2VCC | pdb_00002vcc

Family 89 Glycoside Hydrolase from Clostridium perfringens


X-RAY DIFFRACTION

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.7454.71

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 90.71α = 90
b = 90.71β = 90
c = 252.66γ = 120
Symmetry
Space GroupP 61

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray113.15 MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODE

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
122096.40.137.84.5763192

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)R-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONOTHERTHROUGHOUTNONE22072619383296.50.2120.210.20.2550.24RANDOM31.96
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
1.010.511.01-1.52
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.181
r_dihedral_angle_4_deg17.865
r_dihedral_angle_3_deg15.109
r_dihedral_angle_1_deg5.525
r_scangle_it1.724
r_angle_refined_deg1.058
r_scbond_it1.046
r_mcangle_it0.722
r_mcbond_it0.379
r_nbtor_refined0.304
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7176
Nucleic Acid Atoms
Solvent Atoms554
Heterogen Atoms24

Software

Software
Software NamePurpose
REFMACrefinement