triangle PDBeMotif: 2xn9  
  coner Sequences coner   coner 3D motifs coner   coner Ligand environment coner   coner Ligand bonds coner
   
coner
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coner
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Classification immune system    | release date: Sat, Jul 31, 2010
Title crystal structure of the ternary complex between human t cel receptor, staphylococcal enterotoxin h and human major histocompatibility complex class ii
Authors B.G.KARLSSON, G.FISCHER, K.E.J.RODSTROM, K.LINDKVIST-PETERSSON, M.SALINE, V.Y.OREKHOV
Method X-RAY DIFFRACTION (resolution: 2.30Å)
PDBe Citation   
Small molecules:    search GOL GOL binding statistics GOL   search NA NA binding statistics NA
Ligand bond colours:   *  covalent   *  ionic   *  hydrogen   *  electrostatic   *  van-der-waals   *  plane-atom   *  plane-plane   *  undefined  - Click here to show 5Å bonds
Chain A sequence:
MQLLEQSPQFLSIQEGENLTVYCNSSSVFSSLQWYRQEPGEGPVLLVTVVTGGEVKKLKRLTFQFGDARKDSSLHITAAQ
PGDTGLYLCAGAGSQGNLIFGKGTKLSVKPNIQNPDPAVYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVL
DMRSMDFKSNSAVAWSNKSDFACANAFNNSIIPEDTFFPSPESS
Chain B sequence:
MVDGGITQSPKYLFRKEGQNVTLSCEQNLNHDAMYWYRQDPGQGLRLIYYSQIVNDFQKGDIAEGYSVSREKKESFPLTV
TSAQKNPTAFYLCASSSRSSYEQYFGPGTRLTVTEDLKNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWW
VNGKEVHSGVCTDPQPLKEQPALNDSRYSLSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAW
GRAD
Chain C sequence:
EDLHDKSELTDLALANAYGQYNHPFIKENIKSDEISGEKDLIFRNQGDSGNDLRVKFATADLAQKFKNKNVDIYGASFYY
KCEKISENISECLYGGTTLNSEKLAQERVIGANVWVDGIQKETELIRTNKKNVTLQELDIKIRKILSDKYKIYYKDSEIS
KGLIEFDMKTPRDYSFDIYDLKGENDYEIDKIYEDNKTLKSDDISHIDVNLYTKKKV
Chain D sequence:
IKEEHVIIQAEFYLNPDQSGEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNYT
PITNVPPEVTVLTNSPVELREPNVLICFIDKFTPPVVNVTWLRNGKPVTTGVSETVFLPREDHLFRKFHYLPFLPSTEDV
YDCRVEHWGLDEPLLKHWEFDA
Chain E sequence:
GDTRPRFLWQLKFECHFFNGTERVRLLERCIYNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCR
HNYGVGESFTVQRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVM
LETVPRSGEVYTCQVEHPSVTSPLTVEWRA
Chain F sequence:
PKYVKQNTLKLAT
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 : T CELL RECEPTOR ALPHA CHAIN C REGION
member of: CATH:search2.60.40.10GENE3D:searchG3DSA_2.60.40.10PANTHER:searchPTHR19433/searchPTHR19433_SF5PFAM:searchPF09291SUPERFAMILY:searchSSF48726UniProt:searchP01848
JMol viewer RasMol script viewer  NA 1216C  ..                                                                                                                                                                                                       
JMol viewer RasMol script viewer  GOL 1245B  ..                                                                                                                                                                                                       
JMol viewer RasMol script viewer  GOL 1201A  ..                                                                                                                                                                * **                                   
sec str:  .....eee..eeeee....eeeeee.......eeeeee......eeeeee.....eeee..eeeee.....eeeeee...hhhhheeeeeee.......ee...eeeeee..........................................eee...eeeeehhhheeeeeeeeee.....hhhhhh.............
sequence :  ..QLLEQSPQFLSIQEGENLTVYCNSSSVFSSLQWYRQEPGEGPVLLVTVVTGGEVKKLKRLTFQFGDARKDSSLHITAAQPGDTGLYLCAGAGSQGNLIFGKGTKLSVKPNIQNPDPAVYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNKSDFACANAFNNSIIPEDTFFPS
seq num:  ..2         12        22        32        42        52        62        72        82        92        102       112       122       132       142       152       162       172       182       192      
search RasMol script viewer Motif-ligand binding stats  ASN_GLYCOSYLATION ..          | || |^***  ^***          |  |         |  |    | ||   | |||||       || |||    |  |    |    |   |||                | | |    || ||  |^***  | ||  | |       | |        |^***|     |^*** |  |    
search RasMol script viewer Motif-ligand binding stats  CAMP_PHOSPHO_SITE ..          | || |       | |          |  |         |  |    **^*   | |**^*       || |||    |  |    |    |   |||                | | |    || ||  |      | ||  | |       | |        | |  |     |  |  |  |    
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  asxturn ..            |  |       | |          |  |         |  |    | |    | ||||        || ||                                         | | |    |  ||  |      ***|            | |        | |  |     |  |  |  |    
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  stturn ..                       ***                                                                                                                                                    ***                      

chain B : T CELL RECEPTOR BETA-1 CHAIN C REGION
member of: CATH:search2.60.40.10GENE3D:searchG3DSA_2.60.40.10PANTHER:searchPTHR23268/searchPTHR23268_SF4PFAM:searchPF07654PROSITE PROFILES:searchPS50835, SMART:searchSM00407SUPERFAMILY:searchSSF48726UniProt:searchP01850
JMol viewer RasMol script viewer  GOL 1247B  ..                           ***                                                                *                                                                                                                                                   
JMol viewer RasMol script viewer  GOL 1246B  ..                           |||                                                                |            *                                          *                     **           *                                                        
JMol viewer RasMol script viewer  GOL 1245B  ..                           |||                                                                |            |                                          |                     ||           |       **                                               
JMol viewer RasMol script viewer  GOL 1201A  ..                           |||                                                                |            |                                          |              **     ||           |      *||                                               
sec str:  .....eeee..eeeee....eeeeeee.....eeeeeeee...eeeeeeeeee..eeee......eee.........eee........eeeeeeee.......ee...eeeeee.hhhhh..........hhhhhhhhh...............eeeeeee..eee...eee....ee.........eeeeeeeeeehhhhh....eeeeeeee..................eeeeeeee....
sequence :  ..DGGITQSPKYLFRKEGQNVTLSCEQNLNHDAMYWYRQDPGQGLRLIYYSQIVNDFQKGDIAEGYSVSREKKESFPLTVTSAQKNPTAFYLCASSSRSSYEQYFGPGTRLTVTEDLKNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQPALNDSRYSLSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAWGRAD
seq num:  ..3         13        23        33        43        53        63        73        83        93        103       113       123       133       143       153       163       173       183       193       203       213       223       233         
search RasMol script viewer Motif-ligand binding stats  ASN_GLYCOSYLATION ..      | |    | ||^***     | | |      | |||        |  |     ||| |     | ||     | |||| |       ||||| |     |   || |||| |          || ||| | |      |  |               ||| |         |  |^***   | |   |  || | ||         | |  | | |   | |             
search RasMol script viewer Motif-ligand binding stats  CAMP_PHOSPHO_SITE ..      | |    | ||   |     | | |      | |||        |  |     ||| |     **^*     | |||| |       ||||| |     |   || |||| |          || ||| | |      |  |               ||| |         |  |       | |   |  || | ||         | |  | | |   | |             
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  asxturn ..             |  |         | | |      | |||        |  |     ||| |     |  |     | |||| |        |  | |             *** |          || ||| | |      |  |               ||| |         |  |             |  || ***|                | |   | |             
search RasMol script viewer Motif-ligand binding stats  betaturn ..             |  |         | | |      ****|        ****     |****     |  |     ****|| |        |  | |              |  |          || ||| | |      |  |               ||| |         ****             |  || |  |                | |   | |             
search RasMol script viewer Motif-ligand binding stats  gammaturn ..             |  |         | | |        | |        |  |     ||| |     |  |     | |||| |        |  | |              |  |          || ||| | |      |  |               ||| |         |  |             |  || |  |                | |   ***             
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  stmotif ..                                                                              *****              | |                            *****| | |                                                        *****                                           
search RasMol script viewer Motif-ligand binding stats  ststaple ..                                                                              | |                | |                             ******* |                                                                                                        
search RasMol script viewer Motif-ligand binding stats  stturn ..                                                                              ***                ***                                   ***                                                                                                        

chain C : ENTEROTOXIN H
member of: CATH:search2.40.50.110/search3.10.20.120GENE3D:searchG3DSA_2.40.50.110/searchG3DSA_3.10.20.120PFAM:searchPF01123/searchPF02876PRINTS:searchBACTRLTOXIN/searchSAGSUPRFAMLYPROSITE PATTERNS:searchPS00278, SUPERFAMILY:searchSSF50203/searchSSF54334UniProt:searchP0A0M0
JMol viewer RasMol script viewer  NA 1216C  ..                      *                                                     *                                                                                                                                          
sec str:  ......hhhhhhhhhhhhhhhhhhh.eeeeee....ee...eeee...hhhhheeeee..hhhhhhhhh...eeeee.ee...........eeeee..eee...eeeeeeeeeeeeee..ee...eeeeeee.eeehhhhhhhhhhhhhhhhh.........eeeeeeee.....eeee.......hhhhhhhhhh...eee...eeeeeeeee...
sequence :  ..EDLHDKSELTDLALANAYGQYNHPFIKENIKSDEISGEKDLIFRNQGDSGNDLRVKFATADLAQKFKNKNVDIYGASFYYKCEKISENISECLYGGTTLNSEKLAQERVIGANVWVDGIQKETELIRTNKKNVTLQELDIKIRKILSDKYKIYYKDSEISKGLIEFDMKTPRDYSFDIYDLKGENDYEIDKIYEDNKTLKSDDISHIDVNLYTKK
seq num:  ..1         11        21        31        41        51        61        71        81        91        101       111       121       131       141       151       161       171       181       191       201       211  
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  STAPH_STREP_TOXIN_2 ..     |  ||   |                 | |  ||||    | |           |   || || |        ||| |   | |            | |            |  |        | ************************|  | |||      | | |          | |         | |   |  |||         
search RasMol script viewer Motif-ligand binding stats  betabulge ..     |  ||   |                 | |  ||||    | |           |   || || |        ||| |   | |            | |            |  |        | |                   |||||  | |**      | | |          | |         | |   |  |**         
search RasMol script viewer Motif-ligand binding stats  betaturn ..     |  ||   |                 | |  ||||    | |           |   || ****        ||| |   | |            | |            ****        | |                   |****  | |        | | |          | |         | |   |  |           
search RasMol script viewer Motif-ligand binding stats  gammaturn ..     |  ||   |                 | |  ***|    | |           |   || || |        ||| |   | |            ***                        | |                   |||||  | |        | | |          | |         | |   |  |           
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  stmotif ..         *****                 | |                        *****                      | |                                       | |                                                                                     
search RasMol script viewer Motif-ligand binding stats  stturn ..                               ***                                                   ***                                       ***                                                                                     

chain D : HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DR ALPHA
member of: CATH:search2.60.40.10/search3.10.320.10GENE3D:searchG3DSA_2.60.40.10/searchG3DSA_3.10.320.10PANTHER:searchPTHR19944/searchPTHR19944_SF27PFAM:searchPF00993/searchPF07654PROSITE PATTERNS:searchPS00290, PROSITE PROFILES:searchPS50835, SMART:searchSM00407/searchSM00920SUPERFAMILY:searchSSF48726/searchSSF54452UniProt:searchP01903
sec str:  ...eeeeeeeeeee...eeeeeeee..eeeeeee....eeee...hhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..........eeeeee.........eeeeeeeeee.....eeeeee..eee....ee...ee.....eeeeeeeee......eeeeeee.......eeeeee..
sequence :  ..EHVIIQAEFYLNPDQSGEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNYTPITNVPPEVTVLTNSPVELREPNVLICFIDKFTPPVVNVTWLRNGKPVTTGVSETVFLPREDHLFRKFHYLPFLPSTEDVYDCRVEHWGLDEPLLKHWEFD
seq num:  ..4         14        24        34        44        54        64        74        84        94        104       114       124       134       144       154       164       174     
search RasMol script viewer Motif-ligand binding stats  ASN_GLYCOSYLATION ..             | |                  | ||       |  |     |    |      |   | || |               |  |  |       |  |     ^***       | ||   |   | |||           | || | |   |  |           
search RasMol script viewer Motif-ligand binding stats  CAMP_PHOSPHO_SITE ..             | |                  **^*       |  |     |    |      |   | || |               |  |  |       |  |                | ||   |   | |||           | || | |   |  |           
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  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  ststaple ..                                                                  *****                                                                                 | |                       
search RasMol script viewer Motif-ligand binding stats  stturn ..                                                                                                                                                        ***                       

chain E : MAJOR HISTOCOMPATIBILITY COMPLEX CLASS II BETA CH
member of: CATH:search2.60.40.10/search3.10.320.10GENE3D:searchG3DSA_2.60.40.10/searchG3DSA_3.10.320.10PANTHER:searchPTHR19944/searchPTHR19944_SF42PFAM:searchPF00969/searchPF07654PRODOM:searchPD000328PROSITE PATTERNS:searchPS00290, PROSITE PROFILES:searchPS50835, SMART:searchSM00407/searchSM00921SUPERFAMILY:searchSSF48726/searchSSF54452UniProt:searchP04229
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sequence :  ..DTRPRFLWQLKFECHFFNGTERVRLLERCIYNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTVQRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWR
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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  TYR_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  alphabetamotif ..| |                           |  |     *****|              |  |      | ||  |        |   |  |                         |  | | |           ||| | | |                   |  |       |  |         
search RasMol script viewer Motif-ligand binding stats  asxturn ..***                           |  |     |  | |              |  |      | ||  |        |   |  |                         |  | | |           ||| | | |                   |  |       |  |         
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  ststaple ..                                                                       *****        *****                                                     | |                                           
search RasMol script viewer Motif-ligand binding stats  stturn ..                                                                                                                                              ***                                           

chain F : HEMAGGLUTININ
member of: GENE3D:searchG3DSA_2.10.77.10PFAM:searchPF00509PRINTS:searchHEMAGGLUTN1/searchHEMAGGLUTN12SUPERFAMILY:searchSSF49818UniProt:searchQ03909
sec str:  ...............
sequence :  ..PKYVKQNTLKLAT
seq num:  ..1         11 
search RasMol script viewer Motif-ligand binding stats  PKC_PHOSPHO_SITE ..       ^**   

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