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DIAMIDOPHOSPHATE INHIBITED BACILLUS PASTEURII UREASE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2UBP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.3 WELL SOLUTIONS: 1.9 M AMMONIUM SULPHATE, 4MM PHENYLPHOSPHORODIAMIDATE, 1OOMM
SODIUM CITRATE PH 6.3. PROTEIN SOLUTION: 20 C, 3 MICROLITERS PROTEIN SOLUTION (
11 MG/ML IN 20 MM TRIS HCL PH 8.0 + 4MM PHENYLPHOSPHORODIAMIDATE) + 3
MICROLITERS PRECIPITANT SOLUTION, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.7 54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 131.532 α = 90 b = 131.532 β = 90 c = 188.451 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 1997-07-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A EMBL/DESY, HAMBURG BW7A
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 2 20 99.9 0.15 0.15 9.72 13.38 65301 -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 2 2.04 99.9 0.536 0.536 2.8 7.56
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 RFREE 2UBP 2 18 65301 1306 99.9 0.158 0.158 0.1611 0.2 RANDOM 15.87
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 30.5 p_staggered_tor 15 p_planar_tor 5.9 p_scangle_it 4.634 p_scbond_it 3.855 p_mcangle_it 2.077 p_mcbond_it 1.648 p_multtor_nbd 0.25 p_singtor_nbd 0.183 p_planar_d 0.033
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 30.5 p_staggered_tor 15 p_planar_tor 5.9 p_scangle_it 4.634 p_scbond_it 3.855 p_mcangle_it 2.077 p_mcbond_it 1.648 p_multtor_nbd 0.25 p_singtor_nbd 0.183 p_planar_d 0.033 p_angle_d 0.028 p_bond_d 0.009 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 841 Heterogen Atoms 7
Software Software Software Name Purpose AMoRE phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling