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- PDB-5m0y: Crystal Structure of the CohScaA-XDocCipB type II complex from Cl... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5m0y | ||||||
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Title | Crystal Structure of the CohScaA-XDocCipB type II complex from Clostridium thermocellum at 1.5Angstrom resolution | ||||||
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![]() | CELL ADHESION / cellulosome / plant cell wall degradation / protein-protein interaction / cohesin-dockerin complex | ||||||
Function / homology | ![]() S-layer / cellulose catabolic process / polysaccharide catabolic process / hydrolase activity, hydrolyzing O-glycosyl compounds / carbohydrate binding / extracellular region / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Pinheiro, B.A. / Bras, J.L. / Carvalho, A.L. / Fontes, C.M.G.A. | ||||||
![]() | ![]() Title: Diverse specificity of cellulosome attachment to the bacterial cell surface. Authors: Bras, J.L. / Pinheiro, B.A. / Cameron, K. / Cuskin, F. / Viegas, A. / Najmudin, S. / Bule, P. / Pires, V.M. / Romao, M.J. / Bayer, E.A. / Spencer, H.L. / Smith, S. / Gilbert, H.J. / Alves, V. ...Authors: Bras, J.L. / Pinheiro, B.A. / Cameron, K. / Cuskin, F. / Viegas, A. / Najmudin, S. / Bule, P. / Pires, V.M. / Romao, M.J. / Bayer, E.A. / Spencer, H.L. / Smith, S. / Gilbert, H.J. / Alves, V.D. / Carvalho, A.L. / Fontes, C.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 | ![]() | 87.6 KB | Display | ![]() |
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PDB format | ![]() | 63.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 797.9 KB | Display | ![]() |
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Full document | ![]() | 799.9 KB | Display | |
Data in XML | ![]() | 16.3 KB | Display | |
Data in CIF | ![]() | 22.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5g5dC ![]() 5k39C ![]() 2bm3S ![]() 5g5b 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
-Protein , 2 types, 2 molecules BA
#1: Protein | Mass: 18245.408 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: THE FIRST 6 RESIDUES ARE NOT OBSERVED IN ELECTRON DENSITY Source: (gene. exp.) ![]() Strain: ATCC 27405 / DSM 1237 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372 Gene: Cthe_1806 / Plasmid: pET / Production host: ![]() ![]() |
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#2: Protein | Mass: 20507.139 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: 6 residues from the N-terminal and 6 from the C-terminal are not observed in the electron density Source: (gene. exp.) ![]() Strain: ATCC 27405 / DSM 1237 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372 Gene: Cthe_1307 / Production host: ![]() ![]() |
-Non-polymers , 7 types, 195 molecules ![](data/chem/img/CA.gif)
![](data/chem/img/SO4.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/EDO.gif)
![](data/chem/img/PGE.gif)
![](data/chem/img/P6G.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/SO4.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/EDO.gif)
![](data/chem/img/PGE.gif)
![](data/chem/img/P6G.gif)
![](data/chem/img/HOH.gif)
#3: Chemical | #4: Chemical | ChemComp-SO4 / | #5: Chemical | ChemComp-GOL / | #6: Chemical | ChemComp-EDO / #7: Chemical | ChemComp-PGE / | #8: Chemical | ChemComp-P6G / | #9: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.64 Å3/Da / Density % sol: 53.43 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop Details: 0.2 M AMMONIUM SULPHATE 0.1 M REMARK 280 ACETATE PH4.5 30% PEG 400 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 300K / Detector: PIXEL / Date: Jun 30, 2012 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9762 Å / Relative weight: 1 |
Reflection | Resolution: 1.5→70.6 Å / Num. obs: 278906 / % possible obs: 99.5 % / Observed criterion σ(I): 2 / Redundancy: 4.4 % / Rmerge(I) obs: 0.04 / Net I/σ(I): 18.8 |
Reflection shell | Resolution: 1.5→1.53 Å / Redundancy: 4.5 % / Rmerge(I) obs: 0.65 / Mean I/σ(I) obs: 2.3 / % possible all: 99.6 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 2bm3 Resolution: 1.5→47.3 Å / Cor.coef. Fo:Fc: 0.964 / Cor.coef. Fo:Fc free: 0.96 / SU B: 1.307 / SU ML: 0.048 / Cross valid method: THROUGHOUT / ESU R: 0.071 / ESU R Free: 0.068 / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 23.93 Å2
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Refinement step | Cycle: 1 / Resolution: 1.5→47.3 Å
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Refine LS restraints |
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