1OCN

Mutant D416A of the CELLOBIOHYDROLASE CEL6A FROM HUMICOLA INSOLENS in complex with a cellobio-derived isofagomine at 1.3 angstrom resolution


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2BVWPDB ENTRY 2BVW

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.5PROTEIN WAS CONCENTRATED TO 10MG/ML IN WATER.CRYSTALLISATION IN 200MM CALCIUM ACETATE, 100MM HEPES PH 7.5 AND 21% POLYETHYLENE GLYCOL 5KMME.20 % GLYCEROL WAS ADDED FOR CRYOPROTECTION
Crystal Properties
Matthews coefficientSolvent content
2.0142

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 49.357α = 90
b = 69.842β = 113.52
c = 51.95γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDTORROIDAL MIRROR2002-06-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-1ESRFID14-1

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
11.311591.70.0617.96.277018
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.311.331000.2757.65.6

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-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 2BVW1.311565959348590.20.1320.130.162RANDOM12.29
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]
0.130.28-0.20.3
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.328
r_scangle_it3.842
r_scbond_it2.686
r_mcangle_it2.133
r_angle_refined_deg1.686
r_mcbond_it1.501
r_angle_other_deg1.019
r_symmetry_vdw_other0.33
r_nbd_other0.262
r_nbd_refined0.259
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.328
r_scangle_it3.842
r_scbond_it2.686
r_mcangle_it2.133
r_angle_refined_deg1.686
r_mcbond_it1.501
r_angle_other_deg1.019
r_symmetry_vdw_other0.33
r_nbd_other0.262
r_nbd_refined0.259
r_symmetry_hbond_refined0.147
r_metal_ion_refined0.143
r_xyhbond_nbd_refined0.124
r_chiral_restr0.112
r_nbtor_other0.085
r_symmetry_vdw_refined0.077
r_bond_refined_d0.016
r_gen_planes_refined0.009
r_bond_other_d0.008
r_gen_planes_other0.006
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_nbtor_refined
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2804
Nucleic Acid Atoms
Solvent Atoms521
Heterogen Atoms58

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing