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(-) Description

Title :  CRYSTAL STRUCTURE OF NKG2D IN COMPLEX WITH ULBP6
 
Authors :  F. Mohammed, B. E. Willcox
Date :  06 Jan 15  (Deposition) - 20 Apr 16  (Release) - 14 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.35
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Leukaemia, Graft Versus Leukaemia, C-Type Lectin Domain, Immune System, Nkg2D, Nkg2Dl, Affinity And Autoimmunity (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Zuo, C. R. Willcox, F. Mohammed, M. Davey, S. Hunter, K. Khan, A. Antoun, P. Katakia, J. Croudace, C. Inman, H. Parry, D. Briggs, R. Malladi, B. E. Willcox, P. Moss
A Disease-Linked Ulbp6 Polymorphism Inhibits Nkg2D-Mediated Target Cell Killing By Enhancing The Stability Of Nkg2D Ligand Binding.
Sci Signal V. 10 2017
PubMed-ID: 28559451  |  Reference-DOI: 10.1126/SCISIGNAL.AAI8904

(-) Compounds

Molecule 1 - NKG2-D TYPE II INTEGRAL MEMBRANE PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET23A
    Expression System Strain: BL21(DE3)PLYSS
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 90-215
    Gene: D12S2489E, KLRK1, NKG2D
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: KILLER CELL LECTIN-LIKE RECEPTOR SUBFAMILY K MEMBER 1, NK CELL RECEPTOR D, NKG2-D-ACTIVATING NK RECEPTOR
 
Molecule 2 - RETINOIC ACID EARLY TRANSCRIPT 1L PROTEIN
    Chains: C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET23A
    Expression System Strain: ROSETTA
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 29-203
    Gene: RAET1L, ULBP6
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ULBP6

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4S0U)

(-) Sites  (0, 0)

(no "Site" information available for 4S0U)

(-) SS Bonds  (10, 10)

Asymmetric/Biological Unit
No.Residues
1A:96 -A:105
2A:99 -A:110
3A:127 -A:211
4A:189 -A:203
5B:96 -B:105
6B:99 -B:110
7B:127 -B:211
8B:189 -B:203
9C:50 -C:66
10C:127 -C:190

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Gly A:97 -Pro A:98
2Gly B:97 -Pro B:98
3Arg C:44 -Pro C:45
4Ser C:75 -Pro C:76
5Glu C:117 -Pro C:118

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4S0U)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4S0U)

(-) Exons   (0, 0)

(no "Exon" information available for 4S0U)

(-) 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:124
                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee....eee..eeeeeeeeeehhhhhhhhhhhh..ee........hhhhhhh...eeeeeeee....eee............eee......eeeee...eeeee.....eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s0u A  92 TESYCGPCPKNWICYKNNCYQFFDESKNWYESQASCMSQNASLLKVYSKEDQDLLKLVKSYHWMGLVHIPTNGSWQWEDGSILSPNLLTIIEMQKGDCALYASSFKGYIENCSTPNTYICMQRT 215
                                   101       111       121       131       141       151       161       171       181       191       201       211    


Chain B from PDB  Type:PROTEIN  Length:126
                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeee....ee...eeeeeeeeeehhhhhhhhhhh.............hhhhhhh...eeeeeeee....eeee...........eeee.....eeeee...eeeee.....eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4s0u B  90 PLTESYCGPCPKNWICYKNNCYQFFDESKNWYESQASCMSQNASLLKVYSKEDQDLLKLVKSYHWMGLVHIPTNGSWQWEDGSILSPNLLTIIEMQKGDCALYASSFKGYIENCSTPNTYICMQRT 215
                                    99       109       119       129       139       149       159       169       179       189       199       209      


Chain C from PDB  Type:PROTEIN  Length:175
                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee.hhhh.hhh.eeeeeee..eeeeeee......ee..hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh.............eeeeeeeee.....eeeeeeeee..eeeeeee....eeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4s0u C  29 DPHSLSYDITVIPKFRPGPRWCAVQGQVDEKTFLHYDCGNKTVTPVSPLGKKLNVTMAWKAQNPVLREVVDILTEQLLDIQLENYTPKEPLTLQARMSCEQKAEGHSSGSWQFSIDGQTFLLFDSEKRMWTTVHPGARKMKEKWENDKDVAMSFHYISMGDCIGWLEDFLMGMDS 203
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 4S0U)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4S0U)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4S0U)

(-) Gene Ontology  (38, 40)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Arg C:44 - Pro C:45   [ RasMol ]  
    Glu C:117 - Pro C:118   [ RasMol ]  
    Gly A:97 - Pro A:98   [ RasMol ]  
    Gly B:97 - Pro B:98   [ RasMol ]  
    Ser C:75 - Pro C:76   [ RasMol ]  
 

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  4s0u
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  NKG2D_HUMAN | P26718
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 Related Entries

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

UniProtKB/Swiss-Prot
        NKG2D_HUMAN | P26718: 1hyr 1kcg 1mpu 4pdc

(-) Related Entries Specified in the PDB File

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