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Open data
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Basic information
Entry | Database: PDB / ID: 7lgr | ||||||
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Title | Streptococcus mutans Collagen binding Protein CNM - N2 Domain | ||||||
![]() | Collagen-binding adhesin | ||||||
![]() | CELL ADHESION / Streptococcus mutans / CNM / C-terminal N2 Domain / Collagen binding | ||||||
Function / homology | ![]() cell wall / collagen binding / membrane => GO:0016020 / cell adhesion / extracellular region Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Schormann, N. / Deivanayagam, C. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Streptococcus mutans Collagen binding Protein CNM - Structural and Functional Analysis of the C-terminal N2 Domain Authors: Schormann, N. / Deivanayagam, C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 76.4 KB | Display | ![]() |
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PDB format | ![]() | 54.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 414.7 KB | Display | ![]() |
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Full document | ![]() | 415.3 KB | Display | |
Data in XML | ![]() | 8.2 KB | Display | |
Data in CIF | ![]() | 10.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2f6aS 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: 19724.160 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.8 Å3/Da / Density % sol: 32 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 3.5 Details: 1.5M ammonium sulfate, 100mM sodium acetate, pH 4.5 or 100mM citric acid, pH 3.5 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Dec 14, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.6→42.05 Å / Num. obs: 19890 / % possible obs: 99.9 % / Redundancy: 10.5 % / Biso Wilson estimate: 22.3 Å2 / CC1/2: 0.999 / Rmerge(I) obs: 0.12 / Rpim(I) all: 0.039 / Rrim(I) all: 0.126 / Net I/σ(I): 13.5 |
Reflection shell | Resolution: 1.6→1.63 Å / Redundancy: 10.7 % / Rmerge(I) obs: 2.175 / Mean I/σ(I) obs: 1.3 / Num. unique obs: 961 / CC1/2: 0.699 / Rpim(I) all: 0.699 / Rrim(I) all: 2.286 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 2F6A Resolution: 1.6→42.05 Å / Cor.coef. Fo:Fc: 0.968 / Cor.coef. Fo:Fc free: 0.954 / SU B: 5.59 / SU ML: 0.086 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.12 / ESU R Free: 0.098 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : REFINED INDIVIDUALLY
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 83.25 Å2 / Biso mean: 32.8 Å2 / Biso min: 18.72 Å2
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Refinement step | Cycle: final / Resolution: 1.6→42.05 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.6→1.657 Å / Rfactor Rfree error: 0 / Total num. of bins used: 10
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