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(-) Description

Title :  HIGH RESOLUTION STRUCTURE OF RED ABALONE LYSIN DIMER
 
Authors :  N. Kresge, V. D. Vacquier, C. D. Stout
Date :  19 Apr 99  (Deposition) - 21 Jan 00  (Release) - 16 Nov 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.07
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  A,B,C,D  (1x)
Keywords :  Abalone Lysin, Fertilization Protein, Gamete Recognition Protein, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Kresge, V. D. Vacquier, C. D. Stout
1. 35 And 2. 07 A Resolution Structures Of The Red Abalone Sperm Lysin Monomer And Dimer Reveal Features Involved In Receptor Binding.
Acta Crystallogr. , Sect. D V. 56 34 2000
PubMed-ID: 10666624  |  Reference-DOI: 10.1107/S0907444999014626

(-) Compounds

Molecule 1 - SPERM LYSIN
    Cell: SPERM
    Chains: A, B, C, D
    Organ: GONAD
    Organelle: ACROSOME GRANULE
    Organism Common: CALIFORNIA RED ABALONE
    Organism Scientific: HALIOTIS RUFESCENS
    Organism Taxid: 6454

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD
Biological Unit 3 (1x): ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2LYN)

(-) Sites  (0, 0)

(no "Site" information available for 2LYN)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2LYN)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Pro C:8 -Lys C:9

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2LYN)

(-) Sequences/Alignments

Asymmetric 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:131
 aligned with ELYS_HALRU | P04552 from UniProtKB/Swiss-Prot  Length:154

    Alignment length:131
                                    32        42        52        62        72        82        92       102       112       122       132       142       152 
           ELYS_HALRU    23 YVEPKFLNKAFEVALKVQIIAGFDRGLVKWLRVHGRTLSTVQKKALYFVNRRYMQTHWANYMLWINKKIDALGRTPVVGDYTRLGAEIGRRIDMAYFYDFLKDKNMIPKYLPYMEEINRMRPADVPVKYMG 153
               SCOP domains d2lyna_ A: Lysin                                                                                                                    SCOP domains
               CATH domains 2lynA00 A:5-135  [code=1.20.150.10, no name defined]                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhhhh........hhhhhhh...hhh....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2lyn A   5 YVEPKFLNKAFEVALKVQIIAGFDRGLVKWLRVHGRTLSTVQKKALYFVNRRYMQTHWANYMLWINKKIDALGRTPVVGDYTRLGAEIGRRIDMAYFYDFLKDKNMIPKYLPYMEEINRMRPADVPVKYMG 135
                                    14        24        34        44        54        64        74        84        94       104       114       124       134 


Chain B from PDB  Type:PROTEIN  Length:126
 aligned with ELYS_HALRU | P04552 from UniProtKB/Swiss-Prot  Length:154

    Alignment length:126
                                    37        47        57        67        77        87        97       107       117       127       137       147      
           ELYS_HALRU    28 FLNKAFEVALKVQIIAGFDRGLVKWLRVHGRTLSTVQKKALYFVNRRYMQTHWANYMLWINKKIDALGRTPVVGDYTRLGAEIGRRIDMAYFYDFLKDKNMIPKYLPYMEEINRMRPADVPVKYMG 153
               SCOP domains d2lynb_ B: Lysin                                                                                                               SCOP domains
               CATH domains 2lynB00 B:10-135  [code=1.20.150.10, no name defined]                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh.......hhhhhhhhhhhhhh...hhhhhhhhh........hhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2lyn B  10 FLNKAFEVALKVQIIAGFDRGLVKWLRVHGRTLSTVQKKALYFVNRRYMQTHWANYMLWINKKIDALGRTPVVGDYTRLGAEIGRRIDMAYFYDFLKDKNMIPKYLPYMEEINRMRPADVPVKYMG 135
                                    19        29        39        49        59        69        79        89        99       109       119       129      


Chain C from PDB  Type:PROTEIN  Length:128
 aligned with ELYS_HALRU | P04552 from UniProtKB/Swiss-Prot  Length:154

    Alignment length:128
                                    35        45        55        65        75        85        95       105       115       125       135       145        
           ELYS_HALRU    26 PKFLNKAFEVALKVQIIAGFDRGLVKWLRVHGRTLSTVQKKALYFVNRRYMQTHWANYMLWINKKIDALGRTPVVGDYTRLGAEIGRRIDMAYFYDFLKDKNMIPKYLPYMEEINRMRPADVPVKYMG 153
               SCOP domains d2lync_ C: Lysin                                                                                                                 SCOP domains
               CATH domains 2lynC00 C:8-135  [code=1.20.150.10, no name defined]                                                                             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh...hhhhhhhhhh.......hhhhhhhh..hhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2lyn C   8 PKFLNKAFEVALKVQIIAGFDRGLVKWLRVHGRTLSTVQKKALYFVNRRYMQTHWANYMLWINKKIDALGRTPVVGDYTRLGAEIGRRIDMAYFYDFLKDKNMIPKYLPYMEEINRMRPADVPVKYMG 135
                                    17        27        37        47        57        67        77        87        97       107       117       127        


Chain D from PDB  Type:PROTEIN  Length:129
 aligned with ELYS_HALRU | P04552 from UniProtKB/Swiss-Prot  Length:154

    Alignment length:129
                                    34        44        54        64        74        84        94       104       114       124       134       144         
           ELYS_HALRU    25 EPKFLNKAFEVALKVQIIAGFDRGLVKWLRVHGRTLSTVQKKALYFVNRRYMQTHWANYMLWINKKIDALGRTPVVGDYTRLGAEIGRRIDMAYFYDFLKDKNMIPKYLPYMEEINRMRPADVPVKYMG 153
               SCOP domains d2lynd_ D: Lysin                                                                                                                  SCOP domains
               CATH domains 2lynD00 D:7-135  [code=1.20.150.10, no name defined]                                                                              CATH domains
           Pfam domains (1) ----Egg_lysin-2lynD01 D:11-131                                                                                               ---- Pfam domains (1)
           Pfam domains (2) ----Egg_lysin-2lynD02 D:11-131                                                                                               ---- Pfam domains (2)
           Pfam domains (3) ----Egg_lysin-2lynD03 D:11-131                                                                                               ---- Pfam domains (3)
           Pfam domains (4) ----Egg_lysin-2lynD04 D:11-131                                                                                               ---- Pfam domains (4)
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh...hhhhhhhhh........hhhhhhh...hhh....... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2lyn D   7 EPKFLNKAFEVALKVQIIAGFDRGLVKWLRVHGRTLSTVQKKALYFVNRRYMQTHWANYMLWINKKIDALGRTPVVGDYTRLGAEIGRRIDMAYFYDFLKDKNMIPKYLPYMEEINRMRPADVPVKYMG 135
                                    16        26        36        46        56        66        76        86        96       106       116       126
   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  (1, 4)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 4)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: no clan defined [family: Egg_lysin] (3)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (ELYS_HALRU | P04552)
biological process
    GO:0007338    single fertilization    The union of male and female gametes to form a zygote.

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  2lyn
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 Related Entries

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

UniProtKB/Swiss-Prot
        ELYS_HALRU | P04552: 1lis 1lyn 2lis 5ii7 5ii8 5ii9 5iia 5iib 5mr3

(-) Related Entries Specified in the PDB File

2lis MONOMER