2V5D

Structure of a Family 84 Glycoside Hydrolase and a Family 32 Carbohydrate-Binding Module in Tandem from Clostridium perfringens.


X-RAY DIFFRACTION

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.7655.07

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 46.851α = 90
b = 69.546β = 95.78
c = 136.78γ = 90
Symmetry
Space GroupP 1 21 1

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
13.3141.4292.80.114.42.54124002

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONOTHERTHROUGHOUT3.3141.421182559492.750.324790.322490.36981RANDOM44.808
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]
1.05-2.02-0.68-0.78
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.26
r_dihedral_angle_4_deg12.566
r_dihedral_angle_3_deg12.136
r_dihedral_angle_1_deg4.553
r_angle_other_deg0.925
r_angle_refined_deg0.904
r_sphericity_free0.562
r_mcangle_it0.212
r_rigid_bond_restr0.201
r_scangle_it0.168
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.26
r_dihedral_angle_4_deg12.566
r_dihedral_angle_3_deg12.136
r_dihedral_angle_1_deg4.553
r_angle_other_deg0.925
r_angle_refined_deg0.904
r_sphericity_free0.562
r_mcangle_it0.212
r_rigid_bond_restr0.201
r_scangle_it0.168
r_nbd_other0.164
r_nbtor_refined0.163
r_nbd_refined0.159
r_symmetry_vdw_other0.125
r_metal_ion_refined0.122
r_scbond_it0.121
r_mcbond_it0.117
r_xyhbond_nbd_refined0.098
r_sphericity_bonded0.085
r_chiral_restr0.083
r_nbtor_other0.079
r_symmetry_vdw_refined0.058
r_mcbond_other0.013
r_bond_refined_d0.005
r_gen_planes_refined0.002
r_bond_other_d0.001
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5676
Nucleic Acid Atoms
Solvent Atoms27
Heterogen Atoms3

Software

Software
Software NamePurpose
REFMACrefinement