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Dihydrolipoamide dehydrogenase of glycine decarboxylase from Pisum Sativum
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3LAD PDB ENTRY 3LAD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5 15 % PEG MME 5K, 100 MM MES PH 5, 0.45 % HEPTYL-B-D-THIOGLUCOPYRANOSIDE, 2MM POTASSIUM LIPOATE.
Crystal Properties Matthews coefficient Solvent content 2.76 45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.56 α = 90 b = 108.33 β = 90 c = 202.19 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 MARRESEARCH MULTILAYER MIRRORS 1998-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 ESRF ID14-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3.15 30 87 0.063 8.6 3.4 33527 87.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.15 3.32 77.3 0.254 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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3LAD 3.15 15 33219 1650 86.1 0.226 0.226 0.323 RANDOM 75
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] 4.63 -11.76 7.13
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 23.5 c_angle_deg 2.1 c_improper_angle_d 1.2 c_bond_d 0.019 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 23.5 c_angle_deg 2.1 c_improper_angle_d 1.2 c_bond_d 0.019 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot c_mcbond_it c_mcangle_it c_scbond_it c_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13900 Nucleic Acid Atoms Solvent Atoms 104 Heterogen Atoms 212
Software Software Software Name Purpose CNS refinement MOSFLM data reduction SCALA data scaling CNS phasing