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STRUCTURE OF NATIVE UREASE FROM BACILLUS PASTEURII
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UBP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.3 53% SATURATED AMMONIUM SULPHATE, 1.2 M LICL, 20 MM SODIUM CITRATE PH 6.3. SEE
ACTA (1998) D54 409-412
Crystal Properties Matthews coefficient Solvent content 2.7 54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 131.357 α = 90 b = 131.357 β = 90 c = 189.756 γ = 120
Symmetry Space Group P 63 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH BENT MIRROR 1996-06-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B EMBL/DESY, HAMBURG BW7B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.65 14 98.7 0.076 7.6 16.5 10.22 114679 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.65 1.68 97.8 0.59 59 2.2 3.58
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1UBP 2 20 836977 1275 96.7 0.16 0.16 0.1628 0.2 RANDOM 21.15
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]
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 29.7 p_staggered_tor 14.8 p_planar_tor 5.6 p_scangle_it 4.596 p_scbond_it 3.701 p_mcangle_it 2.176 p_mcbond_it 1.725 p_multtor_nbd 0.254 p_singtor_nbd 0.181 p_planar_d 0.033
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 29.7 p_staggered_tor 14.8 p_planar_tor 5.6 p_scangle_it 4.596 p_scbond_it 3.701 p_mcangle_it 2.176 p_mcbond_it 1.725 p_multtor_nbd 0.254 p_singtor_nbd 0.181 p_planar_d 0.033 p_angle_d 0.028 p_bond_d 0.013 p_angle_deg p_hb_or_metal_coord p_plane_restr p_chiral_restr p_xhyhbond_nbd p_xyhbond_nbd p_orthonormal_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6055 Nucleic Acid Atoms Solvent Atoms 881 Heterogen Atoms 7
Software Software Software Name Purpose AMoRE phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling