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The active site of the molybdenum cofactor biosynthetic protein domain Cnx1G
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EAV PDB ENTRY 1EAV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 1.4 M SODIUM ACETATE, 0.1 M SODIUM CACODYLATE, PH 6.5
Crystal Properties Matthews coefficient Solvent content 2.8 56.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 122.263 α = 90 b = 122.263 β = 90 c = 174.623 γ = 90
Symmetry Space Group I 41 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 RIGAKU IMAGE PLATE OSMIX MIRROR 2001-07-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200
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 2.7 26.57 99.9 0.031 17.7 2.7 18549
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 2.7 2.85 100 0.112 6.7 5.2
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 1EAV 2.7 100 17581 949 99.8 0.2 0.198 0.2046 0.243 0.2432 RANDOM 46.93
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] -0.11 -0.11 0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.031 r_scangle_it 4.06 r_scbond_it 2.115 r_mcangle_it 1.519 r_angle_refined_deg 1.374 r_angle_other_deg 0.925 r_mcbond_it 0.764 r_symmetry_vdw_other 0.342 r_symmetry_hbond_refined 0.247 r_nbd_other 0.246
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.031 r_scangle_it 4.06 r_scbond_it 2.115 r_mcangle_it 1.519 r_angle_refined_deg 1.374 r_angle_other_deg 0.925 r_mcbond_it 0.764 r_symmetry_vdw_other 0.342 r_symmetry_hbond_refined 0.247 r_nbd_other 0.246 r_nbd_refined 0.216 r_symmetry_vdw_refined 0.16 r_xyhbond_nbd_refined 0.127 r_nbtor_other 0.084 r_chiral_restr 0.068 r_bond_refined_d 0.013 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_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 3591 Nucleic Acid Atoms Solvent Atoms 64 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling AMoRE phasing