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(-) Description

Title :  CRYSTAL STRUCTURE OF DUCK MHC I FOR 2.06 ANGSTROM
 
Authors :  Y. Wu, C. Xia
Date :  02 Jul 16  (Deposition) - 10 May 17  (Release) - 10 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.06
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 For 2. 06 Angstrom Explains Its 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 - ARG-LEU-ILE-GLN-ASN-SER-ILE-THR-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 5GJX)

(-) Sites  (0, 0)

(no "Site" information available for 5GJX)

(-) 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 5GJX)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5GJX)

(-) 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.hhhhee...ee.....eeeeeeee....hhh.eeeeee.......eee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gjx 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:104
                                                                                                                                        
               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
                 5gjx B   1 MEFGQAKAAPKVQVYSRHPATAGTENILNCYVEGFHPPKIDIALLKNGEPMKDVKYNDMSFGDDWTFQRLVYAPFTPTKSDVYTCRVDHEAFTEPQSFRWEPDF 104
                                    10        20        30        40        50        60        70        80        90       100    


Chain C from PDB  Type:PROTEIN  Length:9
                                         
               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
                 5gjx C   1 RLIQNSITI   9
   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 5GJX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 11)

Asymmetric/Biological Unit(hide GO term definitions)

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Asymmetric/Biological Unit
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  Sites
(no "Sites" information available for 5gjx)
 
  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: 5gjy
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(-) Related Entries Specified in the PDB File

5gjy 5gjz