1W3L

ENDOGLUCANASE CEL5A FROM BACILLUS AGARADHAERENS IN COMPLEX WITH CELLOTRI DERIVED-TETRAHYDROOXAZINE


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1OCQPDB ENTRY 1OCQ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
15PROTEIN CONCENTRATION 20MG/ML, 1.3 M AMMONIUM SULPHATE PH 5.0, 25% GLYCEROL AS CRYOPROTECTANT
Crystal Properties
Matthews coefficientSolvent content
2.142

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.909α = 90
b = 69.434β = 90
c = 76.82γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDSAGITALLY FOCUSING GE(220) AND A MULTILAYER2003-04-15MSINGLE 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
11.044098.90.05529.58132684
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)
11.041.0697.30.3713.17.1

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 1OCQ1.0451.5132684698098.70.1060.1050.121RANDOM8.48
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]
0.62-0.41-0.21
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.014
r_dihedral_angle_4_deg15.978
r_dihedral_angle_3_deg11.636
r_dihedral_angle_1_deg7.026
r_scangle_it3.208
r_scbond_it2.42
r_mcangle_it1.771
r_angle_refined_deg1.698
r_mcbond_it1.528
r_angle_other_deg1.032
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.014
r_dihedral_angle_4_deg15.978
r_dihedral_angle_3_deg11.636
r_dihedral_angle_1_deg7.026
r_scangle_it3.208
r_scbond_it2.42
r_mcangle_it1.771
r_angle_refined_deg1.698
r_mcbond_it1.528
r_angle_other_deg1.032
r_mcbond_other0.603
r_xyhbond_nbd_other0.377
r_symmetry_vdw_other0.267
r_nbd_refined0.265
r_symmetry_vdw_refined0.231
r_nbtor_refined0.226
r_nbd_other0.223
r_symmetry_hbond_refined0.212
r_xyhbond_nbd_refined0.162
r_nbtor_other0.161
r_chiral_restr0.113
r_bond_refined_d0.015
r_gen_planes_refined0.011
r_bond_other_d0.002
r_gen_planes_other0.002
r_metal_ion_refined
r_metal_ion_other
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
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2377
Nucleic Acid Atoms
Solvent Atoms606
Heterogen Atoms49

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling