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(-) Description

Title :  STRUCTURE OF THE MURINE NORE1-SARAH DOMAIN
 
Authors :  C. Makbul, D. Schwarz, D. C. Aruxandei, E. Wolf, E. Hofmann, C. Herrmann
Date :  10 Oct 12  (Deposition) - 20 Mar 13  (Release) - 16 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.69
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Apoptosis, Tumor Suppressor, Coiled-Coil, Ras Association Domain Family (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. Makbul, D. Constantinescu Aruxandei, E. Hofmann, D. Schwarz, E. Wolf, C. Herrmann
Structural And Thermodynamic Characterization Of Nore1- Sarah: A Small, Helical Module Important In Signal Transduction Networks.
Biochemistry V. 52 1045 2013
PubMed-ID: 23331050  |  Reference-DOI: 10.1021/BI3014642

(-) Compounds

Molecule 1 - RAS ASSOCIATION DOMAIN-CONTAINING PROTEIN 5
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System VectorPGEX-4T
    Expression System Vector TypePLASMID
    FragmentSARAH DOMAIN, RESIDUES 370-413
    Organism CommonHOUSE MOUSE
    Organism ScientificMUS MUSCULUS
    Organism Taxid10090
    SynonymNEW RAS EFFECTOR 1, REGULATOR FOR CELL ADHESION AND POLARIZATION ENRICHED IN LYMPHOID TISSUES, RAPL, NORE1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1CD3Ligand/IonCADMIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS B:388 , HOH B:2024 , HOH B:2044BINDING SITE FOR RESIDUE CD B1409
2AC2SOFTWARECD A:1409 , GLU B:403 , GLU B:407 , HOH B:2042BINDING SITE FOR RESIDUE CD B1410
3AC3SOFTWAREGLU A:407 , GLU B:403 , CD B:1410BINDING SITE FOR RESIDUE CD A1409

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2YMY)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly B:368 -Ser B:369

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2YMY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2YMY)

(-) Exons   (0, 0)

(no "Exon" information available for 2YMY)

(-) 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:40
 aligned with RASF5_MOUSE | Q5EBH1 from UniProtKB/Swiss-Prot  Length:413

    Alignment length:40
                                   378       388       398       408
          RASF5_MOUSE   369 IPELQNFLTILEKEEQDKIHQLQKKYNKFRQKLEEALRES 408
               SCOP domains ---------------------------------------- SCOP domains
               CATH domains ---------------------------------------- CATH domains
               Pfam domains ---------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------- PROSITE
                 Transcript ---------------------------------------- Transcript
                 2ymy A 369 SPELQNFLTILEKEEQDKIHQLQKKYNKFRQKLEEALRES 408
                                   378       388       398       408

Chain B from PDB  Type:PROTEIN  Length:41
 aligned with RASF5_MOUSE | Q5EBH1 from UniProtKB/Swiss-Prot  Length:413

    Alignment length:41
                                   377       387       397       407 
          RASF5_MOUSE   368 SIPELQNFLTILEKEEQDKIHQLQKKYNKFRQKLEEALRES 408
               SCOP domains ----------------------------------------- SCOP domains
               CATH domains ----------------------------------------- CATH domains
               Pfam domains ----------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------- PROSITE
                 Transcript ----------------------------------------- Transcript
                 2ymy B 368 GSPELQNFLTILEKEEQDKIHQLQKKYNKFRQKLEEALRES 408
                                   377       387       397       407 

   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 2YMY)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2YMY)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2YMY)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (RASF5_MOUSE | Q5EBH1)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0006915    apoptotic process    A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died.
    GO:0035556    intracellular signal transduction    The process in which a signal is passed on to downstream components within the cell, which become activated themselves to further propagate the signal and finally trigger a change in the function or state of the cell.
    GO:0008285    negative regulation of cell proliferation    Any process that stops, prevents or reduces the rate or extent of cell proliferation.
    GO:0031398    positive regulation of protein ubiquitination    Any process that activates or increases the frequency, rate or extent of the addition of ubiquitin groups to a protein.
    GO:1900180    regulation of protein localization to nucleus    Any process that modulates the frequency, rate or extent of protein localization to nucleus.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005856    cytoskeleton    Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
    GO:0005874    microtubule    Any of the long, generally straight, hollow tubes of internal diameter 12-15 nm and external diameter 24 nm found in a wide variety of eukaryotic cells; each consists (usually) of 13 protofilaments of polymeric tubulin, staggered in such a manner that the tubulin monomers are arranged in a helical pattern on the microtubular surface, and with the alpha/beta axes of the tubulin subunits parallel to the long axis of the tubule; exist in equilibrium with pool of tubulin monomers and can be rapidly assembled or disassembled in response to physiological stimuli; concerned with force generation, e.g. in the spindle.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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    Gly B:368 - Ser B:369   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        RASF5_MOUSE | Q5EBH11rfh 2fnf 3ddc

(-) Related Entries Specified in the PDB File

2fnf C1 DOMAIN OF NORE1