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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN VINCULIN HEAD DOMAIN (RESIDUES 1-252) IN COMPLEX WITH ALPHA-CATENIN (RESIDUES 277-382)
 
Authors :  T. Izard, E. S. Rangarajan
Date :  03 Apr 12  (Deposition) - 18 Apr 12  (Release) - 17 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.66
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Adherens Junctions, Vinculin Binding Site, Vinculin Binding Domain, Helix Bundle, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. S. Rangarajan, T. Izard
Alpha-Catenin Unfurls Upon Binding To Vinculin
J. Biol. Chem. V. 287 18492 2012
PubMed-ID: 22493458  |  Reference-DOI: 10.1074/JBC.M112.351023

(-) Compounds

Molecule 1 - VINCULIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET24
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 1-252
    Gene: VCL
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: METAVINCULIN
 
Molecule 2 - CATENIN ALPHA-1
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX-6P-1
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 277-382
    Gene: CTNNA1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ALPHA E-CATENIN, CADHERIN-ASSOCIATED PROTEIN, RENAL CARCINOMA ANTIGEN NY-REN-13

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 9)

Asymmetric/Biological Unit (1, 9)
No.NameCountTypeFull Name
1ACT9Ligand/IonACETATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:6 , ILE A:9 , ASP A:127 , HOH A:447 , ARG B:330BINDING SITE FOR RESIDUE ACT A 301
2AC2SOFTWAREASP A:39 , LEU A:250 , THR A:251 , SER A:252BINDING SITE FOR RESIDUE ACT A 302
3AC3SOFTWAREILE A:245 , GLN A:249 , HOH A:454BINDING SITE FOR RESIDUE ACT A 303
4AC4SOFTWARESER A:207 , LYS A:228 , ASN A:229BINDING SITE FOR RESIDUE ACT A 304
5AC5SOFTWAREVAL A:32 , LYS A:35 , TYR A:100 , SER A:101 , ARG A:105 , TYR B:351BINDING SITE FOR RESIDUE ACT A 305
6AC6SOFTWARETHR A:197 , GLU A:200BINDING SITE FOR RESIDUE ACT A 306
7AC7SOFTWARETHR A:65 , PHE A:126 , LYS A:133 , ARG B:329BINDING SITE FOR RESIDUE ACT A 307
8AC8SOFTWARELYS A:87 , ASP A:110BINDING SITE FOR RESIDUE ACT A 308
9AC9SOFTWAREPRO A:2 , GLN A:90 , TYR A:107 , THR A:183 , GLN A:185 , GLU A:186BINDING SITE FOR RESIDUE ACT A 309

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1B:324 -B:324

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4EHP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4EHP)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4EHP)

(-) Exons   (0, 0)

(no "Exon" information available for 4EHP)

(-) 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:248
                                                                                                                                                                                                                                                                                        
               SCOP domains d4ehpa1 A:2-128 Vinculin                                                                                                       d4ehpa2 A:129-252 Vinculin                                                                                                SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ehp A   2 PVFHTRTIESILEPVAQQISHLVIMHEEGEVDGKAIPDLTAPVAAVQAAVSNLVRVGKETVQTTEDQILKRDMPPAFIKVENACTKLVQAAQMLQSDPYSVPARDYLIDGSRGILSGTSDLLLTFDEAEVRKIIRVCKGILEYLTVAEVVETMEDLVTYTKNLGPGMTKMAKMIDERQQELTHQEHRVMLVNSMNTVKELLPVLISAMKIFVTTKNSKIEEALKNRNFTVEKMSAEINEIIRVLQLTS 252
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       224       234       244        
                                                                                                                                                                                                                                                   219|                             
                                                                                                                                                                                                                                                    223                             


Chain B from PDB  Type:PROTEIN  Length:93
                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhh...hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                 4ehp B 290 IVDPLSFSEERFRPSLEERLESIISGAALMADSSCTRDDRRERIVAECNAVRQALQDLLSEYMGNAGRKERSDALNSAIDKMTKKTRDLRRQL 382
                                   299       309       319       329       339       349       359       369       379
   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  (1, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4EHP)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4EHP)

(-) Gene Ontology  (81, 100)

Asymmetric/Biological Unit(hide GO term definitions)

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  CTNA1_HUMAN | P35221
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  VINC_HUMAN | P18206
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 Related Entries

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

UniProtKB/Swiss-Prot
        CTNA1_HUMAN | P35221: 1h6g 1l7c 4igg
        VINC_HUMAN | P18206: 1rkc 1rke 1syq 1tr2 1ydi 2gww 2hsq 2ibf 3h2u 3h2v 3jbk 3myi 3rf3 3s90 3tj5 3tj6 3vf0 4dj9 4ln2 4lnp 4pr9 5l0c 5l0d 5l0f 5l0g 5l0h 5l0i 5l0j

(-) Related Entries Specified in the PDB File

1rkc 1rke 1syq 1tr2 1ydi 2gww 2hsq 2ibf 3h2u 3h2v 3myi 3rf3 3s90 3smz 3tj5 3tj6 4dj9