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Yorodumi- PDB-2rv9: Solution structure of chitosan-binding module 1 derived from chit... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2rv9 | ||||||
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Title | Solution structure of chitosan-binding module 1 derived from chitosanase/glucanase from Paenibacillus sp. IK-5 | ||||||
Components | Glucanase | ||||||
Keywords | HYDROLASE / carbohydrate-binding module / CBM / chitosanase | ||||||
Function / homology | Function and homology information Hydrolases; Glycosylases; Glycosidases, i.e. enzymes that hydrolyse O- and S-glycosyl compounds / polysaccharide catabolic process / hydrolase activity, hydrolyzing O-glycosyl compounds Similarity search - Function | ||||||
Biological species | Paenibacillus fukuinensis (bacteria) | ||||||
Method | SOLUTION NMR / na | ||||||
Model details | lowest energy, model1 | ||||||
Authors | Shinya, S. / Nishimura, S. / Fukamizo, T. | ||||||
Citation | Journal: Biochem.J. / Year: 2016 Title: Mechanism of chitosan recognition by CBM32 carbohydrate-binding modules from a Paenibacillus sp. IK-5 chitosanase/glucanase. Authors: Shinya, S. / Nishimura, S. / Kitaoku, Y. / Numata, T. / Kimoto, H. / Kusaoke, H. / Ohnuma, T. / Fukamizo, T. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2rv9.cif.gz | 378.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2rv9.ent.gz | 315.2 KB | Display | PDB format |
PDBx/mmJSON format | 2rv9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/rv/2rv9 ftp://data.pdbj.org/pub/pdb/validation_reports/rv/2rv9 | HTTPS FTP |
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-Related structure data
Related structure data | 2rvaC 4zxeC 4zy9C 4zz5C 4zz8C C: citing same article (ref.) |
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Similar structure data | |
Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 14922.099 Da / Num. of mol.: 1 / Fragment: chitosan-binding module 1, UNP residues 530-659 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Paenibacillus fukuinensis (bacteria) / Strain: IK-5 Description: Paenibacillus fukuinensis has been renamed to Paenibacillus sp. IK-5. Production host: Escherichia coli (E. coli) References: UniProt: Q93IE7, Hydrolases; Glycosylases; Glycosidases, i.e. enzymes that hydrolyse O- and S-glycosyl compounds |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details |
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Sample |
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Sample conditions | pH: 7.0 / Pressure: ambient / Temperature: 300 K |
-NMR measurement
NMR spectrometer | Type: Bruker Avance / Manufacturer: Bruker / Model: AVANCE / Field strength: 500 MHz |
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-Processing
NMR software |
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Refinement | Method: na / Software ordinal: 1 | ||||||||||||||||||
NMR constraints | NOE constraints total: 893 / Hydrogen bond constraints total count: 44 / Protein chi angle constraints total count: 146 / Protein other angle constraints total count: 77 / Protein phi angle constraints total count: 135 / Protein psi angle constraints total count: 120 | ||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||
NMR ensemble | Conformer selection criteria: target function / Conformers calculated total number: 3000 / Conformers submitted total number: 10 / Representative conformer: 1 |