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(-) Description

Title :  1H, 13C, AND 15N CHEMICAL SHIFT ASSIGNMENTS FOR YEAST PROTEIN
 
Authors :  T. Wang, J. Zhang, X. Tu
Date :  24 Aug 11  (Deposition) - 25 Apr 12  (Release) - 25 Apr 12  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
NMR Structure *:  A  (1x)
Keywords :  Ligand Binding, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  T. Wang, J. Zhang, X. Zhang, X. Tu
Solution Structure Of Swi1 Arid Domain From Saccharomyces Cerevisiae And Its Non-Specific Binding To Dna
Proteins 2012
PubMed-ID: 22488857  |  Reference-DOI: 10.1002/PROT.24091

(-) Compounds

Molecule 1 - SWI/SNF CHROMATIN-REMODELING COMPLEX SUBUNIT SWI1
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Expression System VectorPET 22B
    Expression System Vector TypeVECTOR
    FragmentUNP RESIDUES 390-505
    GeneADR6, GAM3, SWI1, YPL016W, LPA1
    Organism CommonYEAST
    Organism ScientificSACCHAROMYCES CEREVISIAE
    Organism Taxid559292
    StrainATCC 204508 / S288C
    SynonymREGULATORY PROTEIN GAM3, SWI/SNF COMPLEX SUBUNIT SWI1, TRANSCRIPTION REGULATORY PROTEIN ADR6, TRANSCRIPTION REGULATORY PROTEIN SWI1

 Structural Features

(-) Chains, Units

  1
NMR Structure (20x)A
NMR Structure * (1x)A

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2LI6)

(-) Sites  (0, 0)

(no "Site" information available for 2LI6)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2LI6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2LI6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2LI6)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ARIDPS51011 ARID domain profile.SWI1_YEAST406-493  1A:17-104
NMR Structure * (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ARIDPS51011 ARID domain profile.SWI1_YEAST406-493  1A:17-104

(-) Exons   (1, 1)

NMR Structure (1, 1)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YPL016W1YPL016W.1XVI:521011-5249553945SWI1_YEAST1-131413141A:1-116116

(-) 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    
   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:116
 aligned with SWI1_YEAST | P09547 from UniProtKB/Swiss-Prot  Length:1314

    Alignment length:116
                                   399       409       419       429       439       449       459       469       479       489       499      
           SWI1_YEAST   390 QSLNPALQEKISTELNNKQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGADQVTRTQQWSMVAQRLQISDYQQLESIYFRILLPYERHMISQEGIKETQAKR 505
               SCOP domains d2li6a_ A: automated matches                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............hhhhhhhhhhhhhhhhhh..................hhhhhhhhhhhhhhhhhhh.hhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh..hhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------ARID  PDB: A:17-104 UniProt: 406-493                                                    ------------ PROSITE
               Transcript 1 Exon 1.1  PDB: A:1-116 UniProt: 1-1314 [INCOMPLETE]                                                                  Transcript 1
                 2li6 A   1 QSLNPALQEKISTELNNKQYELFMKSLIENCKKRNMPLQSIPEIGNRKINLFYLYMLVQKFGGADQVTRTQQWSMVAQRLQISDYQQLESIYFRILLPYERHMISQEGIKETQAKR 116
                                    10        20        30        40        50        60        70        80        90       100       110      

   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  (1, 1)

NMR Structure

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2LI6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2LI6)

(-) Gene Ontology  (16, 16)

NMR Structure(hide GO term definitions)
Chain A   (SWI1_YEAST | P09547)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0015616    DNA translocase activity    Catalysis of the reaction: ATP + H2O = ADP + phosphate, to drive movement along a single- or double-stranded DNA molecule.
    GO:0001102    RNA polymerase II activating transcription factor binding    Interacting selectively and non-covalently with an RNA polymerase II transcription activating factor, a protein involved in positive regulation of transcription.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0043044    ATP-dependent chromatin remodeling    Dynamic structural changes to eukaryotic chromatin that require energy from the hydrolysis of ATP, ranging from local changes necessary for transcriptional regulation to global changes necessary for chromosome segregation, mediated by ATP-dependent chromatin-remodelling factors.
    GO:0006261    DNA-dependent DNA replication    A DNA replication process that uses parental DNA as a template for the DNA-dependent DNA polymerases that synthesize the new strands.
    GO:0000436    carbon catabolite activation of transcription from RNA polymerase II promoter    Any process involving carbon catabolites that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:0044109    cellular alcohol catabolic process    The chemical reactions and pathways resulting in the breakdown of alcohols, any of a class of compounds containing one or more hydroxyl groups attached to a saturated carbon atom, occurring at the level of the individual cell.
    GO:0031496    positive regulation of mating type switching    Any process that activates or increases the frequency, rate or extent of mating type switching.
    GO:0045944    positive regulation of transcription from RNA polymerase II promoter    Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:0061412    positive regulation of transcription from RNA polymerase II promoter in response to amino acid starvation    Any process that increases the frequency, rate or extent of transcription from an RNA polymerase II promoter as a result of deprivation of amino acids.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0005987    sucrose catabolic process    The chemical reactions and pathways resulting in the breakdown of sucrose, the disaccharide fructofuranosyl-glucopyranoside.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0016514    SWI/SNF complex    A SWI/SNF-type complex that contains nine or more proteins, including both conserved (core) and nonconserved components; the Swi2/Snf2 ATPase is one of the core components.
    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

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

UniProtKB/Swiss-Prot
        SWI1_YEAST | P095471kkx 1kn5

(-) Related Entries Specified in the PDB File

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