triangle PDBeMotif: 4ah2  
  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: Fri, Feb 3, 2012
Title hla-dr1 with covalently linked clip106-120 in canonical orie
Authors A.SCHLUNDT, C.FREUND, J.STICHT, M.WIECZOREK, S.GUENTHER, U.HEINEMA, Y.ROSKE
Method X-RAY DIFFRACTION (resolution: 2.36Å)
PDBe Citation   
Small molecules:    search GOL GOL binding statistics GOL
Ligand bond colours:   *  covalent   *  ionic   *  hydrogen   *  electrostatic   *  van-der-waals   *  plane-atom   *  plane-plane   *  undefined  - Click here to show 5Å bonds
Chain A sequence:
MIKEEHVIIQAEFYLNPDQSGEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY
TPITNVPPEVTVLTNSPVELREPNVLICFIDKFTPPVVNVTWLRNGKPVTTGVSETVFLPREDHLFRKFHYLPFLPSTED
VYDCRVEHWGLDEPLLKHWEFDAPSPLPETTEN
Chain B sequence:
MKMRMATPLLMQALPMGGGGSGGGGSGGGGSGDTRPRFLWQLKFECHFFNGTERVRLLERCIYNQEESVRFDSDVGEYRA
VTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTVQRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEV
RWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSK
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 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_SF47PFAM:searchPF00993/searchPF07654PROSITE PATTERNS:searchPS00290, PROSITE PROFILES:searchPS50835, SMART:searchSM00407/searchSM00920SUPERFAMILY:searchSSF48726/searchSSF54452UniProt:searchP01903
JMol viewer RasMol script viewer  GOL 1190B  ..                                                                                                                                                                                 
JMol viewer RasMol script viewer  GOL 1183A  ..                                                                                                                                         ***                                     
JMol viewer RasMol script viewer  GOL 1182A  ..                                                                                *                                                        |||                        *            
JMol viewer RasMol script viewer  GOL 1181A  ..                                        *                                       |                   *                                    |||      *                 |            
sec str:  ...eeeeeeeeeee...eeeeeeee..eeeeeee....eeee.hhhhhhh....hhhhhhhhhhhhhhhhhhhhhh..........eeeeee.........eeeeeeeeee.....eeeeee..ee.....ee...ee.....eeeeeeeee......eeeeeee.......eeeeee.
sequence :  ..EHVIIQAEFYLNPDQSGEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNYTPITNVPPEVTVLTNSPVELREPNVLICFIDKFTPPVVNVTWLRNGKPVTTGVSETVFLPREDHLFRKFHYLPFLPSTEDVYDCRVEHWGLDEPLLKHWEF
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  alphabetamotif ..          |  | |                  | |       *****                 |   |  | |                             |  | | |      |  | ||| |       | |||           | ||       |  |          
search RasMol script viewer Motif-ligand binding stats  asxturn ..          |  | |                  | |       || ||                 |   |  | |                             |  | | |      |  | ||| |       | ***           | ||       |  |          
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  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  ststaple ..                                                                  *****                                                                                 | |                      
search RasMol script viewer Motif-ligand binding stats  stturn ..                                                                                                                                                        ***                      

chain B : HLA CLASS II HISTOCOMPATIBILITY ANTIGEN GAMMA CHACLASS II HISTOCOMPATIBILITY ANTIGEN\,DRB1-1 BETA CHAIN;
member of: CATH:search2.60.40.10/search3.10.320.10GENE3D:searchG3DSA_2.60.40.10/searchG3DSA_3.10.320.10PANTHER:searchPTHR19944/searchPTHR19944_SF57PFAM:searchPF00969/searchPF07654PRODOM:searchPD000328PROSITE PATTERNS:searchPS00290, PROSITE PROFILES:searchPS50835, SMART:searchSM00407/searchSM00921SUPERFAMILY:searchSSF48726/searchSSF54452UniProt:searchP04229
JMol viewer RasMol script viewer  GOL 1190B  ..              ..                                                                                             **          ..                                                                               
JMol viewer RasMol script viewer  GOL 1183A  ..              ..                                    *                                                        ||          ..                                                                               
JMol viewer RasMol script viewer  GOL 1182A  ..              ..  ***                               |                                                        ||          ..                                                                               
JMol viewer RasMol script viewer  GOL 1181A  ..              ..  |||                               |                                                        ||          ..                                         *                                     
sec str:  .........................eeeeeeeeeeee....eeeeeeeeee..eeeeeee.....eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeee.....eeeeeeeeee.....eeeeee..ee....eee...ee.....eeeeeeeee.......eeeeee.......eeeee.
sequence :  ..MKMRMATPLLMQAL..SGDTRPRFLWQLKFECHFFNGTERVRLLERCIYNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTVQRRVEPKVTVYPS..HHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWR
seq num:  ..-30       -20 ..0         10        20        30        40        50        60        70        80        90        100  ..111       121       131       141       151       161       171       181      
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  asxmotif ..              ..  | |                                    *****|    |  |      |  |                     |   |  |           ..        |  | | |       | | ||| | | |   |||||           |  |       |  | |       
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 ..              ..                                                                                                         ..                                 ***                                           

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