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(-) Description

Title :  CRYSTAL STRUCTURE OF MURINE NK CELL LIGAND RAE-1 BETA IN COMPLEX WITH NKG2D
 
Authors :  P. Li, R. K. Strong
Date :  26 Feb 14  (Deposition) - 09 Apr 14  (Release) - 09 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Murine Nk Cell Ligand, Rae-1 Beta, Nkg2D, Mhc-I Platform, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Li, G. Mcdermott, R. K. Strong
Crystal Structures Of Rae-1Beta And Its Complex With The Activating Immunoreceptor Nkg2D.
Immunity V. 16 77 2002
PubMed-ID: 11825567
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NKG2-D TYPE II INTEGRAL MEMBRANE PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B(+)
    Expression System Strain: BL21 DE3 RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: RAE-1BETA, UNP RESIDUES 109-232
    Gene: KLRK1, NKG2D, RAE-1 BETA
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: KILLER CELL LECTIN-LIKE RECEPTOR SUBFAMILY K MEMBER 1, NK CELL RECEPTOR D, NKG2-D-ACTIVATING NK RECEPTOR
 
Molecule 2 - RETINOIC ACID EARLY-INDUCIBLE PROTEIN 1-BETA
    Chains: C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B(+)
    Expression System Strain: BL21 DE3 RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: IMMUNORECEPTOR NKG2D, UNP RESIDUES 31-204
    Gene: NKG2D, RAET1B
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: RAE-1-BETA

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:211 , LYS B:166 , LYS C:71 , ASN C:74 , ASN C:78BINDING SITE FOR RESIDUE GOL C 201

(-) SS Bonds  (12, 12)

Asymmetric/Biological Unit
No.Residues
1A:112 -A:121
2A:115 -A:126
3A:143 -A:227
4A:205 -A:219
5B:112 -B:121
6B:115 -B:126
7B:143 -B:227
8B:205 -B:219
9C:7 -C:26
10C:60 -C:160
11D:7 -D:26
12D:60 -D:160

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Gly A:113 -Pro A:114
2Gly B:113 -Pro B:114

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4PP8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4PP8)

(-) Exons   (0, 0)

(no "Exon" information available for 4PP8)

(-) 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:125
                                                                                                                                                             
               SCOP domains d4pp8a_ A: NK cell-activating receptor nkg2d                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.......eee..eeeeeeeeeehhhhhhhhhhhh..ee........hhhhhhh...eeeeeee......eee...........eee......eeee....eeeee.....eeeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pp8 A 108 MEGYCGPCPNNWICHRNNCYQFFNEEKTWNQSQASCLSQNSSLLKIYSKEEQDFLKLVKSYHWMGLVQIPANGSWQWEDGSSLSYNQLTLVEIPKGSCAVYGSSFKAYTEDCANLNTYICMKRAV 232
                                   117       127       137       147       157       167       177       187       197       207       217       227     


Chain B from PDB  Type:PROTEIN  Length:125
                                                                                                                                                             
               SCOP domains d4pp8b_ B: NK cell-activating receptor nkg2d                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee....eee..eeeeeeeeeehhhhhhhhhhhh..ee........hhhhhhh...eeeeeee......eee...........eee......eeee....eeeee.....eeeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pp8 B 108 MEGYCGPCPNNWICHRNNCYQFFNEEKTWNQSQASCLSQNSSLLKIYSKEEQDFLKLVKSYHWMGLVQIPANGSWQWEDGSSLSYNQLTLVEIPKGSCAVYGSSFKAYTEDCANLNTYICMKRAV 232
                                   117       127       137       147       157       167       177       187       197       207       217       227     


Chain C from PDB  Type:PROTEIN  Length:146
                                                                                                                                                                                  
               SCOP domains d4pp8c_ C: NK cell ligand RAE-1 beta                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee..........eeeeeee..eeeeeee....hhhhhhhhhhhhhhhhhhhhhhhh....eeeeeee..........eeeeee...eeeeee....eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pp8 C   3 HSLRCNLTIKDPTPADPLWYEAKCFVGEILILHLSNINATEVKKCLTQPLKNLCQKLRNKVSNTYPHLQVTMIYPQSQGRTPSATWEFNISDSYFFTFYTENMSWRSANDESGVIMNKWKDDGEFVKQLKFLIHECSQKMDEFLKQ 170
                                    12        22        32       |55        65        75   ||   94       104       114       124       134       144       154       164      
                                                                40|                       79|                                                                                 
                                                                 54                        89                                                                                 


Chain D from PDB  Type:PROTEIN  Length:150
                                                                                                                                                                                      
               SCOP domains d4pp8d_ D: NK cell ligand RAE-1 beta                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeeee.........eeeeeee..eeeeeee...hhhhhhhhhhhhhhhhhhhhhhhh........eeeeeeee........eeeeee...eeeeee....eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4pp8 D   3 HSLRCNLTIKDPTPADPLWYEAKCFVGEILILHLSNIATEVKKCLTQPLKNLCQKLRNKVSNTKVDTHYPHLQVTMIYPQSQTPSATWEFNISDSYFFTFYTENMSWRSANDESGVIMNKWKDDGEFVKQLKFLIHECSQKMDEFLKQSK 172
                                    12        22        32      ||56        66        76       |90       100 ||    112       122       132       142       152       162       172
                                                               39|                            84|          102|                                                                   
                                                                54                             89           105
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4PP8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4PP8)

(-) Gene Ontology  (41, 48)

Asymmetric/Biological Unit(hide GO term definitions)

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  4pp8
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 Related Entries

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

UniProtKB/Swiss-Prot
        NKG2D_MOUSE | O54709: 1hq8
        RAE1B_MOUSE | O08603: 1jfm

(-) Related Entries Specified in the PDB File

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