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(-) Description

Title :  S. CEREVISIAE SWI6 ANKYRIN-REPEAT FRAGMENT
 
Authors :  R. Foord, I. A. Taylor, S. G. Sedgwick, S. J. Smerdon
Date :  28 Sep 98  (Deposition) - 15 Sep 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transcription Regulation, Ankyrin Repeats, Cell-Cycle (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  R. Foord, I. A. Taylor, S. G. Sedgwick, S. J. Smerdon
X-Ray Structural Analysis Of The Yeast Cell Cycle Regulator Swi6 Reveals Variations Of The Ankyrin Fold And Has Implications For Swi6 Function.
Nat. Struct. Biol. V. 6 157 1999
PubMed-ID: 10048928  |  Reference-DOI: 10.1038/5845
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - REGULATORY PROTEIN SWI6
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPET22B
    Expression System StrainBL21DE3
    Expression System Taxid469008
    FragmentANKYRIN-REPEAT DOMAIN
    GeneSWI6
    Organism CommonBAKER'S YEAST
    Organism ScientificSACCHAROMYCES CEREVISIAE
    Organism Taxid4932

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1SW6)

(-) Sites  (0, 0)

(no "Site" information available for 1SW6)

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:404 -B:404

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1SW6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1SW6)

(-) PROSITE Motifs  (2, 8)

Asymmetric/Biological Unit (2, 8)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ANK_REP_REGIONPS50297 Ankyrin repeat region circular profile.SWI6_YEAST317-375
 
463-511
 
  4A:317-375
B:317-375
A:463-511
B:463-511
2ANK_REPEATPS50088 Ankyrin repeat profile.SWI6_YEAST317-349
 
469-501
 
  4A:317-349
B:317-349
A:469-501
B:469-501

(-) Exons   (1, 2)

Asymmetric/Biological Unit (1, 2)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1YLR182W1YLR182W.1XII:517942-5203532412SWI6_YEAST1-8038032A:212-512 (gaps)
B:212-512 (gaps)
301
301

(-) 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:254
 aligned with SWI6_YEAST | P09959 from UniProtKB/Swiss-Prot  Length:803

    Alignment length:301
                                   221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511 
           SWI6_YEAST   212 GPIITFTHDLTSDFLSSPLKIMKALPSPVVNDNEQKMKLEAFLQRLLFPEIQEMPTSLNNDSSNRNSEGGSSNQQQQHVSFDSLLQEVNDAFPNTQLNLNIPVDEHGNTPLHWLTSIANLELVKHLVKHGSNRLYGDNMGESCLVKAVKSVNNYDSGTFEALLDYLYPCLILEDSMNRTILHHIIITSGMTGCSAAAKYYLDILMGWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIANMLNAQDSNGDTCLNIAARLGNISIVDALLDYGADPFIANKSGLRPVDFGAG 512
               SCOP domains d1sw6a_ A: Swi6 ankyrin-repeat fragment                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains 1sw6A00 A:212-512  [code=1.25.40.20, no name def                               ined]                                                                                                                                                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee...........................hhhhhhhhhhhhhhh.-------------------------------.hhhhhhhhhhh..................hhhhhhh...hhhhhhhhh..............hhhhhhh..hhhhh..hhhhhhhhhhhhh........hhhhhhhhhh....hhhhhhhhhhhhhhhhhh....eee.----------------.hhhhh..hhhhhhh...........hhhhhhhh..hhhhhhhhh..............hhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---------------------------------------------------------------------------------------------------------ANK_REP_REGION  PDB: A:317-375 UniProt: 317-375            ---------------------------------------------------------------------------------------ANK_REP_REGION  PDB: A:463-511 UniProt: 463-511  - PROSITE (1)
                PROSITE (2) ---------------------------------------------------------------------------------------------------------ANK_REPEAT  PDB: A:317-349       -----------------------------------------------------------------------------------------------------------------------ANK_REPEAT  PDB: A:469-501       ----------- PROSITE (2)
               Transcript 1 Exon 1.1  PDB: A:212-512 (gaps) UniProt: 1-803 [INCOMPLETE]                                                                                                                                                                                                                                                   Transcript 1
                 1sw6 A 212 GPIITFTHDLTSDFLSSPLKIMKALPSPVVNDNEQKMKLEAFLQRLLF-------------------------------SFDSLLQEVNDAFPNTQLNLNIPVDEHGNTPLHWLTSIANLELVKHLVKHGSNRLYGDNMGESCLVKAVKSVNNYDSGTFEALLDYLYPCLILEDSMNRTILHHIIITSGMTGCSAAAKYYLDILMGWIVKKQNRPIQSG----------------DSILENLDLKWIIANMLNAQDSNGDTCLNIAARLGNISIVDALLDYGADPFIANKSGLRPVDFGAG 512
                                   221       231       241       251       | -         -         -       291       301       311       321       331       341       351       361       371       381       391       401       411       421        |-         -     | 451       461       471       481       491       501       511 
                                                                         259                             291                                                                                                                                        430              447                                                                 

Chain B from PDB  Type:PROTEIN  Length:254
 aligned with SWI6_YEAST | P09959 from UniProtKB/Swiss-Prot  Length:803

    Alignment length:301
                                   221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511 
           SWI6_YEAST   212 GPIITFTHDLTSDFLSSPLKIMKALPSPVVNDNEQKMKLEAFLQRLLFPEIQEMPTSLNNDSSNRNSEGGSSNQQQQHVSFDSLLQEVNDAFPNTQLNLNIPVDEHGNTPLHWLTSIANLELVKHLVKHGSNRLYGDNMGESCLVKAVKSVNNYDSGTFEALLDYLYPCLILEDSMNRTILHHIIITSGMTGCSAAAKYYLDILMGWIVKKQNRPIQSGTNEKESKPNDKNGERKDSILENLDLKWIIANMLNAQDSNGDTCLNIAARLGNISIVDALLDYGADPFIANKSGLRPVDFGAG 512
               SCOP domains d1sw6b_ B: Swi6 ankyrin-repeat fragment                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains 1sw6B00 B:212-512  [code=1.25.40.20, no name de                                fined]                                                                                                                                                                                                                         CATH domains
           Pfam domains (1) ---------------------------------------------------------------------------------------------------------Ank-1sw6B01 B:317-349            -------------------------------------------------------------------------------------------------------------Ank_5-1sw6B03 B:459-509                            --- Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------------------------------------------------Ank-1sw6B02 B:317-349            -------------------------------------------------------------------------------------------------------------Ank_5-1sw6B04 B:459-509                            --- Pfam domains (2)
         Sec.struct. author ................................hhhhhhhhhhhhh..--------------------------------.hhhhhhhhhhh..................hhhhhhh...hhhhhhhhh..............hhhhhhh......hhhhhhhhhhhhhhhh........hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh......---------------..hhhhh..hhhhhhh...........hhhhhhhh..hhhhhhhhhh.................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---------------------------------------------------------------------------------------------------------ANK_REP_REGION  PDB: B:317-375 UniProt: 317-375            ---------------------------------------------------------------------------------------ANK_REP_REGION  PDB: B:463-511 UniProt: 463-511  - PROSITE (1)
                PROSITE (2) ---------------------------------------------------------------------------------------------------------ANK_REPEAT  PDB: B:317-349       -----------------------------------------------------------------------------------------------------------------------ANK_REPEAT  PDB: B:469-501       ----------- PROSITE (2)
               Transcript 1 Exon 1.1  PDB: B:212-512 (gaps) UniProt: 1-803 [INCOMPLETE]                                                                                                                                                                                                                                                   Transcript 1
                 1sw6 B 212 GPIITFTHDLTSDFLSSPLKIMKALPSPVVNDNEQKMKLEAFLQRLL--------------------------------SFDSLLQEVNDAFPNTQLNLNIPVDEHGNTPLHWLTSIANLELVKHLVKHGSNRLYGDNMGESCLVKAVKSVNNYDSGTFEALLDYLYPCLILEDSMNRTILHHIIITSGMTGCSAAAKYYLDILMGWIVKKQNRPIQSG---------------KDSILENLDLKWIIANMLNAQDSNGDTCLNIAARLGNISIVDALLDYGADPFIANKSGLRPVDFGAG 512
                                   221       231       241       251      |  -         -         -       291       301       311       321       331       341       351       361       371       381       391       401       411       421        |-         -    |  451       461       471       481       491       501       511 
                                                                        258                              291                                                                                                                                        430             446                                                                  

   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, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Clan: Ank (35)

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (SWI6_YEAST | P09959)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0001105    RNA polymerase II transcription coactivator activity    Interacting selectively and non-covalently with an RNA polymerase II (RNAP II) regulatory transcription factor and also with the RNAP II basal transcription machinery in order to increase the frequency, rate or extent of transcription. Cofactors generally do not bind DNA, but rather mediate protein-protein interactions between activating transcription factors and the basal RNAP II transcription machinery.
    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:0010845    positive regulation of reciprocal meiotic recombination    Any process that increases the frequency, rate or extent of recombination during meiosis. Reciprocal meiotic recombination is the cell cycle process in which double strand breaks are formed and repaired through a double Holliday junction intermediate.
    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:0061408    positive regulation of transcription from RNA polymerase II promoter in response to heat stress    Any process that increases the frequency, rate or extent of transcription from an RNA polymerase II promoter as a result of a heat stimulus, a temperature stimulus above the optimal temperature for that organism.
    GO:0071931    positive regulation of transcription involved in G1/S transition of mitotic cell cycle    Any process that activates or increases transcription as part of the G1/S transition of the mitotic cell cycle.
    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:0030907    MBF transcription complex    A protein complex that binds to the Mlu1 cell cycle box (MCB) promoter element, consensus sequence ACGCGN, and is involved in regulation of transcription during the G1/S transition of the cell cycle. In Saccharomyces, the complex contains a heterodimer of the DNA binding protein Mbp1p and the activator Swi4p, and is associated with additional proteins known as Nrm1p, Msa1p, and Msa2p; in Schizosaccharomyces the complex contains Res1p, Res2p, and Cdc10p.
    GO:0033309    SBF transcription complex    A protein complex that binds to the Swi4/6 cell cycle box (SCB) promoter element, consensus sequence CRCGAAA, and activates transcription during the G1/S transition of the cell cycle. In Saccharomyces, the complex contains a heterodimer of the DNA binding protein Swi6p and the activator Swi4p, and is associated with additional proteins known as Whi5p and Msa1p.
    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

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

UniProtKB/Swiss-Prot
        SWI6_YEAST | P099592xfv

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