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(-) Description

Title :  EXTENDED TUDOR DOMAIN OF DROSOPHILA MELANOGASTER TUDOR-SN ( P100)
 
Authors :  A. Friberg, L. Corsini, M. Sattler
Date :  04 Feb 09  (Deposition) - 03 Mar 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Unknown Function, Tudor, Beta-Barrel, Nuclease Domain, Tudor-Sn, P100, Snd1, Methylated Arginine, Sdma, Splicing (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. Friberg, L. Corsini, A. Mourao, M. Sattler
Structure And Ligand Binding Of The Extended Tudor Domain Of D. Melanogaster Tudor-Sn
J. Mol. Biol. V. 387 921 2009
PubMed-ID: 19232356  |  Reference-DOI: 10.1016/J.JMB.2009.02.018

(-) Compounds

Molecule 1 - CG7008-PA
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21
    Expression System Taxid511693
    FragmentTSN DOMAIN, TUDOR AND SN5, RESIDUES 700-916
    Organism CommonFRUIT FLY
    Organism ScientificDROSOPHILA MELANOGASTER
    Organism Taxid7227
    SynonymLD20211P, TUDOR-SN

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)A 
Biological Unit 2 (1x) B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2WAC)

(-) Sites  (0, 0)

(no "Site" information available for 2WAC)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2WAC)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2WAC)

(-) Sequences/Alignments

Asymmetric 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:217
 aligned with Q9W0S7_DROME | Q9W0S7 from UniProtKB/TrEMBL  Length:926

    Alignment length:217
                                   708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908       
         Q9W0S7_DROME   699 KVNYENVIVTEITETLTFFAQSVESGSKLESLMSKLHADFQSNPPIAGSYTPKRGDLVAAQFTLDNQWYRAKVERVQGSNATVLYIDYGNKETLPTNRLAALPPAFSSEKPYATEYALALVALPTDNEDKEEALRAFSEDVLNHKVQLNVELKVTGSPNLATLRDPTTKVDFGKQLVAEGLVLAEQRGERKLKELVDQYKAAQEAARVAHLAIWKYG 915
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2wacA01               2wacA02 A:721-811  [code=2.30.30.140, no name defined]                                     2wacA01 A:699-720,A:812-915  [code=2.40.50.90, no name defined]                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeee....eeeeee..hhhhhhhhhhhhhhhhhhh.............eeeee......eeeeeeeeee..eeeeee.....eeeee...eee.hhhhh.....eeeeee..ee...hhhhhhhhhhhhhhhhh..eeeeeeee......eeeeee......hhhhhhhhh...ee....hhhhhhhhhhhhhhhhhhhhh.hhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wac A 699 MVNYENVIVTEITETLTFFAQSVESGSKLESLMSKLHADFQSNPPIAGSYTPKRGDLVAAQFTLDNQWYRAKVERVQGSNATVLYIDYGNKETLPTNRLAALPPAFSSEKPYATEYALALVALPTDNEDKEEALRAFSEDVLNHKVQLNVELKVTGSPNLATLRDPTTKVDFGKQLVAEGLVLAEQRGERKLKELVDQYKAAQEAARVAHLAIWKYG 915
                                   708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908       

Chain B from PDB  Type:PROTEIN  Length:215
 aligned with Q9W0S7_DROME | Q9W0S7 from UniProtKB/TrEMBL  Length:926

    Alignment length:215
                                   708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908     
         Q9W0S7_DROME   699 KVNYENVIVTEITETLTFFAQSVESGSKLESLMSKLHADFQSNPPIAGSYTPKRGDLVAAQFTLDNQWYRAKVERVQGSNATVLYIDYGNKETLPTNRLAALPPAFSSEKPYATEYALALVALPTDNEDKEEALRAFSEDVLNHKVQLNVELKVTGSPNLATLRDPTTKVDFGKQLVAEGLVLAEQRGERKLKELVDQYKAAQEAARVAHLAIWK 913
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2wacB01               2wacB02 B:721-811  [code=2.30.30.140, no name defined]                                     2wacB01 B:699-720,B:812-913  [code=2.40.50.90, no name defined]                                        CATH domains
           Pfam domains (1) -TUDOR-2wacB01 B:700-818                                                                                                ----------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -TUDOR-2wacB02 B:700-818                                                                                                ----------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ....eeeeeeee....eeeeee..hhhhhhhhhhhhhhhhhhh.............eeeee......eeeeeeeeee..eeeeee.....eeeee...ee..hhhhhh....eeeeee..ee...hhhhhhhhhhhhhhhhh..eeeeeeee......eeeeee......hhhhhhhhh...ee.......hhhhhhhhhhhhhhhhhh.hhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wac B 699 MVNYENVIVTEITETLTFFAQSVESGSKLESLMSKLHADFQSNPPIAGSYTPKRGDLVAAQFTLDNQWYRAKVERVQGSNATVLYIDYGNKETLPTNRLAALPPAFSSEKPYATEYALALVALPTDNEDKEEALRAFSEDVLNHKVQLNVELKVTGSPNLATLRDPTTKVDFGKQLVAEGLVLAEQRGERKLKELVDQYKAAQEAARVAHLAIWK 913
                                   708       718       728       738       748       758       768       778       788       798       808       818       828       838       848       858       868       878       888       898       908     

   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 2WAC)

(-) CATH Domains  (2, 4)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: Tudor (88)

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9W0S7_DROME | Q9W0S7)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0004518    nuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids.
    GO:0003712    transcription cofactor activity    Interacting selectively and non-covalently with a regulatory transcription factor and also with the basal transcription machinery in order to modulate transcription. Cofactors generally do not bind the template nucleic acid, but rather mediate protein-protein interactions between regulatory transcription factors and the basal transcription machinery.
biological process
    GO:0031047    gene silencing by RNA    Any process in which RNA molecules inactivate expression of target genes.
    GO:0090305    nucleic acid phosphodiester bond hydrolysis    The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.
    GO:0035194    posttranscriptional gene silencing by RNA    Any process of posttranscriptional gene inactivation (silencing) mediated by small RNA molecules that may trigger mRNA degradation or negatively regulate translation.
    GO:1903506    regulation of nucleic acid-templated transcription    Any process that modulates the frequency, rate or extent of nucleic acid-templated transcription.
cellular component
    GO:0016442    RISC complex    A ribonucleoprotein complex that contains members of the Argonaute family of proteins, small interfering RNAs (siRNAs) or microRNAs (miRNAs), and miRNA or siRNA-complementary mRNAs, in addition to a number of accessory factors. The RISC complex is involved in posttranscriptional repression of gene expression through downregulation of translation or induction of mRNA degradation.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0005811    lipid droplet    An intracellular non-membrane-bounded organelle comprising a matrix of coalesced lipids surrounded by a phospholipid monolayer. May include associated proteins.
    GO:0005875    microtubule associated complex    Any multimeric complex connected to a microtubule.

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