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(-) Description

Title :  CRYSTAL STRUCTURE OF DUCK MHC CLASS I FOR 1.71 ANGSTROM
 
Authors :  Y. Wu, C. Xia
Date :  02 Jul 16  (Deposition) - 10 May 17  (Release) - 10 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.71
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Mhc, Immunology, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Wu, C. Xia
Structural Definition Of Duck Mhc Class I Explains The Resistance To Influenza A Virus
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - MHC CLASS I ANTIGEN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 22-291
    Gene: DU5MHC I
    Organism Common: MALLARD
    Organism Scientific: ANAS PLATYRHYNCHOS
    Organism Taxid: 8839
 
Molecule 2 - BETA-2-MICROGLOBULIN
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: B2M
    Organism Common: MALLARD
    Organism Scientific: ANAS PLATYRHYNCHOS
    Organism Taxid: 8839
 
Molecule 3 - MET-VAL-MET-GLU-LEU-ILE-ARG-MET-ILE
    Chains: C
    Engineered: YES
    Organism Scientific: UNIDENTIFIED INFLUENZA VIRUS
    Organism Taxid: 11309
    Synthetic: YES

 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 5GJY)

(-) Sites  (0, 0)

(no "Site" information available for 5GJY)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:98 -A:115
2A:102 -A:164
3A:202 -A:258
4B:30 -B:85

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Tyr A:208 -Pro A:209
2His B:36 -Pro B:37

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5GJY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5GJY)

(-) Exons   (0, 0)

(no "Exon" information available for 5GJY)

(-) 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:266
                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeee.........eeeeeee..eeeeeee......ee.hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeeeeeee..eeeeeeeeee..eeeeeee....eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeee..eeeeeeeee.....eeeeee..ee....eee...ee.....eeeeeeee....hhh.eeeeee.......eee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gjy A   4 EPHSLRYFYTAVSDPSPGVPQFVTVGSVDGEVFVRYDSETRKMEPRVDWIVANVDQQYWDRETETSRGNEQIFRVNLDTARERYNQSRGSHTWQCMHGCDLEDGSIRGFQQCGYDGKDFIALDKDTLTYTAADAAAQITKRKWEQEGTVAEQWKNYLENTCIEWLRKYVSYGKDVLERRERPKVRVSGMELTLSCRAHGFYPPPISISWLKDGVVQEQETKRGSTVPNSDGTYHAWATIDVLPGNRDKYQCRVEHASLPQPGLFSW 273
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193|      207       217       227       237       247       257       267      
                                                                                                                                                                                                                       193|                                                                           
                                                                                                                                                                                                                        198                                                                           


Chain B from PDB  Type:PROTEIN  Length:100
                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeee.........eeeeeeeeee.....eeeeee..ee....ee...ee.....eeeeeeeee.......eeeeee.......eeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------- Transcript
                 5gjy B   5 QAKAAPKVQVYSRHPATAGTENILNCYVEGFHPPKIDIALLKNGEPMKDVKYNDMSFGDDWTFQRLVYAPFTPTKSDVYTCRVDHEAFTEPQSFRWEPDF 104
                                    14        24        34        44        54        64        74        84        94       104


Chain C from PDB  Type:PROTEIN  Length:7
                                       
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                 5gjy C   1 MVLIRMI   9
                             ||    
                             2|    
                              5
   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 5GJY)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5GJY)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5GJY)

(-) Gene Ontology  (8, 11)

Asymmetric/Biological Unit(hide GO term definitions)

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(no "Sites" information available for 5gjy)
 
  Cis Peptide Bonds
    His B:36 - Pro B:37   [ RasMol ]  
    Tyr A:208 - Pro A:209   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        Q14U75_ANAPL | Q14U75: 5gjx
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(-) Related Entries Specified in the PDB File

5gjx 5gjz