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(-) Description

Title :  THE MOLECULAR BASES OF DELTA/ALPHA-BETA T-CELL MEDIATED ANTIGEN RECOGNITION
 
Authors :  D. G. Pellicci, A. P. Uldrich, J. Le Nours, F. Ross, E. Chabrol, S. B. G. E Boer, R. T. Lim, K. Mcpherson, G. Besra, A. R. Howell, L. Moretta, J. Mcc M. H. M. Heemskerk, S. Gras, J. Rossjohn, D. I. Godfrey
Date :  14 Oct 14  (Deposition) - 26 Nov 14  (Release) - 24 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Immunity, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. G. Pellicci, A. P. Uldrich, J. Le Nours, F. Ross, E. Chabrol, S. B. Eckle, R. De Boer, R. T. Lim, K. Mcpherson, G. Besra, A. R. Howell, L. Moretta, J. Mccluskey, M. H. Heemskerk, S. Gras, J. Rossjohn, D. I. Godfrey
The Molecular Bases Of Delta / Alpha Beta T Cell-Mediated Antigen Recognition.
J. Exp. Med. V. 211 2599 2014
PubMed-ID: 25452463  |  Reference-DOI: 10.1084/JEM.20141764

(-) Compounds

Molecule 1 - TCR VARIABLE DELTA 1 CHAIN AND TCR CONSTANT ALPHA CHAIN
    Chains: A, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 2 - TCR VARIABLE BETA 2 (TRBV20) CHAIN AND TCR CONSTANT BETA CHAIN
    Chains: B, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4WNQ)

(-) Sites  (0, 0)

(no "Site" information available for 4WNQ)

(-) SS Bonds  (10, 10)

Asymmetric Unit
No.Residues
1A:23 -A:104
2A:147 -A:197
3A:172 -B:180
4B:23 -B:104
5B:154 -B:219
6C:23 -C:104
7C:147 -C:197
8C:172 -D:180
9D:23 -D:104
10D:154 -D:219

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1His B:7 -Pro B:8
2Tyr B:160 -Pro B:161
3His D:7 -Pro D:8
4Tyr D:160 -Pro D:161

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4WNQ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4WNQ)

(-) Exons   (0, 0)

(no "Exon" information available for 4WNQ)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:200
                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eeeee....eee..eee......eeeeeee.....eeeeeeee......ee..eeeeee....eeeeee...hhhhheeeeeeeee..eeee...eeeeee........eeee.........eeeeee...............eee....ee..........eeeeee.....hhhhhh............. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wnq A   2 QKVTQAQSSVSMPVRKAVTLNCLYETSWWSYYIFWYKQLPSKEMIFLIRQGSDEQNAKSGRYSVNFKKAAKSVALTISALQLEDSAKYFCALGVTGKLTFGQGTILTVHPNIQNPDPAVYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNKSDFACANAFNNSIIPEDTFFPS 214
                                    11        21        31 ||     46        56 ||     74        84        94       104       114       124       134       144       154       164       174       184       194       204       214
                                                          33|                 58|    72|                                                                                                                                            
                                                           39                  66     74                                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:241
                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeeee....eeeeeee......eeeeeee.....eeeeeeee.....ee........eeeeeee..eeeeee...hhhhheeeeeeee....eee...eeeeee.hhhhh...eeeee..hhhhhhhhheeeeeeeeeee....eeeeeee..eee...eee....ee.........eeeeeeeeeehhhhh....eeeeeeee..................eeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wnq B   3 VVSQHPSRVISKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMATSNEGSKATYEQGVEKDKFLINHASLTLSTLTVTSAHPEDSSFYICSAPGGVGAFFGQGTRLTVVEDLKNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQPALNDSRYALSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAWGRAD 253
                                    12        22        32|       48        58   ||   71        81|       92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252 
                                                        32|                     62|             81|                                                                                                                                                                          
                                                         39                      66              83                                                                                                                                                                          


Chain C from PDB  Type:PROTEIN  Length:200
                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee....eeeee....eee..eee......eeeeeee.....eeeeeeee......ee..eeeeee....eeeeee...hhhhheeeeeeeee..eeee...eeeeee........eeee.........eeeeee...............eee....ee..........eeeeee.....hhhhhh............. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wnq C   2 QKVTQAQSSVSMPVRKAVTLNCLYETSWWSYYIFWYKQLPSKEMIFLIRQGSDEQNAKSGRYSVNFKKAAKSVALTISALQLEDSAKYFCALGVTGKLTFGQGTILTVHPNIQNPDPAVYQLRDSKSSDKSVCLFTDFDSQTNVSQSKDSDVYITDKCVLDMRSMDFKSNSAVAWSNKSDFACANAFNNSIIPEDTFFPS 214
                                    11        21        31 ||     46        56 ||     74        84        94       104       114       124       134       144       154       164       174       184       194       204       214
                                                          33|                 58|    72|                                                                                                                                            
                                                           39                  66     74                                                                                                                                            


Chain D from PDB  Type:PROTEIN  Length:242
                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..eeeee....eeeeeeee.....eeeeeee.....eeeeeeee..eeeee........eeeeeee..eeeeee...hhhhheeeeeee......ee...eeeeee.hhhhh...eeeee..hhhhhhhhheeeeeeeeeee....eeeeeee..eee...eee....ee.........eeeeeeeeeehhhhh....eeeeeeee..................eeeeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wnq D   2 AVVSQHPSRVISKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMATSNEGSKATYEQGVEKDKFLINHASLTLSTLTVTSAHPEDSSFYICSAPGGVGAFFGQGTRLTVVEDLKNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVCTDPQPLKEQPALNDSRYALSSRLRVSATFWQNPRNHFRCQVQFYGLSENDEWTQDRAKPVTQIVSAEAWGRAD 253
                                    11        21        31||      47        57    ||  70        80||      91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251  
                                                         32|                     62|             81|                                                                                                                                                                          
                                                          39                      66              83
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4WNQ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4WNQ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4WNQ)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4WNQ)

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  Sites
(no "Sites" information available for 4wnq)
 
  Cis Peptide Bonds
    His B:7 - Pro B:8   [ RasMol ]  
    His D:7 - Pro D:8   [ RasMol ]  
    Tyr B:160 - Pro B:161   [ RasMol ]  
    Tyr D:160 - Pro D:161   [ RasMol ]  
 
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