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- PDB-2jex: Transcription activator structure reveals redox control of a repl... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2jex | ||||||
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Title | Transcription activator structure reveals redox control of a replication initiation reaction | ||||||
![]() | REGULATORY PROTEIN E2 | ||||||
![]() | TRANSCRIPTION / NUCLEAR PROTEIN / DNA REPLICATION / PHOSPHORYLATION / TRANSCRIPTION REGULATION / VIRAL TRANSCRIPTION FACTOR / BOVINE PAPILLOMAVIRUS / REPLICATION INITIATION / EARLY PROTEIN / REDOX CONTROL / E1 / E2 / OXIDATION / ACTIVATOR / REPRESSOR / DNA-BINDING | ||||||
Function / homology | ![]() viral DNA genome replication / regulation of DNA replication / DNA replication / DNA-binding transcription factor activity / nucleotide binding / DNA-templated transcription / host cell nucleus / DNA binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Sanders, C.M. / Sizov, D. / Seavers, P.R. / Ortiz-Lombardia, M. / Antson, A.A. | ||||||
![]() | ![]() Title: Transcription Activator Structure Reveals Redox Control of a Replication Initiation Reaction. Authors: Sanders, C.M. / Sizov, D. / Seavers, P.R. / Ortiz-Lombardia, M. / Antson, A.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 55.5 KB | Display | ![]() |
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PDB format | ![]() | 39 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 430.6 KB | Display | ![]() |
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Full document | ![]() | 433.2 KB | Display | |
Data in XML | ![]() | 10.7 KB | Display | |
Data in CIF | ![]() | 14.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2jeuSC 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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Unit cell |
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Components
#1: Protein | Mass: 23820.590 Da / Num. of mol.: 1 Fragment: N-TERMINAL TRANS-ACTIVATION DOMAIN (TAD), RESIDUES 1-209 Mutation: YES Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
Compound details | ENGINEERED |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.01 Å3/Da / Density % sol: 69.06 % |
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Crystal grow | Method: vapor diffusion, hanging drop / pH: 8.5 Details: PROTEIN WAS CRYSTALLISED FROM 0.1 M TRIS-HCL PH 8.5, 0.3 M NACL, 2MM DTT AND 18-22% TERTIARY BUTANOL, USING THE HANGING DROP METHOD OF VAPOUR DIFFUSION. |
-Data collection
Diffraction | Mean temperature: 120 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.919 Å / Relative weight: 1 |
Reflection | Resolution: 2.35→25 Å / Num. obs: 14352 / % possible obs: 93.3 % / Observed criterion σ(I): 3 / Redundancy: 1.9 % / Rmerge(I) obs: 0.07 / Net I/σ(I): 10.7 |
Reflection shell | Resolution: 2.35→2.43 Å / Redundancy: 1.8 % / Rmerge(I) obs: 0.32 / Mean I/σ(I) obs: 2.5 / % possible all: 90.2 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 2JEU Resolution: 2.35→22.62 Å / Cor.coef. Fo:Fc: 0.948 / Cor.coef. Fo:Fc free: 0.936 / SU B: 15.331 / SU ML: 0.188 / TLS residual ADP flag: LIKELY RESIDUAL / Cross valid method: THROUGHOUT / ESU R: 0.251 / ESU R Free: 0.204 / Stereochemistry target values: MAXIMUM LIKELIHOOD
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 72.2 Å2
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Refinement step | Cycle: LAST / Resolution: 2.35→22.62 Å
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Refine LS restraints |
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