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Open data
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Basic information
Entry | Database: PDB / ID: 5cx2 | ||||||
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Title | Structure of coiled coil domain of Leishmania donovani coronin | ||||||
![]() | (Coronin![]() | ||||||
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Function / homology | ![]() actin filament organization / ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Nayak, A.R. / Karade, S.S. / Srivastava, V.K. / Pratap, J.V. | ||||||
![]() | ![]() Title: Structure of Leishmania donovani coronin coiled coil domain reveals an antiparallel 4 helix bundle with inherent asymmetry Authors: Nayak, A.R. / Karade, S.S. / Srivastava, V.K. / Rana, A.K. / Gupta, C.M. / Sahasrabuddhe, A.A. / Pratap, J.V. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 96.4 KB | Display | ![]() |
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PDB format | ![]() | 78.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
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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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
NCS oper:
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Components
-Protein , 1 types, 1 molecules A
#1: Protein | ![]() Mass: 6826.225 Da / Num. of mol.: 1 / Fragment: UNP residues 459-510 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() |
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-Protein/peptide , 3 types, 3 molecules BCD
#2: Protein/peptide | ![]() Mass: 5937.615 Da / Num. of mol.: 1 / Fragment: UNP residues 462-510 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() |
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#3: Protein/peptide | ![]() Mass: 6038.719 Da / Num. of mol.: 1 / Fragment: UNP residues 461-510 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() |
#4: Protein/peptide | ![]() Mass: 5925.562 Da / Num. of mol.: 1 / Fragment: UNP residues 461-509 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() |
-Non-polymers , 3 types, 93 molecules ![](data/chem/img/EDO.gif)
![](data/chem/img/SO4.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/SO4.gif)
![](data/chem/img/HOH.gif)
#5: Chemical | ![]() #6: Chemical | ChemComp-SO4 / | ![]() #7: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.57 Å3/Da / Density % sol: 52.22 % / Description: Plates |
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Crystal grow![]() | Temperature: 279 K / Method: vapor diffusion, hanging drop / pH: 5.6 Details: 3 ul of 8 mg/ml purified protein + 3 ul of reservoir solution (0.85M Ammonium Sulphate, 0.8M Lithium Sulphate, 10mM Sodium Citrate) equilibrated against 1ml reservoir. Crystals appeared in 7 - 10 days. |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Feb 4, 2014 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Resolution: 1.97→50 Å / Num. obs: 14275 / % possible obs: 87.3 % / Redundancy: 6.4 % / Rmerge(I) obs: 0.118 / Χ2: 1.058 / Net I/av σ(I): 12.143 / Net I/σ(I): 6.9 / Num. measured all: 90732 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1 / Rejects: 0
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-Phasing
Phasing![]() | Method: ![]() |
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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: 40.616 Å2
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Refinement step | Cycle: LAST / Resolution: 2.21→42.35 Å
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Refine LS restraints |
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