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- PDB-3k7z: GCN4-Leucine zipper core mutant as N16A trigonal automatic solution -
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Open data
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Basic information
Entry | Database: PDB / ID: 3k7z | |||||||||
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Title | GCN4-Leucine zipper core mutant as N16A trigonal automatic solution | |||||||||
![]() | General control protein GCN4 | |||||||||
![]() | DNA BINDING PROTEIN / COILED COIL / LEUCINE ZIPPER / Structural Genomics / TB Structural Genomics Consortium / TBSGC / Activator / Amino-acid biosynthesis / DNA-binding / Nucleus / Phosphoprotein / Transcription / Transcription regulation | |||||||||
Function / homology | ![]() protein localization to nuclear periphery / FCERI mediated MAPK activation / Activation of the AP-1 family of transcription factors / response to amino acid starvation / mediator complex binding / negative regulation of ribosomal protein gene transcription by RNA polymerase II / positive regulation of cellular response to amino acid starvation / nitrogen catabolite activation of transcription from RNA polymerase II promoter / Oxidative Stress Induced Senescence / TFIID-class transcription factor complex binding ...protein localization to nuclear periphery / FCERI mediated MAPK activation / Activation of the AP-1 family of transcription factors / response to amino acid starvation / mediator complex binding / negative regulation of ribosomal protein gene transcription by RNA polymerase II / positive regulation of cellular response to amino acid starvation / nitrogen catabolite activation of transcription from RNA polymerase II promoter / Oxidative Stress Induced Senescence / TFIID-class transcription factor complex binding / positive regulation of transcription initiation by RNA polymerase II / positive regulation of RNA polymerase II transcription preinitiation complex assembly / amino acid biosynthetic process / cellular response to amino acid starvation / RNA polymerase II transcription regulator complex / : / DNA-binding transcription activator activity, RNA polymerase II-specific / RNA polymerase II-specific DNA-binding transcription factor binding / transcription regulator complex / sequence-specific DNA binding / DNA-binding transcription factor activity, RNA polymerase II-specific / regulation of cell cycle / intracellular signal transduction / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / chromatin binding / negative regulation of transcription by RNA polymerase II / positive regulation of transcription by RNA polymerase II / identical protein binding / nucleus Similarity search - Function | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Holton, J. / Alber, T. / TB Structural Genomics Consortium (TBSGC) | |||||||||
![]() | ![]() Title: Automated Protein Crystal Structure Determination Using Elves. Authors: Holton, J. / Alber, T. #1: ![]() Title: An Engineered Allosteric Switch in Leucine-Zipper Oligomerization Authors: Gonzalez Jr., L. / Plecs, J.J. / Alber, T. #2: ![]() Title: Crystal Structure of an Isoleucine-Zipper Trimer Authors: Harbury, P.B. / Kim, P.S. / Alber, T. #3: ![]() Title: A Switch between Two-, Three-, and Four-Stranded Coiled Coils in GCN4 Leucine Zipper Mutants Authors: Harbury, P.B. / Zhang, T. / Kim, P.S. / Alber, T. #4: ![]() Title: X-Ray Structure of the GCN4 Leucine Zipper, a Two-Stranded, Parallel Coiled Coil. Authors: O'Shea, E.K. / Klemm, J.D. / Kim, P.S. / Alber, T. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 52 KB | Display | ![]() |
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PDB format | ![]() | 32.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 441.1 KB | Display | ![]() |
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Full document | ![]() | 467.7 KB | Display | |
Data in XML | ![]() | 19.8 KB | Display | |
Data in CIF | ![]() | 29.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Components
#1: Protein/peptide | Mass: 3962.639 Da / Num. of mol.: 3 / Fragment: LEUCINE-ZIPPER (RESIDUES 249-281) / Mutation: N16A / Source method: obtained synthetically Details: THE SEQUENCE OF THE PROTEIN IS NATURALLY FOUND IN SACCHAROMYCES CEREVISIAE. THE PROTEIN WAS SYNTHESIZED BY SOLID PHASE PEPTIDE SYNTHESIS. References: UniProt: P03069 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.54 Å3/Da / Density % sol: 75 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 7.3 Details: 100MM BIS-TRIS buffer only, pH 7.3, VAPOR DIFFUSION, SITTING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 90 K | |||||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | |||||||||||||||
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Dec 5, 1997 | |||||||||||||||
Radiation | Monochromator: SI(111) / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||
Radiation wavelength |
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Reflection | Resolution: 1.8→45 Å / Num. all: 23719 / Num. obs: 23195 / % possible obs: 99.6 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 11 % / Rmerge(I) obs: 0.097 | |||||||||||||||
Reflection shell | Resolution: 1.8→1.9 Å / % possible all: 98.4 |
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Processing
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Refinement | Method to determine structure: ![]() Details: THIS ENTRY WAS SOLVED USING AUTOMATED STRUCTURE WHILE RELATED ENTRTY 1RB5 WAS SOLVED USING NON-AUTOMATED STRUCTURE DETERMINATION METHOD. THE NUMBER OF CLOSE CONTACTS IN THIS STRUCTURE IS AN ...Details: THIS ENTRY WAS SOLVED USING AUTOMATED STRUCTURE WHILE RELATED ENTRTY 1RB5 WAS SOLVED USING NON-AUTOMATED STRUCTURE DETERMINATION METHOD. THE NUMBER OF CLOSE CONTACTS IN THIS STRUCTURE IS AN ARTIFACT OF THE CURRENT STATE-OF-THE-ART AUTOMATED MODEL BUILDING PROCEDURE.
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Displacement parameters | Biso mean: 44 Å2 | |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9→25.96 Å
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