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Crystal structure of human bisphosphoglycerate mutase complex with 3-phosphoglycerate (18 days)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2H4Z PDB ENTRY 2H4Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 289 PEG6000, HEPES, VAPOR DIFFUSION, HANGING DROP, pH 7.50, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.13 43.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.81 α = 90 b = 71.25 β = 90 c = 160.08 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 IMAGE PLATE RIGAKU RAXIS IV 2004-08-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE RIGAKU
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 40 97.7 0.081 24.1 37816 18.8
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) 2 2.05 96.5 0.269 7.6
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 2H4Z 2 23.49 37092 1843 95.9 0.181 0.181 0.1829 0.209 0.2109 RANDOM 22
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] 7.74 -2.05 -5.7
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 21.9 c_scangle_it 2.91 c_scbond_it 2.07 c_mcangle_it 1.78 c_mcbond_it 1.21 c_angle_deg 1.2 c_improper_angle_d 0.73 c_bond_d 0.005 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 21.9 c_scangle_it 2.91 c_scbond_it 2.07 c_mcangle_it 1.78 c_mcbond_it 1.21 c_angle_deg 1.2 c_improper_angle_d 0.73 c_bond_d 0.005 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 4102 Nucleic Acid Atoms Solvent Atoms 553 Heterogen Atoms 29
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing CNS refinement