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Yorodumi- PDB-6x2q: Complex of Gynuella sunshinyii GH46 chitosanase GsCsn46A with chi... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6x2q | ||||||
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Title | Complex of Gynuella sunshinyii GH46 chitosanase GsCsn46A with chitotetraose | ||||||
Components | Chitosanase | ||||||
Keywords | SUGAR BINDING PROTEIN | ||||||
Function / homology | Glycoside hydrolase, family 46, N-terminal / Glycosyl hydrolase family 46 / chitosanase activity / Glycoside hydrolase, family 46 / Lysozyme-like domain superfamily / carbohydrate metabolic process / extracellular region / 2-amino-2-deoxy-beta-D-glucopyranose / Chitosanase Function and homology information | ||||||
Biological species | Gynuella sunshinyii YC6258 (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.27 Å | ||||||
Authors | Qin, Z. / Wang, Y. | ||||||
Funding support | China, 1items
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Citation | Journal: To Be Published Title: Complex of Gynuella sunshinyii GH46 chitosanase GsCsn46A with chitotetraose Authors: Qin, Z. / Wang, Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6x2q.cif.gz | 63.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6x2q.ent.gz | 43.8 KB | Display | PDB format |
PDBx/mmJSON format | 6x2q.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6x2q_validation.pdf.gz | 1.1 MB | Display | wwPDB validaton report |
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Full document | 6x2q_full_validation.pdf.gz | 1.1 MB | Display | |
Data in XML | 6x2q_validation.xml.gz | 12.6 KB | Display | |
Data in CIF | 6x2q_validation.cif.gz | 16.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/x2/6x2q ftp://data.pdbj.org/pub/pdb/validation_reports/x2/6x2q | HTTPS FTP |
-Related structure data
Related structure data | 4ilyS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 27057.549 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Gynuella sunshinyii YC6258 (bacteria) / Gene: YC6258_05941 Production host: Escherichia coli 'BL21-Gold(DE3)pLysS AG' (bacteria) References: UniProt: A0A0C5VFC0 |
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#2: Polysaccharide | 2-amino-2-deoxy-beta-D-glucopyranose-(1-4)-2-amino-2-deoxy-beta-D-glucopyranose-(1-4)-2-amino-2- ...2-amino-2-deoxy-beta-D-glucopyranose-(1-4)-2-amino-2-deoxy-beta-D-glucopyranose-(1-4)-2-amino-2-deoxy-beta-D-glucopyranose |
#3: Sugar | ChemComp-GCS / |
#4: Water | ChemComp-HOH / |
Has ligand of interest | Y |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.93 Å3/Da / Density % sol: 58.08 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 8 / Details: Nacl, tris-HCl, pH8.0,glycol |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL17U / Wavelength: 0.97918 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: MAR CCD 130 mm / Detector: CCD / Date: Apr 13, 2019 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 0.97918 Å / Relative weight: 1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Resolution: 2.27→50 Å / Num. obs: 13857 / % possible obs: 97.8 % / Redundancy: 4.3 % / Rmerge(I) obs: 0.043 / Rpim(I) all: 0.025 / Rrim(I) all: 0.05 / Χ2: 2.22 / Net I/σ(I): 18.3 / Num. measured all: 60055 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1
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-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 4ILY Resolution: 2.27→45.609 Å / Cross valid method: THROUGHOUT
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Displacement parameters | Biso max: 89.72 Å2 / Biso mean: 39.9298 Å2 / Biso min: 23.22 Å2 | ||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.27→45.609 Å
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