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mouse succinic semialdehyde reductase, AKR7A5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GVE PDB ENTRY 1GVE, CHAIN A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 SITTING DROP METHOD EQUILIBRATION OF 15 MG/ML AKR7A5, 20MM TRIS-CL PH7.5, 0.5M DITHITHREITOL, 1MM NADP AGAINST 0.2M SODIUM TARTRATE, 7.5% PEG8000 AND 0.1M MES-NAOH PH6.5, pH 6.50
Crystal Properties Matthews coefficient Solvent content 3.03 59.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.532 α = 90.02 b = 159.238 β = 119.4 c = 96.698 γ = 78.5
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 CCD RH COATED SI MIRROR 2003-11-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX9.6 SRS PX9.6
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 2.3 42 98.4 0.11 4.1 2.9 630867 40.8
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 2.3 2.34 93.3 0.89 1 2.6
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1GVE, CHAIN A 2.3 45 188881 9982 89.8 0.162 0.16 0.1698 0.208 0.2116 RANDOM 33.36
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] -0.02 -1.22 -0.17 -0.99 -0.73 1.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.639 r_dihedral_angle_4_deg 17.274 r_dihedral_angle_3_deg 16.584 r_dihedral_angle_1_deg 6.446 r_scangle_it 3.042 r_scbond_it 2.153 r_angle_refined_deg 1.889 r_mcangle_it 1.227 r_mcbond_it 1.123 r_angle_other_deg 1.104
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.639 r_dihedral_angle_4_deg 17.274 r_dihedral_angle_3_deg 16.584 r_dihedral_angle_1_deg 6.446 r_scangle_it 3.042 r_scbond_it 2.153 r_angle_refined_deg 1.889 r_mcangle_it 1.227 r_mcbond_it 1.123 r_angle_other_deg 1.104 r_symmetry_hbond_refined 0.258 r_symmetry_vdw_other 0.237 r_nbd_refined 0.213 r_nbd_other 0.197 r_nbtor_refined 0.184 r_symmetry_vdw_refined 0.169 r_chiral_restr 0.104 r_nbtor_other 0.093 r_bond_refined_d 0.022 r_gen_planes_refined 0.008 r_bond_other_d 0.003 r_gen_planes_other 0.003 r_xyhbond_nbd_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 25471 Nucleic Acid Atoms Solvent Atoms 2109 Heterogen Atoms 800
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing