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Crystal structure of MO25 alpha
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UPK PDB ENTRY 1UPK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 15 % PEG 20000, 0.1 M MES PH 6.5, 4.4 % GAMMA BUTYROLACTONE
Crystal Properties Matthews coefficient Solvent content 2 38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.625 α = 90 b = 94.012 β = 90 c = 96.327 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC Q4 CCD 2003-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.6 30 98.6 0.118 16.3 5.3 20073
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.69 90.6 0.522 2.7 4.3
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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT PDB ENTRY 1UPK 2.6 25 19496 524 98.6 0.214 0.212 0.2099 0.28 0.2752 RANDOM 18.9
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] -2.29 4.08 -1.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 19.908 r_dihedral_angle_1_deg 5.882 r_scangle_it 2.29 r_mcangle_it 2.161 r_scbond_it 2.034 r_angle_refined_deg 1.647 r_mcbond_it 1.197 r_symmetry_hbond_refined 0.475 r_symmetry_vdw_refined 0.301 r_nbd_refined 0.293
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 19.908 r_dihedral_angle_1_deg 5.882 r_scangle_it 2.29 r_mcangle_it 2.161 r_scbond_it 2.034 r_angle_refined_deg 1.647 r_mcbond_it 1.197 r_symmetry_hbond_refined 0.475 r_symmetry_vdw_refined 0.301 r_nbd_refined 0.293 r_xyhbond_nbd_refined 0.179 r_chiral_restr 0.118 r_bond_refined_d 0.012 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_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 Atoms Number Protein Atoms 5107 Nucleic Acid Atoms Solvent Atoms 12 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing