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(-) Description

Title :  SWI5 ZINC FINGER DOMAIN 2, NMR, 45 STRUCTURES
 
Authors :  D. Neuhaus, Y. Nakaseko, J. W. R. Schwabe, D. Rhodes, A. Klug
Date :  04 Apr 96  (Deposition) - 14 Oct 96  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (45x)
Keywords :  Dna Binding Motif, Zinc Finger Dna Binding Domain (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  D. Neuhaus, Y. Nakaseko, J. W. Schwabe, A. Klug
Solution Structures Of Two Zinc-Finger Domains From Swi5 Obtained Using Two-Dimensional 1H Nuclear Magnetic Resonance Spectroscopy. A Zinc-Finger Structure With A Third Strand Of Beta-Sheet.
J. Mol. Biol. V. 228 637 1992
PubMed-ID: 1453468  |  Reference-DOI: 10.1016/0022-2836(92)90846-C
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SWI5
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPRK172
    Expression System Taxid562
    FragmentZINC FINGER DOMAIN 2
    Organism CommonBAKER'S YEAST
    Organism ScientificSACCHAROMYCES CEREVISIAE
    Organism Taxid4932
    Other DetailsT7 PROMOTER

 Structural Features

(-) Chains, Units

  
NMR Structure (45x)

Summary Information (see also Sequences/Alignments below)

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

NMR Structure (1, 1)
No.NameCountTypeFull Name
1ZN1Ligand/IonZINC ION

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:44 , CYS A:49 , HIS A:62 , HIS A:66BINDING SITE FOR RESIDUE ZN A 71

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1ZFD)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1ZFD)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1ZFD)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ZINC_FINGER_C2H2_1PS00028 Zinc finger C2H2 type domain signature.SWI5_YEAST552-574
582-604
  1-
A:44-66

(-) Exons   (1, 1)

NMR Structure (1, 1)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YDR146C1YDR146C.1IV:750740-7486112130SWI5_YEAST1-7097091A:39-7032

(-) Sequences/Alignments

NMR Structure
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
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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:32
 aligned with SWI5_YEAST | P08153 from UniProtKB/Swiss-Prot  Length:709

    Alignment length:32
                                   586       596       606  
           SWI5_YEAST   577 DRPYSCDHPGCDKAFVRNHDLIRHKKSHQEKA 608
               SCOP domains d1zfda_ A:                       SCOP domains
               CATH domains -------------------------------- CATH domains
               Pfam domains -------------------------------- Pfam domains
         Sec.struct. author ...eee......eee..hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------- SAPs(SNPs)
                    PROSITE -----ZINC_FINGER_C2H2_1     ---- PROSITE
               Transcript 1 Exon 1.1  PDB: A:39-70           Transcript 1
                 1zfd A  39 DRPYSCDHPGCDKAFVRNHDLIRHKKSHQEKA  70
                                    48        58        68  

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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

NMR Structure

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1ZFD)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1ZFD)

(-) Gene Ontology  (13, 13)

NMR Structure(hide GO term definitions)
Chain A   (SWI5_YEAST | P08153)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0001012    RNA polymerase II regulatory region DNA binding    Interacting selectively and non-covalently with a DNA region that controls the transcription of a region of DNA by RNA polymerase II. Binding may occur as a sequence specific interaction or as an interaction observed only once a factor has been recruited to the DNA by other factors.
    GO:0001133    RNA polymerase II transcription factor activity, sequence-specific transcription regulatory region DNA binding    Interacting selectively and non-covalently with a specific sequence of DNA that is part of a regulatory region that controls transcription of that section of the DNA by RNA polymerase II and recruiting another transcription factor to the DNA in order to modulate transcription by RNAP II.
    GO:0036033    mediator complex binding    Interacting selectively and non-covalently with a mediator complex. The mediator complex is a protein complex that interacts with the carboxy-terminal domain of the largest subunit of RNA polymerase II and plays an active role in transducing the signal from a transcription factor to the transcriptional machinery. The Saccharomyces complex contains several identifiable subcomplexes: a head domain comprising Srb2, -4, and -5, Med6, -8, and -11, and Rox3 proteins; a middle domain comprising Med1, -4, and -7, Nut1 and -2, Cse2, Rgr1, Soh1, and Srb7 proteins; a tail consisting of Gal11p, Med2p, Pgd1p, and Sin4p; and a regulatory subcomplex comprising Ssn2, -3, and -8, and Srb8 proteins. Metazoan mediator complexes have similar modular structures and include homologs of yeast Srb and Med proteins.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003676    nucleic acid binding    Interacting selectively and non-covalently with any nucleic acid.
biological process
    GO:0031496    positive regulation of mating type switching    Any process that activates or increases the frequency, rate or extent of mating type switching.
    GO:0007074    positive regulation of transcription involved in exit from mitosis, from RNA polymerase II promoter    Any process that increases the frequency, rate or extent of transcription from an RNA polymerase II promoter as the cell leaves M phase. M phase is the part of the mitotic cell cycle during which mitosis and cytokinesis take place.
    GO:0000083    regulation of transcription involved in G1/S transition of mitotic cell cycle    Any process that regulates transcription such that the target genes are involved in the transition between G1 and S phase of the mitotic cell cycle.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    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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 Related Entries

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UniProtKB/Swiss-Prot
        SWI5_YEAST | P081531ncs

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