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(-) Description

Title :  CRYSTAL STRUCTURE OF A CHIMERA OF HUMAN DESMOCOLLIN-2 EC1 AND HUMAN DESMOGLEIN-2 EC2-EC5
 
Authors :  J. Brasch, O. J. Harrison, L. Shapiro
Date :  02 Apr 16  (Deposition) - 22 Jun 16  (Release) - 13 Jul 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.29
Chains :  Asym./Biol. Unit :  A
Keywords :  Extracellular Cadherin Domain, Cell Adhesion, Desmosome, Cell Surface (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. J. Harrison, J. Brasch, G. Lasso, P. S. Katsamba, G. Ahlsen, B. Honig L. Shapiro
Structural Basis Of Adhesive Binding By Desmocollins And Desmogleins.
Proc. Natl. Acad. Sci. Usa V. 113 7160 2016
PubMed-ID: 27298358  |  Reference-DOI: 10.1073/PNAS.1606272113

(-) Compounds

Molecule 1 - DESMOCOLLIN-2,DESMOGLEIN-2
    Chains: A
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293
    Expression System Taxid: 9606
    Fragment: UNP RESIDUES 136-235;
UNP RESIDUES 152-601
    Gene: DSC2, CDHF2, DSC3, DSG2, CDHF5
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CADHERIN FAMILY MEMBER 2,DESMOCOLLIN-3,DESMOSOMAL GLYCOPROTEIN II,DESMOSOMAL GLYCOPROTEIN III,CADHERIN FAMILY MEMBER 5, HDGC

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (7, 34)

Asymmetric/Biological Unit (7, 34)
No.NameCountTypeFull Name
1BMA2Ligand/IonBETA-D-MANNOSE
2CA11Ligand/IonCALCIUM ION
3CL2Ligand/IonCHLORIDE ION
4FUC1Ligand/IonALPHA-L-FUCOSE
5GAL1Ligand/IonBETA-D-GALACTOSE
6MAN7Ligand/IonALPHA-D-MANNOSE
7NAG10Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (21, 21)

Asymmetric Unit (21, 21)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:233 , ARG A:427 , THR A:429binding site for residue MAN A 609
02AC2SOFTWARELYS A:417 , THR A:429 , THR A:431binding site for residue MAN A 610
03AC3SOFTWARESER A:340 , LYS A:417 , THR A:433binding site for residue MAN A 611
04AC4SOFTWAREASN A:411binding site for residue NAG A 620
05AC5SOFTWARELYS A:129 , ASN A:131 , HOH A:705binding site for residue NAG A 621
06AC6SOFTWAREGLU A:11 , ASP A:67 , GLU A:69 , ASP A:103binding site for residue CA A 622
07AC7SOFTWAREGLU A:11 , GLU A:69 , ASP A:100 , ILE A:101 , ASP A:103 , ASP A:136binding site for residue CA A 623
08AC8SOFTWAREASN A:102 , ASN A:104 , ASP A:134 , ASP A:136 , ASN A:142 , ASP A:192binding site for residue CA A 624
09AC9SOFTWAREGLU A:119 , ASP A:177 , GLU A:179 , ASP A:216binding site for residue CA A 625
10AD1SOFTWAREGLU A:119 , GLU A:179 , ASP A:213 , VAL A:214 , ASP A:216 , ASP A:248binding site for residue CA A 626
11AD2SOFTWAREASN A:215 , ASN A:217 , ASP A:246 , ASP A:248 , ASN A:254 , ASN A:305binding site for residue CA A 627
12AD3SOFTWAREGLU A:232 , GLU A:292 , ASN A:330 , VAL A:331 , GLU A:333 , ASP A:368binding site for residue CA A 628
13AD4SOFTWAREGLU A:232 , ASP A:290 , GLU A:292 , GLU A:333 , GLU A:367binding site for residue CA A 629
14AD5SOFTWAREGLU A:348 , GLU A:405 , ASP A:440 , ILE A:441 , ASP A:443 , ASP A:470binding site for residue CA A 630
15AD6SOFTWAREGLU A:348 , ASP A:403 , GLU A:405 , ASP A:443 , ASN A:444binding site for residue CA A 631
16AD7SOFTWAREASN A:442 , ASN A:444 , ASP A:468 , ASP A:470 , ASN A:474 , ASP A:523binding site for residue CA A 632
17AD8SOFTWARELYS A:318binding site for residue CL A 633
18AD9SOFTWARESER A:479 , PHE A:480 , GLN A:498binding site for residue CL A 634
19AE1SOFTWAREASN A:31 , ARG A:191 , THR A:198 , ASP A:199 , LYS A:200 , GLN A:204binding site for Poly-Saccharide residues NAG A 601 through GAL A 608 bound to ASN A 31
20AE2SOFTWAREASN A:463 , THR A:465 , GLU A:499 , SER A:502binding site for Poly-Saccharide residues NAG A 612 through MAN A 617
21AE3SOFTWAREASN A:258 , PHE A:259 , THR A:260 , ASN A:305 , LYS A:306 , ASN A:463 , THR A:465 , GLU A:499 , SER A:502 , FUC A:614binding site for Poly-Saccharide residues NAG A 618 through NAG A 619

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:445 -A:529
2A:456 -A:542
3A:540 -A:548

(-) Cis Peptide Bonds  (8, 8)

Asymmetric/Biological Unit
No.Residues
1Gly A:15 -Pro A:16
2Phe A:17 -Pro A:18
3Glu A:46 -Pro A:47
4Glu A:153 -Pro A:154
5Tyr A:156 -Pro A:157
6Tyr A:425 -Pro A:426
7His A:472 -Pro A:473
8Lys A:485 -Pro A:486

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5J5J)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5J5J)

(-) Exons   (0, 0)

(no "Exon" information available for 5J5J)

(-) 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:552
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......eeee........eeeee.............eee...........eee.....eeee..............eee................eeee.......ee...eeeeeee.......eeee..ee............eeeeee........eee.....eeee...........eeeeeeeee............eeeeeeeee.......ee.....eeeee......eeeeeeee...........eeeeeee......eeeeee....eeeeee.............eeeeeee....hhhhh.......eeeeeeee.....ee....eeeeeee..........eee....ee........eeeeee......eee......eee..............eeeeeeeeee......eeeeeeeeeee.......ee...eeee......eeeeee....................hhhhheeeeee...eeeeee......eeeeee.............eeeeeee............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5j5j A   1 RWAPIPCSMLENSLGPFPLFLQQVQSDTAQNYTIYYSIRGPGVDQEPRNLFYVERDTGNLYCTRPVDREQYESFEIIAFATTPDGYTPELPLPLIIKIEDINDNEPVFTQDVFVGSVEELSAAHTLVMKINATDADEPNTLNSKISYRIVSLEPAYPPVFYLNKDTGEIYTTSVTLDREEHSSYTLTVEARDGNGEVTDKPVKQAQVQIRILDVNDNIPVVENKVLEGMVEENQVNVEVTRIKVFDADEIGSDNWLANFTFASGNEGGYFHIETDAQTNEGIVTLIKEVDYEEMKNLDFSVIVANKAAFHKSIRSKYKPTPIPIKVKVKNVKEGIHFKSSVISIYVSESMDRSSKGQIIGNFQAFDEDTGLPAHARYVKLEDRDNWISVDSVTSEIKLAKLPDFESRYVQNGTYTVKIVAISEDYPRKTITGTVLINVEDINDNCPTLIEPVQTICHDAEYVNVTAEDLDGHPNSGPFSFSVIDKPPGMAEKWKIARQESTSVLLQQSEKKLGRSEIQFLISDNQGFSCPEKQVLTLTVCECLHGSGCREAH 552
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550
   Legend:   → Mismatch (orange background)
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  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 5J5J)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5J5J)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5J5J)

(-) Gene Ontology  (29, 44)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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        DSC2_HUMAN | Q02487: 5erp
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