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Open data
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Basic information
Entry | Database: PDB / ID: 1w5g | ||||||
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Title | An anti-parallel four helix bundle (acetimide modification). | ||||||
![]() | GENERAL CONTROL PROTEIN GCN4 | ||||||
![]() | STRUCTURAL PROTEIN / FOUR HELIX BUNDLE / ANTIPARALLEL FOUR HELIX BUNDLE | ||||||
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 | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Yadav, M.K. / Leman, L.J. / Stout, C.D. / Ghadiri, M.R. | ||||||
![]() | ![]() Title: Structure-Based Engineering of Internal Cavities in Coiled-Coil Peptides Authors: Yadav, M.K. / Redman, J.E. / Leman, L.J. / Alvarez-Gutierrez, J.M. / Zhang, Y. / Stout, C.D. / Ghadiri, M.R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 24 KB | Display | ![]() |
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PDB format | ![]() | 16.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 412.4 KB | Display | ![]() |
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Full document | ![]() | 412.3 KB | Display | |
Data in XML | ![]() | 4.4 KB | Display | |
Data in CIF | ![]() | 5.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1untC ![]() 1unuC ![]() 1unvC ![]() 1unwC ![]() 1unxC ![]() 1unyC ![]() 1unzC ![]() 1uo0C ![]() 1uo1C ![]() 1uo2C ![]() 1uo3C ![]() 1uo4C ![]() 1uo5C ![]() 1w5iC ![]() 2bniC C: citing same article ( |
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Similar 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: 4020.829 Da / Num. of mol.: 2 / Mutation: YES / Source method: obtained synthetically Details: PEPTIDE REACTED WITH IODOACETIMIDE TO YEILD THIOETHER FROM CYSTEINE. NOTE SHIFT IN TYROSINE POSITION FROM PDB ENTRY 1VZL Source: (synth.) ![]() ![]() #2: Water | ChemComp-HOH / | Compound details | CHAIN A, B ENGINEERED | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2 Å3/Da / Density % sol: 38.9 % |
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Crystal grow | Method: vapor diffusion, hanging drop / pH: 10 Details: HANGING DROP, 1UL OF 1MG/ML PEPTIDE IN WATER, 1UL 100MM CAPS, 30% PEG 400, PH 10.5. |
-Data collection
Diffraction | Mean temperature: 93 K |
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Diffraction source | Source: ![]() |
Detector | Date: May 29, 2004 / Details: CONFOCAL |
Radiation | Monochromator: NI FILTER / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.16→34.88 Å / Num. obs: 3960 / % possible obs: 100 % / Observed criterion σ(I): 2 / Redundancy: 5.37 % / Rmerge(I) obs: 0.05 / Net I/σ(I): 17.3 |
Reflection shell | Resolution: 2.16→2.24 Å / Redundancy: 5.01 % / Rmerge(I) obs: 0.22 / Mean I/σ(I) obs: 6.5 / % possible all: 97.6 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 40.43 Å2
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Refinement step | Cycle: LAST / Resolution: 2.16→51.99 Å
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