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Open data
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Basic information
Entry | Database: PDB / ID: 4xlg | ||||||
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Title | C. glabrata Slx1 in complex with Slx4CCD. | ||||||
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![]() | HYDROLASE / nuclease / DNA repair / GIY-YIG / homogolous recombination | ||||||
Function / homology | ![]() Slx1-Slx4 complex / 5'-flap endonuclease activity / DNA-templated DNA replication / DNA recombination / DNA replication / Hydrolases; Acting on ester bonds / DNA repair / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Gaur, V. / Wyatt, H.D.M. / Komorowska, W. / Szczepanowski, R.H. / de Sanctis, D. / Gorecka, K.M. / West, S.C. / Nowotny, M. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Structural and Mechanistic Analysis of the Slx1-Slx4 Endonuclease. Authors: Gaur, V. / Wyatt, H.D. / Komorowska, W. / Szczepanowski, R.H. / de Sanctis, D. / Gorecka, K.M. / West, S.C. / Nowotny, M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 158.6 KB | Display | ![]() |
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PDB format | ![]() | 123.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 434.7 KB | Display | ![]() |
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Full document | ![]() | 436.8 KB | Display | |
Data in XML | ![]() | 16.8 KB | Display | |
Data in CIF | ![]() | 25.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4xm5SC 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: 9313.671 Da / Num. of mol.: 1 / Fragment: unp residues 647-726 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: SLX4, CAGL0M04389g / Production host: ![]() ![]() | ||||
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#2: Protein | Mass: 36481.504 Da / Num. of mol.: 1 / Mutation: E79Q Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: SLX1, CAGL0K06941g / Production host: ![]() ![]() References: UniProt: Q6FML9, Hydrolases; Acting on ester bonds | ||||
#3: Chemical | #4: Chemical | #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.3 Å3/Da / Density % sol: 62.68 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop Details: 0.2 M magnesium chloride hexahydrate, 0.1 M Bis Tris (pH 6.5), 25% (v/v) PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: PSI PILATUS 6M / Detector: PIXEL / Date: Oct 9, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97626 Å / Relative weight: 1 |
Reflection | Resolution: 1.78→40 Å / Num. all: 57362 / Num. obs: 57362 / % possible obs: 99.98 % / Redundancy: 10.2 % / Rmerge(I) obs: 0.081 / Net I/σ(I): 16.3 |
Reflection shell | Resolution: 1.78→1.84 Å / Redundancy: 10.4 % / Rmerge(I) obs: 1.25 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 4XM5 Resolution: 1.78→40 Å / SU ML: 0.16 / Cross valid method: FREE R-VALUE / σ(F): 1.35 / Phase error: 17.07 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.78→40 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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