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Crystal structure of holo-CRBP from zebrafish
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OPB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 293 PEG 4000, Ammonium acetate, sodium citrate, pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.1 49.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.018 α = 90 b = 89.018 β = 90 c = 38.271 γ = 90
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 QUANTUM 4 2001-09-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.9393 ESRF ID14-4
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 1.38 40 72.3 0.046 0.046 8.1 3 22343 22343
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) 1.38 1.46 13.2 0.234 0.234 2.9 1.2 581
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R 1OPB 1.38 20.989 22198 22198 1103 71 0.1654 0.1654 0.1588 0.2326 RANDOM
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 1 4 1319.21
RMS Deviations Key Refinement Restraint Deviation s_approx_iso_adps 0.062 s_non_zero_chiral_vol 0.049 s_similar_adp_cmpnt 0.049 s_zero_chiral_vol 0.04 s_from_restr_planes 0.0261 s_angle_d 0.025 s_anti_bump_dis_restr 0.01 s_bond_d 0.009 s_rigid_bond_adp_cmpnt 0.003 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1103 Nucleic Acid Atoms Solvent Atoms 194 Heterogen Atoms 23
Software Software Software Name Purpose AMoRE phasing SHELXL-97 refinement MOSFLM data reduction CCP4 data scaling