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(-) Description

Title :  CRYSTAL STRUCTURE OF M157 FROM MOUSE CYTOMEGALOVIRUS
 
Authors :  K. C. Garcia
Date :  20 Nov 06  (Deposition) - 29 May 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  M157, Ly49, Mhc, Nk Cells, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. J. Adams, Z. S. Juo, R. T. Venook, M. J. Boulanger, H. Arase, L. L. Lanier, K. C. Garcia
Structural Elucidation Of The M157 Mouse Cytomegalovirus Ligand For Ly49 Natural Killer Cell Receptors.
Proc. Natl. Acad. Sci. Usa V. 104 10128 2007
PubMed-ID: 17537914  |  Reference-DOI: 10.1073/PNAS.0703735104

(-) Compounds

Molecule 1 - M157
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Cell Line: SF9/HI5
    Expression System Common: FALL ARMYWORM
    Expression System Plasmid: PACGP67A
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Organism Common: MURINE CYTOMEGALOVIRUS
    Organism Scientific: MURID HERPESVIRUS 1
    Organism Taxid: 10366

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1FUC1Ligand/IonALPHA-L-FUCOSE
2NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:178 , PRO A:255 , SER A:257 , NAG A:302 , FUC A:306 , HOH A:339 , HOH A:359 , HOH A:398BINDING SITE FOR RESIDUE NAG A 301
2AC2SOFTWARETYR A:176 , NAG A:301 , HOH A:338 , HOH A:359 , HOH A:398 , HOH A:401BINDING SITE FOR RESIDUE NAG A 302
3AC3SOFTWARETYR A:176 , MET A:177 , TRP A:249 , NAG A:301 , HOH A:339BINDING SITE FOR RESIDUE FUC A 306
4AC4SOFTWARETRP A:185 , ASN A:187 , LEU A:191 , HOH A:315BINDING SITE FOR RESIDUE NAG A 311

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:60 -A:63
2A:103 -A:112
3A:194 -A:241

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Thr A:254 -Pro A:255

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2NYK)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2NYK)

(-) Exons   (0, 0)

(no "Exon" information available for 2NYK)

(-) 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:237
 aligned with Q6XK79_MUHV1 | Q6XK79 from UniProtKB/TrEMBL  Length:329

    Alignment length:261
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288 
         Q6XK79_MUHV1    29 DTYIVNMDDFQFTFTMEFEVTVTRGGVHKRTISVDNGRPVVVWDVGDRDPKICKICPDVSSTDIEYVFLDIQKMRLNNLLTQSLWDTQRICVRYACLFLGFDVICDVYHTTDTVRVAYTGQTGKINIQGSGKFSTSDAKEIGTYMIKSNVREIKNRWRSTVQKLKQLAYMNATEVEFWYNTTGLTTCVVTSRSNVPFTVELSLNTNSSAIVTDESTVDCQILTVKAPGSHAQRCYVTSSLGWKGVVTPPSQYRTKRVPVNI 289
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------M157-2nykA01 A:28-268                                                                                                                                                                                                                             Pfam domains
         Sec.struct. author hhhhhhhhhhhh.eeeeeeeeee....eeeeeee....eeeeee.--...ee..........hhhhhhhhhhhhhhhhhhhhhh....eeeeeeeeeee..eeeeeeeeee...eeeeeee...---------------hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheeeee..---.eeeeeee.....eeeee..----..eeeeee....eeeeeee.......eeeee...eeeee........ee..ee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2nyk A   8 DTYIVNMDDFQFTFTMEFEVTVTRGGVHKRTISVDNGRPVVVWDV--RDPKICKICPDVSSTDIEYVFLDIQKMRLNNLLTQSLWDTQRICVRYACLFLGFDVICDVYHTTDTVRVAYTGQTGK---------------EIGTYMIKSNVREIKNRWRSTVQKLKQLAYMNATEVEFWYN---LTTCVVTSRSNVPFTVELSL----SAIVTDESTVDCQILTVKAPGSHAQRCYVTSSLGWKGVVTPPSQYRTKRVPVNI 268
                                    17        27        37        47    |  |57        67        77        87        97       107       117       127   |     -       147       157       167       177       187   |   197       207  |    217       227       237       247       257       267 
                                                                       52 55                                                                         131             147                                     187 191                210  215
   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 2NYK)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2NYK)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: M157] (1)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2NYK)

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