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Classification immune system    | release date: Thu, Apr 29, 2010
Title crystal structure of mhc class i hla-a2 molecule complexed w nonapeptide
Authors A.CHOUQUET, D.HOUSSET, E.DEBEAUPUIS, K.ECHASSERIEAU, M.BONNEVILLE, S.GRAS, X.SAULQUIN
Method X-RAY DIFFRACTION (resolution: 1.40Å)
PDBe Citation   
Ligand bond colours:   *  covalent   *  ionic   *  hydrogen   *  electrostatic   *  van-der-waals   *  plane-atom   *  plane-plane   *  undefined  - Click here to show 5Å bonds
Chain A sequence:
GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYWDGETRKVKAHSQTHRVDLGT
LRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDGKDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYL
EGTCVEWLRRYLENGKETLQRTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGT
FQKWVAVVVPSGQEQRYTCHVQHEGLPKPLTLRWEPGSLHHILDAQKMVWNHR
Chain B sequence:
MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDWSFYLLYYTEFTPTEKDEYA
CRVNHVTLSQPKIVKWDRDM
Chain P sequence:
PLFQVPEPV
Residue colours:  hydrophilic   hydrophobic   intermediate 
Assembly 1     View the assembly/model: ( JMolViewer Download PDB file RasMol script viewer AstexViewer™@MSD-EBI )
Motif search   chain:    Sequence numbers: 
   Using:   φ/ψ    residues code    secondary structures   
 coordinates of:  Cαs Side-chain
 
      View the fragment: rasmol script JMol viewer
chain A : HLA CLASS I HISTOCOMPATIBILITY ANTIGEN, A-2 ALPHA
member of: CATH:search2.60.40.10/search3.30.500.10GENE3D:searchG3DSA_2.60.40.10/searchG3DSA_3.30.500.10PANTHER:searchPTHR16675/searchPTHR16675_SF149PFAM:searchPF00129/searchPF07654PRINTS:searchMHCCLASSIPROSITE PATTERNS:searchPS00290, PROSITE PROFILES:searchPS50835, SMART:searchSM00407SUPERFAMILY:searchSSF48726/searchSSF54452UniProt:searchP01892
sec str:  ....eeeeeeeeee........eeeeeeee..eeeeeee........ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........eeeeeeeeee.....eeeeeeeeee..eeeeee......eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeee....eeeeeeeeeee.....eeeeee..eee...ee....ee.....eeeeeeeeee..hhh.eeeeee.......eeee.
sequence :  ..GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYWDGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDGKDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETLQRTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGTFQKWVAVVVPSGQEQRYTCHVQHEGLPKPLTLRW
seq num:  ..1         11        21        31        41        51        61        71        81        91        101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271 
search RasMol script viewer Motif-ligand binding stats  ASN_GLYCOSYLATION ..   | |                              | |||| |       |  |        | |      | |   || | ||^***||        |   ||||| ||               | |||| |  |    | |  || ||||         |  |           |  |             | || | |  |  | | |           ||| |       |||||         |||||  | |   |  |    | | 
search RasMol script viewer Motif-ligand binding stats  PKC_PHOSPHO_SITE ..   ^**                              | |||^**       |  |        ^**      ^**   |^** || || ||        |   ||||| ||               | |||| |  |    ^**  || ||||         |  |           |  |             | || ^**  |  | | |           ||| |       |||||         |||||  | |   |  |    ^** 
search RasMol script viewer Motif-ligand binding stats  CK2_PHOSPHO_SITE ..                                    | |||| |       |  |                       |    || || ||        |   ||||| ||               | |||| ^***         || ||||         ^***           |  |             ^***      |  | | |           ||| |       |||||         |^***  | |   |  |        
search RasMol script viewer Motif-ligand binding stats  MYRISTYL ..                                    | |||| |       |  |                       ^*****| || ||        ^*****||| ||               | ||||              || ||||                        |  |             | ||      |  | | |           ||| |       |||||         | |||  | |   |  |        
search RasMol script viewer Motif-ligand binding stats  IG_MHC ..                                    | |||| |       |  |                             | || ||            | ||| ||               | ||||              || ||||                        |  |             | ||      |  | | |           ||| |       |||||         | |||  **^****  |        
search RasMol script viewer Motif-ligand binding stats  asxmotif ..                                    *****| |       |  |                             | || ||            | ||| ||               | ||||              || ||||                        |  |             | ||      |  | | |           ||| |       |||||         | |||  |     |  |        
search RasMol script viewer Motif-ligand binding stats  asxturn ..                                    ***| | |       |  |                             | || ||            | ||| ||               | ||||              || ||||                        |  |             | ||      |  | | |           ||| |       ||***         | |||  |     |  |        
search RasMol script viewer Motif-ligand binding stats  betabulge ..                                    |  | | |       |  |                             | || ||            | ||| **               | ||||              || ||||                        |  |             | ||      |  | | |           ||| |       |||||         | |||  |     |  |        
search RasMol script viewer Motif-ligand binding stats  betabulgeloop ..                                    |  | | |       |  |                             | || ||            *****                  | ||||              || ||||                        |  |             | ||      |  | | |           ||| |       |||||         | |||  |     |  |        
search RasMol script viewer Motif-ligand binding stats  betaturn ..                                    **** | |       ****                             | || ||            ****|                  ****||              |****||                        |  |             | ||      |  | | |           ||| |       |||||         ****|  |     ****        
search RasMol script viewer Motif-ligand binding stats  nest ..                                    |  | ***       |  |                             ***| ||              ***                    ****              |  ****                        |  |             | ||      |  | | |           ||| |       *****           ***  |     |  |        
search RasMol script viewer Motif-ligand binding stats  niche ..                                    ****           ****                                ****                                                       |    |                         ****             ****      **** ***           *****                         ****     ****        
search RasMol script viewer Motif-ligand binding stats  schellmannloop ..                                                                                       | |                                                        ******                                          | |                                                                             
search RasMol script viewer Motif-ligand binding stats  stturn ..                                                                                       ***                                                                                                        ***                                                                             

chain B : BETA-2-MICROGLOBULIN
member of: GENE3D:searchG3DSA_2.60.40.10PANTHER:searchPTHR19944PFAM:searchPF07654PROSITE PATTERNS:searchPS00290, PROSITE PROFILES:searchPS50835, SMART:searchSM00407SUPERFAMILY:searchSSF48726UniProt:searchP61769
sec str:  ........eeeeee.........eeeeeeeeee.....eeeeee..ee....ee...ee.....eeeeeeeee.......eeeeee.......eeee....
sequence :  ..MIQRTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDWSFYLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRD
seq num:  ..0         10        20        30        40        50        60        70        80        90       
search RasMol script viewer Motif-ligand binding stats  PKC_PHOSPHO_SITE ..    ^**         |  |       |  | ||| |         |  |         | |         | ^**  | |   |  |           
search RasMol script viewer Motif-ligand binding stats  CK2_PHOSPHO_SITE ..                |  |       |  | |^***         |  |         | |         ^***   | |   |  |           
search RasMol script viewer Motif-ligand binding stats  IG_MHC ..                |  |       |  | | |           |  |         | |                **^****  |           
search RasMol script viewer Motif-ligand binding stats  betaturn ..                ****       |  | | |           |  |         | |                      ****           
search RasMol script viewer Motif-ligand binding stats  nest ..                |  |       |  | | |           |  |         ***                      |  |           
search RasMol script viewer Motif-ligand binding stats  niche ..                ****       **** ***           ****                                  ****           

chain P : 9-MERIC PEPTIDE FROM ALPHA-FETOPROTEIN
member of: PANTHER:searchPTHR11385/searchPTHR11385_SF7PFAM:searchPF00273PIRSF:searchPIRSF002520PROSITE PROFILES:searchPS51438, SMART:searchSM00103SUPERFAMILY:searchSSF48552UniProt:searchP02771
sec str:  ...........
sequence :  ..PLFQVPEPV
seq num:  ..1        

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