
| B | 0042613 | cellular_component | MHC class II protein complex |
Functional Information from PROSITE/UniProt
| site_id | PS00290 |
| Number of Residues | 7 |
| Details | IG_MHC Immunoglobulins and major histocompatibility complex proteins signature. YDCRVEH |
| Chain | Residue | Details |
| A | TYR161-HIS167 | |
| B | TYR171-HIS177 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 4 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:31619516, ECO:0000269|PubMed:8145819 |
| Chain | Residue | Details |
| B | ASP57 | |
| B | TRP61 | |
| B | HIS81 | |
| B | ASN82 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 1 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:8145819 |
| Chain | Residue | Details |
| B | ARG93 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 1 |
| Details | CARBOHYD: N-linked (GlcNAc...) asparagine => ECO:0000269|PubMed:19303388, ECO:0000269|PubMed:24190431 |
| Chain | Residue | Details |
| B | ASN19 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 1 |
| Details | SITE: Self- and pathogen-derived peptide antigen => ECO:0000269|PubMed:17583734, ECO:0000269|PubMed:21115828, ECO:0000269|PubMed:23260142, ECO:0000269|PubMed:8145819, ECO:0007744|PDB:4GBX |
| Chain | Residue | Details |
| A | GLN9 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 2 |
| Details | SITE: Self-peptide antigen => ECO:0000269|PubMed:31619516 |
| Chain | Residue | Details |
| A | GLY49 | |
| A | ALA52 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 1 |
| Details | SITE: Self- and pathogen-derived peptide antigen => ECO:0000269|PubMed:21115828, ECO:0000269|PubMed:8145819 |
| Chain | Residue | Details |
| A | PHE51 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 1 |
| Details | SITE: Self- and pathogen-derived peptide antigen => ECO:0000269|PubMed:17583734, ECO:0000269|PubMed:21115828, ECO:0000269|PubMed:31619516, ECO:0000269|PubMed:8145819 |
| Chain | Residue | Details |
| A | SER53 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 1 |
| Details | SITE: Pathogen-derived peptide antigen => ECO:0000269|PubMed:23260142, ECO:0007744|PDB:4GBX |
| Chain | Residue | Details |
| A | GLU55 |
| site_id | SWS_FT_FI9 |
| Number of Residues | 1 |
| Details | SITE: Self- and pathogen-derived peptide antigen => ECO:0000269|PubMed:17583734, ECO:0000269|PubMed:21115828, ECO:0000269|PubMed:23260142, ECO:0000269|PubMed:31619516, ECO:0000269|PubMed:8145819, ECO:0007744|PDB:4GBX |
| Chain | Residue | Details |
| A | ASN62 |
| site_id | SWS_FT_FI10 |
| Number of Residues | 1 |
| Details | SITE: Pathogen-derived peptide antigen => ECO:0000269|PubMed:17583734, ECO:0000269|PubMed:21115828, ECO:0000269|PubMed:23260142, ECO:0000269|PubMed:8145819, ECO:0007744|PDB:4FQX, ECO:0007744|PDB:4GBX |
| Chain | Residue | Details |
| A | ASN69 |
| site_id | SWS_FT_FI11 |
| Number of Residues | 1 |
| Details | SITE: Self- and pathogen-derived peptide antigen => ECO:0000269|PubMed:17583734, ECO:0000269|PubMed:23260142, ECO:0000269|PubMed:31619516, ECO:0000269|PubMed:8145819, ECO:0007744|PDB:4FQX, ECO:0007744|PDB:4GBX |
| Chain | Residue | Details |
| A | ARG76 |
| site_id | SWS_FT_FI12 |
| Number of Residues | 2 |
| Details | CARBOHYD: N-linked (GlcNAc...) asparagine => ECO:0000269|PubMed:19159218, ECO:0000269|PubMed:7477400 |
| Chain | Residue | Details |
| A | ASN78 | |
| A | ASN118 |
| site_id | SWS_FT_FI13 |
| Number of Residues | 2 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:19117940 |
| Chain | Residue | Details |
| A | LYS219 |
Catalytic Information from CSA
