2JEN

Family 12 xyloglucanase from Bacillus licheniformis in complex with ligand


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.51.6M AMMONIUM SULPHATE, 10% DIOXANE, 0.1M MES, PH 6.5
Crystal Properties
Matthews coefficientSolvent content
2.754

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 114.629α = 90
b = 114.629β = 90
c = 110.302γ = 120
Symmetry
Space GroupH 3 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDSAGITALLY FOCUSING GE(220) AND A MULTILAYER2003-08-04MSINGLE 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
11.44099.90.0827.38.554792
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)
11.41.4399.20.473.66.5

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 2JEM1.474.5452009277999.70.1160.1150.141RANDOM12.06
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]
0.240.120.24-0.36
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.873
r_dihedral_angle_1_deg15.87
r_dihedral_angle_3_deg12.01
r_sphericity_free7.997
r_dihedral_angle_4_deg7.916
r_scangle_it4.058
r_sphericity_bonded3.589
r_scbond_it3.093
r_mcangle_it2.112
r_angle_refined_deg1.731
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.873
r_dihedral_angle_1_deg15.87
r_dihedral_angle_3_deg12.01
r_sphericity_free7.997
r_dihedral_angle_4_deg7.916
r_scangle_it4.058
r_sphericity_bonded3.589
r_scbond_it3.093
r_mcangle_it2.112
r_angle_refined_deg1.731
r_mcbond_it1.574
r_rigid_bond_restr1.506
r_angle_other_deg1.048
r_mcbond_other0.726
r_symmetry_vdw_other0.192
r_nbd_other0.191
r_nbtor_refined0.189
r_nbd_refined0.187
r_chiral_restr0.177
r_symmetry_vdw_refined0.142
r_xyhbond_nbd_refined0.139
r_symmetry_hbond_refined0.126
r_nbtor_other0.091
r_bond_refined_d0.014
r_gen_planes_refined0.009
r_bond_other_d0.003
r_gen_planes_other0.002
r_xyhbond_nbd_other
r_mcangle_other
r_symmetry_metal_ion_refined
r_scbond_other
r_metal_ion_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_symmetry_metal_ion_other
r_metal_ion_refined
r_symmetry_hbond_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1846
Nucleic Acid Atoms
Solvent Atoms361
Heterogen Atoms132

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing