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- PDB-4rb0: Crystal structure of Magnetospirillum gryphiswaldense MSR-1 SeMet... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4rb0 | ||||||
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Title | Crystal structure of Magnetospirillum gryphiswaldense MSR-1 SeMet-Apo-Fur | ||||||
![]() | DNA-binding transcriptional dual regulator of siderophore biosynthesis and transport(Fur family) | ||||||
![]() | METAL BINDING PROTEIN / ferric uptake regulator (FUR) / metal ion activation / operator recognition / ![]() | ||||||
Function / homology | ![]() DNA-binding transcription factor activity / ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Deng, Z. / Chen, Z. | ||||||
![]() | ![]() Title: Mechanistic insights into metal ion activation and operator recognition by the ferric uptake regulator. Authors: Deng, Z. / Wang, Q. / Liu, Z. / Zhang, M. / Machado, A.C. / Chiu, T.P. / Feng, C. / Zhang, Q. / Yu, L. / Qi, L. / Zheng, J. / Wang, X. / Huo, X. / Qi, X. / Li, X. / Wu, W. / Rohs, R. / Li, Y. / Chen, Z. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 120.6 KB | Display | ![]() |
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PDB format | ![]() | 99.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 16807.314 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: MSR-1 v2 / Gene: Fur, MGMSRv2_3137 / Production host: ![]() ![]() ![]() #2: Chemical | ChemComp-FLC / | ![]() #3: Chemical | ChemComp-SO4 / ![]() #4: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.53 Å3/Da / Density % sol: 51.29 % |
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Crystal grow![]() | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 5 Details: pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 130 K | ||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||
Detector | Type: ADSC QUANTUM 270 / Detector: CCD / Date: May 20, 2011 | ||||||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 1.75→50 Å / Num. all: 34213 / Num. obs: 29381 / % possible obs: 85.9 % / Observed criterion σ(F): 3 / Observed criterion σ(I): 3 | ||||||||||||
Reflection shell | Resolution: 1.75→1.78 Å / % possible all: 17.7 |
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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: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 28.194 Å2
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Refinement step | Cycle: LAST / Resolution: 1.85→50 Å
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Refine LS restraints |
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