4U1M
HLA class I micropolymorphisms determine peptide-HLA landscape and dictate differential HIV-1 escape through identical epitopes
Functional Information from GO Data
Chain | GOid | namespace | contents |
B | 0000139 | cellular_component | Golgi membrane |
B | 0001913 | biological_process | T cell mediated cytotoxicity |
B | 0001916 | biological_process | positive regulation of T cell mediated cytotoxicity |
B | 0002237 | biological_process | response to molecule of bacterial origin |
B | 0002474 | biological_process | antigen processing and presentation of peptide antigen via MHC class I |
B | 0002481 | biological_process | antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent |
B | 0002502 | biological_process | peptide antigen assembly with MHC class I protein complex |
B | 0002503 | biological_process | peptide antigen assembly with MHC class II protein complex |
B | 0002726 | biological_process | positive regulation of T cell cytokine production |
B | 0005198 | molecular_function | structural molecule activity |
B | 0005515 | molecular_function | protein binding |
B | 0005576 | cellular_component | extracellular region |
B | 0005615 | cellular_component | extracellular space |
B | 0005765 | cellular_component | lysosomal membrane |
B | 0005783 | cellular_component | endoplasmic reticulum |
B | 0005788 | cellular_component | endoplasmic reticulum lumen |
B | 0005794 | cellular_component | Golgi apparatus |
B | 0005829 | cellular_component | cytosol |
B | 0005886 | cellular_component | plasma membrane |
B | 0005925 | cellular_component | focal adhesion |
B | 0006826 | biological_process | iron ion transport |
B | 0006879 | biological_process | intracellular iron ion homeostasis |
B | 0006955 | biological_process | immune response |
B | 0007608 | biological_process | sensory perception of smell |
B | 0007611 | biological_process | learning or memory |
B | 0009897 | cellular_component | external side of plasma membrane |
B | 0009986 | cellular_component | cell surface |
B | 0010977 | biological_process | negative regulation of neuron projection development |
B | 0012507 | cellular_component | ER to Golgi transport vesicle membrane |
B | 0016020 | cellular_component | membrane |
B | 0019885 | biological_process | antigen processing and presentation of endogenous peptide antigen via MHC class I |
B | 0019886 | biological_process | antigen processing and presentation of exogenous peptide antigen via MHC class II |
B | 0023026 | molecular_function | MHC class II protein complex binding |
B | 0030670 | cellular_component | phagocytic vesicle membrane |
B | 0031901 | cellular_component | early endosome membrane |
B | 0031902 | cellular_component | late endosome membrane |
B | 0031905 | cellular_component | early endosome lumen |
B | 0032092 | biological_process | positive regulation of protein binding |
B | 0033077 | biological_process | T cell differentiation in thymus |
B | 0034756 | biological_process | regulation of iron ion transport |
B | 0035580 | cellular_component | specific granule lumen |
B | 0042026 | biological_process | protein refolding |
B | 0042605 | molecular_function | peptide antigen binding |
B | 0042612 | cellular_component | MHC class I protein complex |
B | 0042613 | cellular_component | MHC class II protein complex |
B | 0042802 | molecular_function | identical protein binding |
B | 0042803 | molecular_function | protein homodimerization activity |
B | 0042824 | cellular_component | MHC class I peptide loading complex |
B | 0045646 | biological_process | regulation of erythrocyte differentiation |
B | 0048260 | biological_process | positive regulation of receptor-mediated endocytosis |
B | 0050680 | biological_process | negative regulation of epithelial cell proliferation |
B | 0050768 | biological_process | negative regulation of neurogenesis |
B | 0050778 | biological_process | positive regulation of immune response |
B | 0050870 | biological_process | positive regulation of T cell activation |
B | 0051289 | biological_process | protein homotetramerization |
B | 0055038 | cellular_component | recycling endosome membrane |
B | 0060586 | biological_process | multicellular organismal-level iron ion homeostasis |
B | 0070062 | cellular_component | extracellular exosome |
B | 0071281 | biological_process | cellular response to iron ion |
B | 0071283 | biological_process | cellular response to iron(III) ion |
B | 0071316 | biological_process | cellular response to nicotine |
B | 1900121 | biological_process | negative regulation of receptor binding |
B | 1900122 | biological_process | positive regulation of receptor binding |
B | 1904434 | biological_process | positive regulation of ferrous iron binding |
B | 1904437 | biological_process | positive regulation of transferrin receptor binding |
B | 1904724 | cellular_component | tertiary granule lumen |
B | 1990000 | biological_process | amyloid fibril formation |
B | 1990712 | cellular_component | HFE-transferrin receptor complex |
B | 2000774 | biological_process | positive regulation of cellular senescence |
B | 2000978 | biological_process | negative regulation of forebrain neuron differentiation |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 8 |
Details | binding site for residue EDO A 301 |
Chain | Residue |
A | ASP122 |
A | TYR123 |
A | ALA125 |
A | THR134 |
A | ALA136 |
A | HOH533 |
A | HOH671 |
A | HOH432 |
site_id | AC2 |
Number of Residues | 5 |
Details | binding site for residue EDO A 302 |
Chain | Residue |
A | GLU46 |
A | PRO47 |
A | ARG48 |
A | HOH504 |
A | ARG35 |
site_id | AC3 |
Number of Residues | 7 |
Details | binding site for residue EDO A 303 |
Chain | Residue |
A | SER38 |
A | SER195 |
A | ASP196 |
A | EDO314 |
A | HOH401 |
A | HOH478 |
A | HOH498 |
site_id | AC4 |
Number of Residues | 5 |
Details | binding site for residue EDO A 304 |
Chain | Residue |
A | GLU166 |
A | TRP167 |
A | ARG170 |
A | EDO305 |
A | HOH681 |
site_id | AC5 |
Number of Residues | 5 |
Details | binding site for residue EDO A 305 |
Chain | Residue |
A | THR163 |
A | GLU166 |
A | TRP167 |
A | EDO304 |
A | HOH506 |
site_id | AC6 |
Number of Residues | 6 |
Details | binding site for residue EDO A 306 |
Chain | Residue |
A | ASP227 |
A | GLU229 |
A | ALA246 |
A | VAL247 |
A | HOH442 |
A | HOH443 |
site_id | AC7 |
Number of Residues | 5 |
Details | binding site for residue EDO A 307 |
Chain | Residue |
A | GLU58 |
A | TYR59 |
A | ARG62 |
A | HOH426 |
C | ARG1 |
site_id | AC8 |
Number of Residues | 7 |
Details | binding site for residue EDO A 308 |
Chain | Residue |
A | TYR85 |
A | TYR118 |
A | LYS121 |
A | ASP122 |
A | ASP137 |
A | HOH445 |
A | HOH422 |
site_id | AC9 |
Number of Residues | 6 |
Details | binding site for residue EDO A 309 |
Chain | Residue |
A | GLU148 |
A | ARG151 |
A | GLU154 |
A | HOH544 |
A | HOH586 |
A | HOH603 |
site_id | AD1 |
Number of Residues | 8 |
Details | binding site for residue EDO A 310 |
Chain | Residue |
A | GLY207 |
A | ALA236 |
A | ASP238 |
A | THR240 |
A | PHE241 |
A | GLN242 |
A | HOH472 |
B | ARG12 |
site_id | AD2 |
Number of Residues | 5 |
Details | binding site for residue EDO A 311 |
Chain | Residue |
A | THR73 |
A | HOH635 |
A | HOH403 |
C | PRO5 |
C | LEU6 |
site_id | AD3 |
Number of Residues | 6 |
Details | binding site for residue EDO A 312 |
Chain | Residue |
A | ALA149 |
A | ARG151 |
B | ASP38 |
B | ARG45 |
B | ARG81 |
B | GOL309 |
site_id | AD4 |
Number of Residues | 6 |
Details | binding site for residue EDO A 313 |
Chain | Residue |
A | ALA135 |
A | ASP137 |
A | GLN141 |
A | GLN144 |
A | HOH409 |
A | HOH555 |
site_id | AD5 |
Number of Residues | 8 |
Details | binding site for residue EDO A 314 |
Chain | Residue |
A | LYS68 |
A | GLN72 |
A | ILE194 |
A | SER195 |
A | EDO303 |
A | HOH401 |
A | HOH609 |
A | HOH512 |
site_id | AD6 |
Number of Residues | 7 |
Details | binding site for residue EDO A 315 |
Chain | Residue |
A | GLN70 |
A | THR73 |
A | ASP74 |
A | SER77 |
A | GOL319 |
C | ARG7 |
C | HOH205 |
site_id | AD7 |
Number of Residues | 6 |
Details | binding site for residue EDO A 316 |
Chain | Residue |
A | HOH576 |
A | HIS188 |
A | VAL189 |
A | LEU272 |
A | ARG273 |
A | GLU275 |
site_id | AD8 |
Number of Residues | 6 |
Details | binding site for residue EDO A 317 |
Chain | Residue |
A | ARG21 |
A | ARG131 |
A | HOH411 |
B | HIS51 |
B | HOH469 |
B | HOH435 |
site_id | AD9 |
Number of Residues | 12 |
Details | binding site for residue GOL A 318 |
Chain | Residue |
A | HIS3 |
A | ASP29 |
A | LEU179 |
A | GLU180 |
A | ARG181 |
A | ALA182 |
A | PRO210 |
A | GLU264 |
A | HOH430 |
A | HOH446 |
A | HOH551 |
A | HOH493 |
site_id | AE1 |
Number of Residues | 9 |
Details | binding site for residue GOL A 319 |
Chain | Residue |
A | ASN114 |
A | TYR116 |
A | TRP147 |
A | VAL152 |
A | ASP156 |
A | EDO315 |
C | LEU6 |
C | ARG7 |
C | EDO101 |
site_id | AE2 |
Number of Residues | 10 |
Details | binding site for residue EDO B 301 |
Chain | Residue |
A | LEU206 |
A | ARG234 |
A | GLN242 |
B | TYR10 |
B | SER11 |
B | HIS13 |
B | PRO14 |
B | HOH441 |
B | HOH474 |
B | HOH447 |
site_id | AE3 |
Number of Residues | 3 |
Details | binding site for residue EDO B 302 |
Chain | Residue |
B | LYS94 |
B | TRP95 |
B | HOH427 |
site_id | AE4 |
Number of Residues | 6 |
Details | binding site for residue EDO B 303 |
Chain | Residue |
A | ARG151 |
B | GLU36 |
B | ASP38 |
B | ARG81 |
B | ASN83 |
B | PRO90 |
site_id | AE5 |
Number of Residues | 8 |
Details | binding site for residue EDO B 304 |
Chain | Residue |
A | TYR27 |
A | PRO235 |
B | SER52 |
B | TYR63 |
B | LEU65 |
B | HOH428 |
B | HOH419 |
B | HOH502 |
site_id | AE6 |
Number of Residues | 4 |
Details | binding site for residue EDO B 305 |
Chain | Residue |
B | ASN17 |
B | GLY18 |
B | THR73 |
B | GLU74 |
site_id | AE7 |
Number of Residues | 4 |
Details | binding site for residue EDO B 306 |
Chain | Residue |
A | ASP37 |
B | ASP53 |
B | LEU54 |
B | HOH435 |
site_id | AE8 |
Number of Residues | 6 |
Details | binding site for residue EDO B 307 |
Chain | Residue |
B | GLN8 |
B | VAL9 |
B | LYS94 |
B | ASP96 |
B | HOH430 |
B | HOH448 |
site_id | AE9 |
Number of Residues | 5 |
Details | binding site for residue EDO B 308 |
Chain | Residue |
A | SER92 |
A | ARG157 |
B | ASP34 |
B | HOH401 |
B | HOH464 |
site_id | AF1 |
Number of Residues | 4 |
Details | binding site for residue GOL B 309 |
Chain | Residue |
A | EDO312 |
B | GLY43 |
B | ARG45 |
B | ARG81 |
site_id | AF2 |
Number of Residues | 8 |
Details | binding site for residue GOL B 310 |
Chain | Residue |
A | SER88 |
A | ARG108 |
B | ARG12 |
B | HIS13 |
B | PHE22 |
B | HOH406 |
B | HOH418 |
B | HOH429 |
site_id | AF3 |
Number of Residues | 7 |
Details | binding site for residue EDO C 101 |
Chain | Residue |
A | GLN70 |
A | GOL319 |
C | GLN3 |
C | VAL4 |
C | PRO5 |
C | LEU6 |
C | HOH205 |
Functional Information from PROSITE/UniProt
site_id | PS00290 |
Number of Residues | 7 |
Details | IG_MHC Immunoglobulins and major histocompatibility complex proteins signature. YTCHVQH |
Chain | Residue | Details |
A | TYR257-HIS263 | |
B | TYR78-HIS84 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 1 |
Details | MOD_RES: Pyrrolidone carboxylic acid; in form pI 5.3 => ECO:0000269|PubMed:7554280 |
Chain | Residue | Details |
B | GLN2 | |
A | TYR84 | |
A | THR143 | |
A | LYS146 | |
A | VAL152 | |
A | TYR159 | |
A | TYR171 |
site_id | SWS_FT_FI2 |
Number of Residues | 1 |
Details | CARBOHYD: N-linked (Glc) (glycation) isoleucine; in hemodialysis-associated amyloidosis => ECO:0000269|PubMed:7918443 |
Chain | Residue | Details |
B | ILE1 |
site_id | SWS_FT_FI3 |
Number of Residues | 6 |
Details | CARBOHYD: N-linked (Glc) (glycation) lysine; in vitro => ECO:0000269|PubMed:7918443 |
Chain | Residue | Details |
B | LYS19 | |
B | LYS41 | |
B | LYS48 | |
B | LYS58 | |
B | LYS91 | |
B | LYS94 |