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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN IZUMO1-JUNO COMPLEX (CRYSTAL FORM 2)
 
Authors :  U. Ohto, H. Ishida, T. Shimizu
Date :  26 Apr 16  (Deposition) - 22 Jun 16  (Release) - 29 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Fertilization, Izumo1, Juno, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  U. Ohto, H. Ishida, E. Krayukhina, S. Uchiyama, N. Inoue, T. Shimizu
Structure Of Izumo1-Juno Reveals Sperm-Oocyte Recognition During Mammalian Fertilization
Nature V. 534 566 2016
PubMed-ID: 27309808  |  Reference-DOI: 10.1038/NATURE18596

(-) Compounds

Molecule 1 - IZUMO SPERM-EGG FUSION PROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: DROSOPHILA
    Expression System Taxid: 7215
    Fragment: UNP RESIDUES 22-255
    Gene: IZUMO1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: OOCYTE BINDING/FUSION FACTOR,OBF,SPERM-SPECIFIC PROTEIN IZUMO
 
Molecule 2 - SPERM-EGG FUSION PROTEIN JUNO
    Chains: B
    Engineered: YES
    Expression System: DROSOPHILA
    Expression System Taxid: 7215
    Fragment: UNP RESIDUES 20-228
    Gene: IZUMO1R, FOLR4, JUNO
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: FOLATE RECEPTOR 4,FOLATE RECEPTOR DELTA,FR-DELTA,IZUMO1 RECEPTOR PROTEIN JUNO

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP B:50 , SER B:100 , ASN B:102 , ASN B:217 , ASN B:219binding site for residue CL B 302
2AC2SOFTWAREASN A:204binding site for Mono-Saccharide NAG A 300 bound to ASN A 204
3AC3SOFTWARELYS B:31 , PRO B:70 , LEU B:71 , ASN B:73binding site for Mono-Saccharide NAG B 301 bound to ASN B 73

(-) SS Bonds  (13, 13)

Asymmetric/Biological Unit
No.Residues
1A:22 -A:149
2A:25 -A:152
3A:135 -A:159
4A:139 -A:165
5A:182 -A:233
6B:27 -B:55
7B:47 -B:95
8B:56 -B:99
9B:79 -B:172
10B:86 -B:143
11B:132 -B:206
12B:136 -B:186
13B:149 -B:166

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5JKD)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5JKD)

(-) 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:232
                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........eehhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeeeeeeee.....eeeeeeeee....eeeeeee....eeee..hhhhhh...eeeeeeeee.....eeeeeee...eeee...hhhhheeeeeeeee......eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5jkd A  18 RSPWCVICDPSVVLALKSLEKDYLPGHLDAKHHKAMMERVENAVKDFQELAYMGVVDEATLQKGSWSLLKDLKRITDSDVKGDLFVKELFWMLHLQKETFATYVARFQKEAYCPNKCGVMLQTLIWCKNCKKEVHACRKSYDCGERNVEVPQMEDMILDCELNWHQASEGLTDYSFYRVWGNNTETLVSKGKEATLTKPMVGPEDAGSYRCELGSVNSSPATIINFHVTVLP 254
                                    27        37        47        57        67|       82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252  
                                                                            67|                                                                                                                                                                                     
                                                                             73                                                                                                                                                                                     


Chain B from PDB  Type:PROTEIN  Length:201
                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh...................hhhhhhhh.....hhhhhhhhh..........hhhhh..hhhhhhhhhhhhhhhhhh..hhh.ee....ee..eeehhhhhhhhhhhh...ee........................eehhhhh.hhhhhhhhh....eee...............hhhhh..hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5jkd B  18 PWGDELLNICMNAKHHKRVPSPEDKLYEECIPWKDNACCTLTTSWEAHLDVSPLYNFSLFHCGLLMPGCRKHFIQAICFYECSPNLGPWIQPVGERVVNVPLCQEDCEEWWEDCRMSYTCKSNWRGGWDWSQGKNRCPKGAQCLPFSHYFPTPADLCEKTWSNSFKASPERRNSGRCLQKWFEPAQGNPNVAVARLFASEF 230
                                    27        37        47        57        67        77        87        97       107  ||   129       139       149       159       169       179       189       199       209       219       229 
                                                                                                                      110|                                                                                                           
                                                                                                                       123
   Legend:   → Mismatch (orange background)
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  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 5JKD)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (15, 21)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  5jkd
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  IZUM1_HUMAN | Q8IYV9
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 Related Entries

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

UniProtKB/Swiss-Prot
        IZUM1_HUMAN | Q8IYV9: 5f4e 5f4t 5f4v 5jk9 5jkc 5jke
        JUNO_HUMAN | A6ND01: 5f4e 5f4q 5jka 5jkb 5jkc 5jke

(-) Related Entries Specified in the PDB File

5jk9 5jka 5jkb 5jkc 5jke