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- PDB-1ncs: NMR STUDY OF SWI5 ZINC FINGER DOMAIN 1 -

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Entry
Database: PDB / ID: 1ncs
TitleNMR STUDY OF SWI5 ZINC FINGER DOMAIN 1
ComponentsTRANSCRIPTIONAL FACTOR SWI5
KeywordsTRANSCRIPTION REGULATION / DNA BINDING MOTIF / ZINC-FINGER
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
: / Classic Zinc Finger / Zinc finger, C2H2 type / Double Stranded RNA Binding Domain / zinc finger / Zinc finger C2H2 type domain profile. / Zinc finger C2H2 superfamily / Zinc finger C2H2 type domain signature. / Zinc finger C2H2-type / 2-Layer Sandwich / Alpha Beta
Similarity search - Domain/homology
Transcriptional factor SWI5
Similarity search - Component
Biological speciesSaccharomyces cerevisiae (brewer's yeast)
MethodSOLUTION NMR
AuthorsDutnall, R.N. / Neuhaus, D. / Rhodes, D.
Citation
Journal: Structure / Year: 1996
Title: The solution structure of the first zinc finger domain of SWI5: a novel structural extension to a common fold.
Authors: Dutnall, R.N. / Neuhaus, D. / Rhodes, D.
#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.
#2: 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.
History
DepositionFeb 26, 1996Processing site: BNL
Revision 1.0Jun 10, 1996Provider: repository / Type: Initial release
Revision 1.1Mar 24, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 23, 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 viewerMolecule:
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Assembly

Deposited unit
A: TRANSCRIPTIONAL FACTOR SWI5
hetero molecules


Theoretical massNumber of molelcules
Total (without water)5,7352
Polymers5,6701
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)46 / -
Representative

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Components

#1: Protein/peptide TRANSCRIPTIONAL FACTOR SWI5 / PEPTIDE M30F


Mass: 5669.563 Da / Num. of mol.: 1 / Fragment: ZINC FINGER DNA BINDING DOMAIN 1 OF SWI5
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast)
Description: T7 POLYMERASE EXPRESSION SYSTEM / Gene: T7 / Plasmid: PET13A / Gene (production host): T7 / 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
Compound detailsOTHER_DETAILS: THIS ENTRY REPRESENTS THE STRUCTURE OF THE FIRST ZINC FINGER DOMAIN OF SWI5, WHICH ...OTHER_DETAILS: THIS ENTRY REPRESENTS THE STRUCTURE OF THE FIRST ZINC FINGER DOMAIN OF SWI5, WHICH CONSISTS OF THE FIRST ZINC FINGER MOTIF PLUS AN ADDITIONAL 15 RESIDUES N-TERMINAL TO THE MOTIF.

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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

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Processing

Software
NameVersionClassification
X-PLOR3.1model building
X-PLOR3.1refinement
X-PLOR3.1phasing
NMR softwareName: X-PLOR / Version: 3.1 / Developer: BRUNGER / Classification: refinement
NMR ensembleConformers submitted total number: 46

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