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(-) Description

Title :  CRYSTAL STRUCTURE OF CHICK MN-CADHERIN EC1
 
Authors :  S. D. Patel, C. Ciatto, C. P. Chen, F. Bahna, I. Schieren, M. Rajebhosale T. M. Jessell, B. Honig, L. Shapiro, S. R. Price
Date :  02 Jun 05  (Deposition) - 25 Apr 06  (Release) - 10 Apr 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.16
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Cadherin, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. D. Patel, C. Ciatto, C. P. Chen, F. Bahna, M. Rajebhosale, N. Arkus, I. Schieren, T. M. Jessell, B. Honig, S. R. Price, L. Shapiro
Type Ii Cadherin Ectodomain Structures: Implications For Classical Cadherin Specificity.
Cell(Cambridge, Mass. ) V. 124 1255 2006
PubMed-ID: 16564015  |  Reference-DOI: 10.1016/J.CELL.2005.12.046

(-) Compounds

Molecule 1 - CADHERIN 1
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PSMT3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 60-156
    Gene: MNCADHERIN
    Organism Common: CHICKEN
    Organism Scientific: GALLUS GALLUS
    Organism Taxid: 9031
    Synonym: F-CADHERIN, MN-CADHERIN

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1ZVN)

(-) Sites  (0, 0)

(no "Site" information available for 1ZVN)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1ZVN)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1ZVN)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1ZVN)

(-) PROSITE Motifs  (2, 4)

Asymmetric/Biological Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CADHERIN_2PS50268 Cadherins domain profile.CAD20_CHICK84-164
 
165-273
274-392
389-493
493-615		  2A:26-98
B:26-98
-
-
-
-
2CADHERIN_1PS00232 Cadherin domain signature.CAD20_CHICK152-162
 
261-271
481-491		  2A:94-98
B:94-98
-
-

(-) Exons   (2, 4)

Asymmetric/Biological Unit (2, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENSGALT000000210431ENSGALE00000242502chr2:69921434-6992137956CAD20_CHICK-00--
1.2ENSGALT000000210432ENSGALE00000242501chr2:69859682-69859547136CAD20_CHICK-00--
1.3ENSGALT000000210433ENSGALE00000139228chr2:69843828-69843468361CAD20_CHICK1-81812A:0-23 (gaps)
B:0-23 (gaps)		48
48
1.4ENSGALT000000210434ENSGALE00000139226chr2:69837367-69837073295CAD20_CHICK82-180992A:24-98
B:24-98		75
75
1.5ENSGALT000000210435ENSGALE00000139227chr2:69835361-69835242120CAD20_CHICK180-220410--
1.6ENSGALT000000210436ENSGALE00000139221chr2:69832210-69832043168CAD20_CHICK220-276570--
1.7bENSGALT000000210437bENSGALE00000139222chr2:69830159-69829972188CAD20_CHICK276-338630--
1.8ENSGALT000000210438ENSGALE00000139225chr2:69826767-69826514254CAD20_CHICK339-423850--
1.9ENSGALT000000210439ENSGALE00000139223chr2:69822867-69822731137CAD20_CHICK423-469470--
1.10ENSGALT0000002104310ENSGALE00000139224chr2:69820223-69820102122CAD20_CHICK469-509410--
1.11ENSGALT0000002104311ENSGALE00000139219chr2:69818385-69818268118CAD20_CHICK510-549400--
1.12ENSGALT0000002104312ENSGALE00000139217chr2:69812227-69811976252CAD20_CHICK549-633850--
1.13bENSGALT0000002104313bENSGALE00000139220chr2:69810167-69809207961CAD20_CHICK633-7981660--

(-) 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:99
 aligned with CAD20_CHICK | Q8QGH3 from UniProtKB/Swiss-Prot  Length:798

    Alignment length:123
                                    43        53        63        73        83        93       103       113       123       133       143       153   
          CAD20_CHICK    34 SGSARPLTEGPEDNLSDKLHQRMKRSWVWNQFFVLEEYTGTDPLYVGKLHSDMDRGDGSIKYILSGEGAGIVFTIDDTTGDIHAIQRLDREERSQYTLRAQALDRRTGRPMEPESEFIIKIQD 156
               SCOP domains d1                        zvna_ A: automated matches                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..------------------------....eeeee.hhh....eeeee...........eeeeeee......eee.....eeee..........eeeeeeeeee..........eeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --------------------------------------------------CADHERIN_2  PDB: A:26-98 UniProt: 84-164                                  PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------------------------------------------CADHE PROSITE (2)
               Transcript 1 Exon 1.3  PDB: A:0-23 (gaps) UniProt: 1-81      Exon 1.4  PDB: A:24-98 UniProt: 82-180 [INCOMPLETE]                         Transcript 1
                 1zvn A   0 SG------------------------WVWNQFFVLEEYTGTDPLYVGKLHSDMDRGDGSIKYILSGEGAGIVFTIDDTTGDIHAIQRLDREERSQYTLRAQALDRRTGRPMEPESEFIIKIQD  98
                             |       -         -      |  5        15        25        35        45        55        65        75        85        95   
                             1                        2                                                                                                


Chain B from PDB  Type:PROTEIN  Length:99
 aligned with CAD20_CHICK | Q8QGH3 from UniProtKB/Swiss-Prot  Length:798

    Alignment length:123
                                    43        53        63        73        83        93       103       113       123       133       143       153   
          CAD20_CHICK    34 SGSARPLTEGPEDNLSDKLHQRMKRSWVWNQFFVLEEYTGTDPLYVGKLHSDMDRGDGSIKYILSGEGAGIVFTIDDTTGDIHAIQRLDREERSQYTLRAQALDRRTGRPMEPESEFIIKIQD 156
               SCOP domains d1                        zvnb_ B: automated matches                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------------------------Cadherin-1zvnB01 B:5-97                                                                      - Pfam domains (1)
           Pfam domains (2) -----------------------------Cadherin-1zvnB02 B:5-97                                                                      - Pfam domains (2)
         Sec.struct. author ..------------------------....eeeee.hhh....eeeee...........eeeeeee......eee.....eeee..........eeeeeeeeee..........eeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --------------------------------------------------CADHERIN_2  PDB: B:26-98 UniProt: 84-164                                  PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------------------------------------------CADHE PROSITE (2)
               Transcript 1 Exon 1.3  PDB: B:0-23 (gaps) UniProt: 1-81      Exon 1.4  PDB: B:24-98 UniProt: 82-180 [INCOMPLETE]                         Transcript 1
                 1zvn B   0 SG------------------------WVWNQFFVLEEYTGTDPLYVGKLHSDMDRGDGSIKYILSGEGAGIVFTIDDTTGDIHAIQRLDREERSQYTLRAQALDRRTGRPMEPESEFIIKIQD  98
                             |       -         -      |  5        15        25        35        45        55        65        75        85        95   
                             1                        2
   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, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1ZVN)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: E-set (290)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (CAD20_CHICK | Q8QGH3)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0007155    cell adhesion    The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
    GO:0007156    homophilic cell adhesion via plasma membrane adhesion molecules    The attachment of a plasma membrane adhesion molecule in one cell to an identical molecule in an adjacent cell.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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 Related Entries

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