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PHOTOACTIVE YELLOW PROTEIN, CRYOTRAPPED EARLY LIGHT CYCLE INTERMEDIATE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PHY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.8 pH 4.8
Crystal Properties Matthews coefficient Solvent content 1.8 32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.224 α = 90 b = 66.224 β = 90 c = 40.561 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 149 IMAGE PLATE MARRESEARCH MIRRORS 1997-09-06 M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 SSRL BL9-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 0.85 97.7 0.042 0.042 10.9 6.6 84934
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 0.85 0.86 87.1 0.52 0.52 1.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 SAME CRYSTAL LATTICE MOLECULAR REPLACEMENT FREE R-VALUE 2PHY 0.85 50 80680 4249 97.7 0.1326 0.1273 0.1548 0.1298 5% RANDOMLY CHOSEN BY SHELX
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 18 943 1133
RMS Deviations Key Refinement Restraint Deviation s_non_zero_chiral_vol 0.112 s_zero_chiral_vol 0.098 s_anti_bump_dis_restr 0.064 s_angle_d 0.038 s_bond_d 0.017 s_similar_dist s_from_restr_planes s_rigid_bond_adp_cmpnt s_similar_adp_cmpnt s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1094 Nucleic Acid Atoms Solvent Atoms 196 Heterogen Atoms 11
Software Software Software Name Purpose SHELX-97 refinement DENZO data reduction SCALEPACK data scaling