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(-) Description

Title :  CYTOKINE RECEPTOR COMPLEX - CRYSTAL FORM 1A
 
Authors :  K. Verstraete, L. Van Schie, S. N. Savvides
Date :  16 Nov 13  (Deposition) - 19 Mar 14  (Release) - 16 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Four Helical Bundle Fold, Chr Domains, Tslp Cytokine Signaling, Tslpr And Il-7Ralpha Receptors, Cell Surface, Cytokine-Cytokine Receptor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Verstraete, L. Van Schie, L. Vyncke, Y. Bloch, J. Tavernier, E. Pauwels, F. Peelman, S. N. Savvides
Structural Basis Of The Proinflammatory Signaling Complex Mediated By Tslp.
Nat. Struct. Mol. Biol. V. 21 375 2014
PubMed-ID: 24632570  |  Reference-DOI: 10.1038/NSMB.2794

(-) Compounds

Molecule 1 - THYMIC STROMAL LYMPHOPOIETIN
    Chains: A
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293S GNTI-
    Expression System Common: HUMAN
    Expression System Taxid: 9606
    Expression System Vector Type: PHL
    Fragment: UNP RESIDUES 20-140
    Gene: TSLP
    Mutation: YES
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: TSLP, THYMIC STROMA-DERIVED LYMPHOPOIETIN
 
Molecule 2 - INTERLEUKIN-7 RECEPTOR SUBUNIT ALPHA
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: ROSETTA-GAMI B(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PET15B
    Fragment: EXTRACELLULAR DOMAIN (UNP RESIDUES 21-239)
    Gene: IL7R, IL7RA
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: IL-7 RECEPTOR SUBUNIT ALPHA, IL-7R SUBUNIT ALPHA, IL-7R- ALPHA, IL-7RA
 
Molecule 3 - CYTOKINE RECEPTOR-LIKE FACTOR 2
    Chains: C
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293S GNTI-
    Expression System Common: HUMAN
    Expression System Taxid: 9606
    Expression System Vector Type: PHL
    Fragment: EXTRACELLULAR DOMAIN (UNP RESIDUES 20-222)
    Gene: CRLF2, CRLF2 (TSLPR), CRLM2, TPTE2, TSLPR
    Mutation: YES
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: CYTOKINE RECEPTOR-LIKE MOLECULE 2, CRLM-2, THYMIC STROMAL LYMPHOPOIETIN PROTEIN RECEPTOR, TSLP RECEPTOR, TSLPR, TYPE I CYTOKINE RECEPTOR DELTA 1

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:39 , HIS A:40 , THR A:43 , LYS B:161BINDING SITE FOR RESIDUE ACT A 501
2AC2SOFTWAREASN C:53 , TYR C:71 , GLY C:77 , THR C:79BINDING SITE FOR RESIDUE NAG C 501

(-) SS Bonds  (9, 9)

Asymmetric/Biological Unit
No.Residues
1A:25 -A:98
2A:57 -A:63
3A:78 -A:121
4B:42 -B:57
5B:74 -B:82
6B:108 -B:118
7C:68 -C:82
8C:168 -C:169
9C:181 -C:219

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Cys C:168 -Cys C:169

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4NN5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4NN5)

(-) Exons   (0, 0)

(no "Exon" information available for 4NN5)

(-) Sequences/Alignments

Asymmetric/Biological 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:109
                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 4nn5 A  20 YNFSNCNFTSITKIYCNIIFHDLTGDLKGAKFEQIEDCESKPACLLKIEYYTLNPIPGCPSLPDKTFARRTREALNDHCPGYPQEVQNICLQQTSQILRLWYSFMQSPE 140
                                    29        39        49        59        69        79        89        99  ||   121       131         
                                                                                                            102|                         
                                                                                                             115                         


Chain B from PDB  Type:PROTEIN  Length:197
                                                                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee.......eeeeeee.........eeeeee.......eee.eee..eeeeee........eeeeeee..eeeeeeeehhhhhee....eeeeeeee....eeeeeeehhhhhh.....eeeeeeeee.......eeeee...eeeee.hhh....eeeeeeeeee......ee.......eeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nn5 B  36 DDHSFWCHSQLEVDGSQHLLTCAFNDSDINTANLEFQICGALLRVKCLTLNKLQDIYFIKTSEFLLIGSSNICVKLGQKNLTCKNMAINTIVKAEAPSDLKVVYRKEANDFLVTFNAPHLKKKYLKKVKHDVAYRPARGESNWTHVSLFHTRTTIPQRKLRPKAMYEIKVRSIPHNDYFKGFWSEWSPSSTFETPEP 232
                                    45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       


Chain C from PDB  Type:PROTEIN  Length:183
                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...eeeee.....eeeeee.....ee...eee.....eeeeeee......eeeeee.....eeeeeeehhhh.ee.......eeee.....eeee........eeeeeeeee......eeeeee..eeee.......eeeeeeeeeehhhhhh...........eeee...hhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nn5 C  28 DVTVVCHDLETVEVTWGANLSLEFRYGTGALQPCPRYFLSGAGVTSGCILPAARAGLLELALRDGGGAMVFKARQRASAWLKPRPPWQVTLLWTPDGDVTVSWPAHSYLGLDYEVQHRESNEDAWQTTSGPCCDLTVGGLDPVRCYDFRVRASPRAAHYGLEAQPSEWTAVTRLSGAASAASC 219
                                    37      ||54        64        74        84        94       104       114       124       134       144       154||     166       176       186       196       206       216   
                                           44|                                                                                                    155|                                                             
                                            52                                                                                                     158
   Legend:   → Mismatch (orange background)
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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 4NN5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4NN5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4NN5)

(-) Gene Ontology  (23, 27)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        CRLF2_MOUSE | Q8CII9: 4nn6 4nn7
        IL7RA_MOUSE | P16872: 4nn6 4nn7 5j12
        TSLP_MOUSE | Q9JIE6: 4nn6 4nn7

(-) Related Entries Specified in the PDB File

4nn6 TSLP:TSLPR:IL7RALPHA COMPLEX, CRYSTAL FORM 1B
4nn7 TSLP:TSLPR:IL7RALPHA COMPLEX, CRYSTAL FORM 2