+Open data
-Basic information
Entry | Database: PDB / ID: 1gcm | ||||||
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Title | GCN4 LEUCINE ZIPPER CORE MUTANT P-LI | ||||||
Components | GCN4P-II | ||||||
Keywords | TRANSCRIPTION REGULATION / HYDROPHOBIC CORE MUTANT | ||||||
Function / homology | Function and homology information protein localization to nuclear periphery / 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 / TFIID-class transcription factor complex binding / amino acid biosynthetic process / positive regulation of transcription initiation by RNA polymerase II ...protein localization to nuclear periphery / 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 / TFIID-class transcription factor complex binding / amino acid biosynthetic process / positive regulation of transcription initiation by RNA polymerase II / positive regulation of RNA polymerase II transcription preinitiation complex assembly / cellular response to amino acid starvation / RNA polymerase II transcription regulator complex / : / DNA-binding transcription activator activity, RNA polymerase II-specific / transcription regulator complex / RNA polymerase II-specific DNA-binding transcription factor binding / sequence-specific DNA binding / DNA-binding transcription factor activity, RNA polymerase II-specific / 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 | ||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.8 Å | ||||||
Authors | Harbury, P.B. / Kim, P.S. / Alber, T. | ||||||
Citation | Journal: Nature / Year: 1994 Title: Crystal structure of an isoleucine-zipper trimer. Authors: Harbury, P.B. / Kim, P.S. / Alber, T. #1: Journal: Science / Year: 1993 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. #2: Journal: Science / Year: 1991 Title: X-Ray Structure of the GCN4 Leucine Zipper, a Two-Stranded, Parallel Coiled Coil Authors: Shea, E.K. / Klemm, J.D. / Kim, P.S. / Alber, T. #3: Journal: Science / Year: 1989 Title: Evidence that the Leucine Zipper is a Coiled Coil Authors: Shea, E.K. / Rutkowski, R. / Kim, P.S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1gcm.cif.gz | 29.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1gcm.ent.gz | 22.2 KB | Display | PDB format |
PDBx/mmJSON format | 1gcm.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/gc/1gcm ftp://data.pdbj.org/pub/pdb/validation_reports/gc/1gcm | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein/peptide | Mass: 4072.837 Da / Num. of mol.: 3 Mutation: L5I, V9I, L12I, N16I, L19I, V23I, L26I, V30I (I AT HEPTAD A POSITIONS, I AT HEPTAD D POSITIONS) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) References: UniProt: P03069 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.1 Å3/Da / Density % sol: 41.36 % | ||||||||||||||||||||||||
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Crystal | *PLUS Density % sol: 33 % | ||||||||||||||||||||||||
Crystal grow | *PLUS pH: 4.8 / Method: vapor diffusion | ||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction source | Wavelength: 1.54 |
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Detector | Type: RIGAKU RAXIS / Detector: IMAGE PLATE / Date: Jul 15, 1993 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54 Å / Relative weight: 1 |
Reflection | Num. obs: 7053 / % possible obs: 74 % / Observed criterion σ(I): 2 / Redundancy: 2 % / Rmerge(I) obs: 0.0454 |
Reflection | *PLUS Highest resolution: 1.8 Å / Rmerge(I) obs: 0.0454 |
-Processing
Software |
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Refinement | Highest resolution: 1.8 Å / σ(F): 0 /
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Displacement parameters | Biso mean: 42 Å2 | ||||||||||||||||||||||||||||||
Refine analyze | Luzzati coordinate error obs: 0 Å | ||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Highest resolution: 1.8 Å
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Refine LS restraints |
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Software | *PLUS Name: TNT / Classification: refinement | ||||||||||||||||||||||||||||||
Refinement | *PLUS Lowest resolution: 6 Å | ||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |