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(-) Description

Title :  CRYSTAL STRUCTURE OF DROSOPHILA FRQ2
 
Authors :  S. Banos-Mateos, A. Chaves-Sanjuan, M. J. Sanchez-Barrena
Date :  17 Jul 13  (Deposition) - 13 Aug 14  (Release) - 17 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Calcium-Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Romero-Pozuelo, J. S. Dason, A. Mansilla, S. Banos-Mateos, J. L. Sardina, A. Chaves-Sanjuan, J. Jurado-Gomez, E. Santana, H. L. Atwood, A. Hernandez-Hernandez, M. Sanchez-Barrena, A. Ferrus
The Guanine-Exchange Factor Ric8A Binds To The Ca2+ Sensor Ncs-1 To Regulate Synapse Number And Neurotransmitter Release.
J. Cell. Sci. V. 127 4246 2014
PubMed-ID: 25074811  |  Reference-DOI: 10.1242/JCS.152603

(-) Compounds

Molecule 1 - FI18190P1
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETDUET
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Common: FRUIT FLY
    Organism Scientific: DROSOPHILA MELANOGASTER
    Organism Taxid: 7227
    Other Details: CALCIUM BINDING TO EF HANDS 2,3 AND 4
    Synonym: FREQUENIN, FREQUENIN 2

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric/Biological Unit (2, 7)
No.NameCountTypeFull Name
1CA6Ligand/IonCALCIUM ION
2NA1Ligand/IonSODIUM ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:73 , ASN A:75 , ASP A:77 , ALA A:79 , GLU A:84 , HOH A:2040BINDING SITE FOR RESIDUE CA A1184
2AC2SOFTWAREASP A:109 , ASP A:111 , ASP A:113 , TYR A:115 , GLU A:120 , HOH A:2062BINDING SITE FOR RESIDUE CA A1185
3AC3SOFTWAREASP A:156 , ASN A:158 , ASP A:160 , ARG A:162 , GLU A:167 , HOH A:2071BINDING SITE FOR RESIDUE CA A1186
4AC4SOFTWAREASP B:73 , ASN B:75 , ASP B:77 , ALA B:79 , GLU B:84 , HOH B:2021BINDING SITE FOR RESIDUE CA B1184
5AC5SOFTWAREASP B:109 , ASP B:111 , ASP B:113 , TYR B:115 , GLU B:120 , HOH B:2036BINDING SITE FOR RESIDUE CA B1185
6AC6SOFTWAREASP B:156 , ASN B:158 , ASP B:160 , ARG B:162 , GLU B:167 , HOH B:2037BINDING SITE FOR RESIDUE CA B1186
7AC7SOFTWARETHR A:17 , THR A:20 , HOH A:2008 , HOH A:2009 , HOH A:2010 , ASP B:11BINDING SITE FOR RESIDUE NA A1187

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4BY4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4BY4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4BY4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4BY4)

(-) Exons   (0, 0)

(no "Exon" information available for 4BY4)

(-) 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:171
 aligned with Q9VWX8_DROME | Q9VWX8 from UniProtKB/TrEMBL  Length:187

    Alignment length:178
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175        
         Q9VWX8_DROME     6 SKLKQDTIDRLTTDTYFTEKEIRQWHKGFLKDCPNGLLTEQGFIKIYKQFFPDGDPSKFASLVFRVFDENNDGAIEFEEFIRALSITSRGNLDEKLHWAFRLYDVDNDGYITREEMYNIVDAIYQMVGQQPQTEDENTPQKRVDKIFDQMDKNHDDRLTLEEFREGSKADPRIVQALS 183
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhh..hhhhhhhhhhhhhhhh....eehhhhhhhhhhhh....hhhhhhhhhhhhh.....eehhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh.-------.hhhhhhhhhhhhhh.......hhhhhhhhhh.hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4by4 A   6 SKLKQDTIDRLTTDTYFTEKEIRQWHKGFLKDCPNGLLTEQGFIKIYKQFFPDGDPSKFASLVFRVFDENNDGAIEFEEFIRALSITSRGNLDEKLHWAFRLYDVDNDGYITREEMYNIVDAIYQMVGQ-------NTPQKRVDKIFDQMDKNHDDRLTLEEFREGSKADPRMVQALS 183
                                    15        25        35        45        55        65        75        85        95       105       115       125        |-      |145       155       165       175        
                                                                                                                                                          134     142                                         


Chain B from PDB  Type:PROTEIN  Length:168
 aligned with Q9VWX8_DROME | Q9VWX8 from UniProtKB/TrEMBL  Length:187

    Alignment length:179
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174         
         Q9VWX8_DROME     5 NSKLKQDTIDRLTTDTYFTEKEIRQWHKGFLKDCPNGLLTEQGFIKIYKQFFPDGDPSKFASLVFRVFDENNDGAIEFEEFIRALSITSRGNLDEKLHWAFRLYDVDNDGYITREEMYNIVDAIYQMVGQQPQTEDENTPQKRVDKIFDQMDKNHDDRLTLEEFREGSKADPRIVQALS 183
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhh..hhhhhhhhhhhhhhhh...eeehhhhhhhhhhhh....hhhhhhhhhhhhh.....eeehhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh.-----------hhhhhhhhhhhh.......hhhhhhhhhh.hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4by4 B   5 NSKLKQDTIDRLTTDTYFTEKEIRQWHKGFLKDCPNGLLTEQGFIKIYKQFFPDGDPSKFASLVFRVFDENNDGAIEFEEFIRALSITSRGNLDEKLHWAFRLYDVDNDGYITREEMYNIVDAIYQMVG-----------QKRVDKIFDQMDKNHDDRLTLEEFREGSKADPRMVQALS 183
                                    14        24        34        44        54        64        74        84        94       104       114       124        |-         -|      154       164       174         
                                                                                                                                                          133         145
   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  (0, 0)

(no "SCOP Domain" information available for 4BY4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4BY4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4BY4)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q9VWX8_DROME | Q9VWX8)
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:0007268    chemical synaptic transmission    The vesicular release of classical neurotransmitter molecules from a presynapse, across a chemical synapse, the subsequent activation of neurotransmitter receptors at the postsynapse of a target cell (neuron, muscle, or secretory cell) and the effects of this activation on the postsynaptic membrane potential and ionic composition of the postsynaptic cytosol. This process encompasses both spontaneous and evoked release of neurotransmitter and all parts of synaptic vesicle exocytosis. Evoked transmission starts with the arrival of an action potential at the presynapse.
    GO:0007528    neuromuscular junction development    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a neuromuscular junction.
    GO:0007269    neurotransmitter secretion    The regulated release of neurotransmitter from the presynapse into the synaptic cleft via calcium regualated exocytosis during synaptic transmission.
    GO:0046928    regulation of neurotransmitter secretion    Any process that modulates the frequency, rate or extent of the regulated release of a neurotransmitter from a cell.
    GO:0016192    vesicle-mediated transport    A cellular transport process in which transported substances are moved in membrane-bounded vesicles; transported substances are enclosed in the vesicle lumen or located in the vesicle membrane. The process begins with a step that directs a substance to the forming vesicle, and includes vesicle budding and coating. Vesicles are then targeted to, and fuse with, an acceptor membrane.
cellular component
    GO:0008021    synaptic vesicle    A secretory organelle, typically 50 nm in diameter, of presynaptic nerve terminals; accumulates in high concentrations of neurotransmitters and secretes these into the synaptic cleft by fusion with the 'active zone' of the presynaptic plasma membrane.

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        Q9VWX8_DROME | Q9VWX8: 4by5 5aan 5fyx 5g08

(-) Related Entries Specified in the PDB File

4by5 CRYSTAL STRUCTURE OF DROSOPHILA FRQ2