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- PDB-1zfd: SWI5 ZINC FINGER DOMAIN 2, NMR, 45 STRUCTURES -

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Basic information

Entry
Database: PDB / ID: 1zfd
TitleSWI5 ZINC FINGER DOMAIN 2, NMR, 45 STRUCTURES
ComponentsSWI5
KeywordsZINC FINGER DNA BINDING DOMAIN / DNA BINDING MOTIF
Function / homology
Function and homology information


positive regulation of mating type switching / mediator complex binding / exit from mitosis / RNA polymerase II transcription regulatory region sequence-specific DNA binding / G1/S transition of mitotic cell cycle / sequence-specific DNA binding / DNA-binding transcription factor activity, RNA polymerase II-specific / RNA polymerase II cis-regulatory region sequence-specific DNA binding / regulation of transcription by RNA polymerase II / positive regulation of transcription by RNA polymerase II ...positive regulation of mating type switching / mediator complex binding / exit from mitosis / RNA polymerase II transcription regulatory region sequence-specific DNA binding / G1/S transition of mitotic cell cycle / sequence-specific DNA binding / DNA-binding transcription factor activity, RNA polymerase II-specific / RNA polymerase II cis-regulatory region sequence-specific DNA binding / regulation of transcription by RNA polymerase II / positive regulation of transcription by RNA polymerase II / zinc ion binding / nucleus / cytoplasm
Similarity search - Function
: / Zinc finger, C2H2 type / zinc finger / Zinc finger C2H2 type domain profile. / Zinc finger C2H2 superfamily / Zinc finger C2H2 type domain signature. / Zinc finger C2H2-type
Similarity search - Domain/homology
Transcriptional factor SWI5
Similarity search - Component
Biological speciesSaccharomyces cerevisiae (brewer's yeast)
MethodSOLUTION NMR
AuthorsNeuhaus, D. / Nakaseko, Y. / Schwabe, J.W.R. / Rhodes, D. / Klug, A.
Citation
Journal: J.Mol.Biol. / Year: 1992
Title: 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.
Authors: Neuhaus, D. / Nakaseko, Y. / Schwabe, J.W. / Klug, A.
#1: Journal: J.Mol.Biol. / Year: 1992
Title: Adjacent Zinc-Finger Motifs in Multiple Zinc-Finger Peptides from Swi5 Form Structurally Independent, Flexibly Linked Domains
Authors: Nakaseko, Y. / Neuhaus, D. / Klug, A. / Rhodes, D.
History
DepositionApr 4, 1996Processing site: BNL
Revision 1.0Oct 14, 1996Provider: repository / Type: Initial release
Revision 1.1Mar 24, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Mar 2, 2022Group: Database references / Derived calculations / Other
Category: database_2 / pdbx_database_status ...database_2 / pdbx_database_status / pdbx_struct_assembly / pdbx_struct_oper_list / struct_conn / struct_site
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.process_site / _struct_conn.ptnr1_auth_comp_id / _struct_conn.ptnr1_auth_seq_id / _struct_conn.ptnr1_label_asym_id / _struct_conn.ptnr1_label_atom_id / _struct_conn.ptnr1_label_comp_id / _struct_conn.ptnr1_label_seq_id / _struct_conn.ptnr2_auth_comp_id / _struct_conn.ptnr2_auth_seq_id / _struct_conn.ptnr2_label_asym_id / _struct_conn.ptnr2_label_atom_id / _struct_conn.ptnr2_label_comp_id / _struct_conn.ptnr2_label_seq_id / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_id
Revision 1.4May 22, 2024Group: Data collection / Category: chem_comp_atom / chem_comp_bond

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: SWI5
hetero molecules


Theoretical massNumber of molelcules
Total (without water)3,8662
Polymers3,8001
Non-polymers651
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)45 / -
Representative

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Components

#1: Protein/peptide SWI5


Mass: 3800.272 Da / Num. of mol.: 1 / Fragment: ZINC FINGER DOMAIN 2
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast)
Description: T7 PROMOTER / Plasmid: PRK172 / Production host: Escherichia coli (E. coli) / References: UniProt: P08153
#2: Chemical ChemComp-ZN / ZINC ION


Mass: 65.409 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: Zn

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR

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Sample preparation

Crystal grow
*PLUS
Method: other / Details: NMR

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Processing

Software
NameVersionClassification
X-PLOR2.1model building
X-PLOR2.1refinement
X-PLOR2.1phasing
NMR softwareName: X-PLOR / Version: 2.1 / Developer: BRUNGER / Classification: refinement
NMR ensembleConformers submitted total number: 45

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