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Both Zn Fingers of GATA1 Bound to Palindromic DNA Recognition Site, P1 Crystal Form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3VD6 PDB ENTRY 3VD6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 20% PEG 6000, 0.01M ZnCl2, 0.1M MES, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.52 51.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.195 α = 72.39 b = 62.415 β = 74.57 c = 66.046 γ = 73.63
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 MAR scanner 345 mm plate 2011-09-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
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 2.63 50 97 0.088 14.2 4.7 14526 14526
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) 1 2.63 2.68 94.3 0.373 4.4 718
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 (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 3VD6 2.63 48.68 14469 14469 732 96.32 0.2369 0.2349 0.2318 0.2751 0.2799 RANDOM 65.7281
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] 0.1 -1.22 0.59 4.33 1.29 -4.85
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.746 r_dihedral_angle_3_deg 9.963 r_dihedral_angle_4_deg 7.481 r_dihedral_angle_1_deg 3.746 r_scangle_it 1.988 r_scbond_it 1.25 r_mcangle_it 0.977 r_angle_refined_deg 0.921 r_angle_other_deg 0.881 r_mcbond_it 0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.746 r_dihedral_angle_3_deg 9.963 r_dihedral_angle_4_deg 7.481 r_dihedral_angle_1_deg 3.746 r_scangle_it 1.988 r_scbond_it 1.25 r_mcangle_it 0.977 r_angle_refined_deg 0.921 r_angle_other_deg 0.881 r_mcbond_it 0.51 r_mcbond_other 0.081 r_chiral_restr 0.04 r_bond_refined_d 0.004 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1512 Nucleic Acid Atoms 1628 Solvent Atoms Heterogen Atoms 14
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection HKL-2000 data reduction HKL-2000 data scaling