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Open data
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Basic information
Entry | Database: PDB / ID: 1h9r | ||||||
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Title | Tungstate bound complex Dimop domain of ModE from E.coli | ||||||
![]() | MOLYBDENUM TRANSPORT PROTEIN MODE | ||||||
![]() | TRANSCRIPTION REGULATOR | ||||||
Function / homology | ![]() ModE complex / molybdate ion transport / negative regulation of DNA-templated transcription initiation / molybdenum ion binding / cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / negative regulation of DNA-templated transcription / positive regulation of DNA-templated transcription / DNA binding / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Gourley, D.G. / Hunter, W.N. | ||||||
![]() | ![]() Title: Oxyanion Binding Alters Conformational and Quaternary Structure of the C-Terminal Domain of the Transcriptional Regulator Mode; Implications for Molybdate-Dependant Regulation, Signalling, Storage and Transport Authors: Gourley, D.G. / Schuttelkopf, A.W. / Anderson, L.A. / Price, N.C. / Boxer, D.H. / Hunter, W.N. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 74 KB | Display | ![]() |
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PDB format | ![]() | 53.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 383.4 KB | Display | ![]() |
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Full document | ![]() | 387.7 KB | Display | |
Data in XML | ![]() | 7.4 KB | Display | |
Data in CIF | ![]() | 12.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1h9sC ![]() 1b9nS 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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1 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (0.125, -0.974, 0.187), Vector: |
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Components
#1: Protein | Mass: 15048.901 Da / Num. of mol.: 2 / Fragment: MOLYBDATE BINDING DOMAIN RESIDUE 123-262 / Mutation: YES Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | #3: Chemical | ChemComp-NI / | #4: Water | ChemComp-HOH / | Compound details | CHAIN A, B ENGINEERED MUTATION FROM LEU 123 MET BINDS MOLYBDENUM. REGULATES MOD OPERON BY BINDING ...CHAIN A, B ENGINEERED | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.19 Å3/Da / Density % sol: 43.77 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 7.6 / Details: pH 7.60 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS IV / Detector: IMAGE PLATE / Details: MIRRORS |
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: 1.9→30 Å / Num. obs: 20410 / % possible obs: 97.9 % / Redundancy: 9 % / Biso Wilson estimate: 22 Å2 / Rsym value: 0.49 / Net I/σ(I): 27.8 |
Reflection | *PLUS Highest resolution: 1.9 Å / Lowest resolution: 30 Å / Num. measured all: 182781 / Rmerge(I) obs: 0.049 |
Reflection shell | *PLUS % possible obs: 78.9 % / Rmerge(I) obs: 0.147 / Mean I/σ(I) obs: 9.5 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1B9N Resolution: 1.9→20 Å / SU B: 3.285 / SU ML: 0.1 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.166 / ESU R Free: 0.155
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Displacement parameters | Biso mean: 34.2 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9→20 Å
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Refine LS restraints |
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Software | *PLUS Name: REFMAC / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.17 / Rfactor Rwork: 0.17 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |