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Reduced form of the H protein from glycine decarboxylase complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HPC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.2 50 % AMMONIUM SULFATE, 100 MM TRIS MALEATE PH 5.2, 2 MM TCEP (TRIS CARBOXYETHYL PHOSPHINE)
Crystal Properties Matthews coefficient Solvent content 2.22 44.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.41 α = 90 b = 56.41 β = 90 c = 135.17 γ = 120
Symmetry Space Group P 31 2 1
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 MIRRORS 1998-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE
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 2.6 40 97.1 0.11 4.7 3 7808 47.6
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 2.6 2.74 98.3 0.24 3 2.9
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 1HPC 2.6 40 7740 410 94.8 0.204 0.204 0.26 RANDOM 37.9
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] 3.41 -2.07 3.41 -6.82
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25 c_scangle_it 3.09 c_mcangle_it 2.44 c_scbond_it 1.98 c_mcbond_it 1.43 c_angle_deg 1.3 c_improper_angle_d 1.17 c_bond_d 0.007 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 25 c_scangle_it 3.09 c_mcangle_it 2.44 c_scbond_it 1.98 c_mcbond_it 1.43 c_angle_deg 1.3 c_improper_angle_d 1.17 c_bond_d 0.007 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1966 Nucleic Acid Atoms Solvent Atoms 145 Heterogen Atoms 22
Software Software Software Name Purpose CNS refinement XDS data reduction SCALA data scaling CNS phasing