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- PDB-2g3m: Crystal structure of the Sulfolobus solfataricus alpha-glucosidas... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2g3m | ||||||
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Title | Crystal structure of the Sulfolobus solfataricus alpha-glucosidase MalA | ||||||
![]() | Alpha-glucosidase![]() | ||||||
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Function / homology | ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Ernst, H.A. / Lo Leggio, L. / Willemoes, M. / Leonard, G. / Blum, P. / Larsen, S. | ||||||
![]() | ![]() Title: Structure of the Sulfolobus solfataricus alpha-Glucosidase: Implications for Domain Conservation and Substrate Recognition in GH31. Authors: Ernst, H.A. / Lo Leggio, L. / Willemoes, M. / Leonard, G. / Blum, P. / Larsen, S. #1: ![]() Title: Characterization of different crystal forms of the alpha-glucosidase MalA from Sulfolobus solfataricus Authors: Ernst, H.A. / Willemoes, M. / Lo Leggio, L. / Leonard, G. / Blum, P. / Larsen, S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 836.2 KB | Display | ![]() |
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PDB format | ![]() | 694.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 2g3nC ![]() 1xsiS C: citing same article ( S: Starting model for refinement |
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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: 80580.195 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() References: UniProt: O59645, UniProt: P0CD66*PLUS, ![]() #2: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.71 Å3/Da / Density % sol: 54.65 % Description: LOCKED ROTATION FUNCTION WITH NCS POINT GROUP 32 |
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Crystal grow![]() | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 4.1 Details: 11% PEG 4000, 0.2 M sodium citrate, 0.1 M sodium acetate, microseeding, pH 4.1, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Dec 20, 2004 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.55→35 Å / Num. all: 167412 / Num. obs: 167412 / % possible obs: 99.2 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 7.5 % / Biso Wilson estimate: 35.6 Å2 / Rmerge(I) obs: 0.087 / Net I/σ(I): 16.78 |
Reflection shell | Resolution: 2.55→2.65 Å / Redundancy: 7.5 % / Rmerge(I) obs: 0.304 / Mean I/σ(I) obs: 7.1 |
-Phasing
Phasing MR | Rfactor: 0.541 / Cor.coef. Fo:Fc: 0.279
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Phasing dm | FOM centric: 0.6 / Reflection centric: 3619 | |||||||||||||||||||||||||||||||||||||||||||||||||
Phasing dm shell |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: Trimmed polyalanine version of PDB CODE 1XSI (A chain) Resolution: 2.55→34.25 Å / Rfactor Rfree error: 0.002 / Data cutoff high absF: 5001250.51 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: maximum likelihood
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 31.7982 Å2 / ksol: 0.3586 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 34.8 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.55→34.25 Å
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Refine LS restraints |
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Refine LS restraints NCS | NCS model details: RESTRAINED | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 2.55→2.71 Å / Rfactor Rfree error: 0.007 / Total num. of bins used: 6
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Xplor file |
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