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(-) Description

Title :  EXTENDED-SYNAPTOTAGMIN 2, C2A- AND C2B-DOMAINS, CALCIUM BOUND
 
Authors :  D. R. Tomchick, J. Rizo, J. Xu
Date :  21 Nov 13  (Deposition) - 29 Jan 14  (Release) - 19 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.55
Chains :  Asym./Biol. Unit :  A
Keywords :  Calcium/Phospholipid Binding Protein, C2 Domain, Er To Plasma Membrane, Membrane Traffic, Protein Targeting, Plasma Membrane, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Xu, T. Bacaj, A. Zhou, D. R. Tomchick, T. C. Sudhof, J. Rizo
Structure And Ca(2+)-Binding Properties Of The Tandem C2 Domains Of E-Syt2.
Structure V. 22 269 2014
PubMed-ID: 24373768  |  Reference-DOI: 10.1016/J.STR.2013.11.011
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - EXTENDED SYNAPTOTAGMIN-2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: C2A AND C2B DOMAINS
    Gene: ESYT2, EXTENDED-SYNAPTOTAGMIN 2, FAM62B, KIAA1228
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: E-SYT2, CHR2SYT

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1CA3Ligand/IonCALCIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:401 , ASP A:413 , ASP A:460 , GLU A:461 , ASP A:462 , HOH A:903BINDING SITE FOR RESIDUE CA A 801
2AC2SOFTWARELYS A:400 , ASP A:401 , ASP A:460 , ASP A:462 , ASP A:467 , HOH A:904BINDING SITE FOR RESIDUE CA A 802
3AC3SOFTWAREASP A:462 , ASP A:464 , ASP A:466 , HOH A:901 , HOH A:902BINDING SITE FOR RESIDUE CA A 803

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4NPK)

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4NPK)

(-) 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:269
                                                                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeeee......eehhhhee....eeeeeee..eeee..........eeeeeeeeee......eeeeeeee......eeeeeeeeehhhhhhhheeeeeee.......eeeeeeeeeeee....hhhhhhhhhh......eeeeeeeeeee........eeeee......ee..........eeeeeeeeee......eeeeeeee.....eeeeeeee.hhhhhhhh.eeeeeee........eeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4npk A 380 FPVPKGVLRIHFIEAQDLQGKDTYLKGLVKGKSDPYGIIRVGNQIFQSRVIKENLSPKWNEVYEALVYEHPGQELEIELFDEDPDKDDFLGSLMIDLIEVEKERLLDEWFTLDEVPKGKLHLRLEWLTLMPNVSNLDKVLTDIKADGLSSALLILYLDSARNLPSSNPNPVVQMSVGHKAQESKIRYKTNEPVWEENFTFFIHNPKRQDLEVEVRDEQHQCSLGNLKVPLSQLLTSEDMTVSQRFQLSNSGPNSTIKMKIALRVLHLEK 659
                                   389       399       409       419       429       439       449       459       469       479       489       499       509       519     ||535       545    || 560       570       580       590       600       610       620       630       640       650         
                                                                                                                                                                           525|               550|                                                                                                       
                                                                                                                                                                            532                556
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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 4NPK)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (21, 21)

Asymmetric/Biological Unit(hide GO term definitions)

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  4npk
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 Related Entries

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

UniProtKB/Swiss-Prot
        ESYT2_HUMAN | A0FGR8: 2dmg 4npj 4p42

(-) Related Entries Specified in the PDB File

4npj THE SAME PROTEIN WITH NO BOUND CA2+.