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- PDB-3gxx: Structure of the SH2 domain of the Candida glabrata transcription... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3gxx | ||||||
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Title | Structure of the SH2 domain of the Candida glabrata transcription elongation factor Spt6, crystal form B | ||||||
![]() | Transcription elongation factor SPT6 | ||||||
![]() | TRANSCRIPTION / SH2-fold / three stranded anti-parallel beta sheet / N-terminal alpha helix / C-terminal alpha helix / Nucleus / SH2 domain / Transcription regulation | ||||||
Function / homology | ![]() carbon catabolite repression of transcription from RNA polymerase II promoter by glucose / regulation of transcriptional start site selection at RNA polymerase II promoter / transcription antitermination factor activity, DNA binding / regulation of mRNA 3'-end processing / transcription elongation-coupled chromatin remodeling / poly(A)+ mRNA export from nucleus / nucleosome binding / transcription elongation factor complex / positive regulation of transcription elongation by RNA polymerase II / euchromatin ...carbon catabolite repression of transcription from RNA polymerase II promoter by glucose / regulation of transcriptional start site selection at RNA polymerase II promoter / transcription antitermination factor activity, DNA binding / regulation of mRNA 3'-end processing / transcription elongation-coupled chromatin remodeling / poly(A)+ mRNA export from nucleus / nucleosome binding / transcription elongation factor complex / positive regulation of transcription elongation by RNA polymerase II / euchromatin / nucleosome assembly / histone binding / negative regulation of transcription by RNA polymerase II / DNA binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Dengl, S. / Mayer, A. / Sun, M. / Cramer, P. | ||||||
![]() | ![]() Title: Structure and in vivo requirement of the yeast Spt6 SH2 domain Authors: Dengl, S. / Mayer, A. / Sun, M. / Cramer, P. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 88.9 KB | Display | ![]() |
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PDB format | ![]() | 68.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
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-Validation report
Summary document | ![]() | 457.3 KB | Display | ![]() |
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Full document | ![]() | 468.5 KB | Display | |
Data in XML | ![]() | 16.6 KB | Display | |
Data in CIF | ![]() | 22.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3gxwSC S: Starting model for refinement 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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2 | ![]()
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3 | ![]()
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4 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 12426.574 Da / Num. of mol.: 4 / Fragment: SH2 domain / Mutation: L1309M, L1317M Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.64 Å3/Da / Density % sol: 53.37 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8 Details: 100 mM bicine pH 8.0, 4,3 M NaCl and 5 mM Tris(2-Carboxyethyl) phosphine Hydro-chloride, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Aug 15, 2007 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97971 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→20 Å / Num. all: 18513 / Num. obs: 18513 / % possible obs: 99.5 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.9 % / Rsym value: 0.062 / Net I/σ(I): 45.1 |
Reflection shell | Resolution: 2.4→2.49 Å / Redundancy: 3.7 % / Mean I/σ(I) obs: 7.7 / Rsym value: 0.19 / % possible all: 95.4 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB entry 3GXW Resolution: 2.4→18.7 Å / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.4→18.7 Å
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