☰ Navigation Tabs
GAP domain of ZNF289, an ID1-regulated zinc finger protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CRW pdb entry 2CRW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 291 3.2M sodium formate, .09M sodium acetate, pH 4.6, vapor diffusion, sitting drop, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.2 44.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.027 α = 90 b = 41.165 β = 90 c = 72.808 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 2006-09-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E 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 1.8 50 97.8 0.06 15.9 5.4 11721
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) 1.8 1.86 95.2 0.504 5.4
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 pdb entry 2CRW 1.8 30 11690 559 97.914 0.198 0.19773 0.1955 0.2023 0.2414 0.2444 random 18.218
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] 0.699 0.036 -0.735
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.391 r_dihedral_angle_4_deg 21.185 r_dihedral_angle_3_deg 12.627 r_dihedral_angle_1_deg 5.563 r_scangle_it 3.559 r_scbond_it 2.383 r_mcangle_it 1.694 r_angle_refined_deg 1.371 r_mcbond_it 1.121 r_angle_other_deg 0.998
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.391 r_dihedral_angle_4_deg 21.185 r_dihedral_angle_3_deg 12.627 r_dihedral_angle_1_deg 5.563 r_scangle_it 3.559 r_scbond_it 2.383 r_mcangle_it 1.694 r_angle_refined_deg 1.371 r_mcbond_it 1.121 r_angle_other_deg 0.998 r_symmetry_vdw_other 0.324 r_mcbond_other 0.272 r_nbd_refined 0.215 r_nbd_other 0.192 r_nbtor_refined 0.184 r_symmetry_vdw_refined 0.159 r_xyhbond_nbd_refined 0.141 r_symmetry_hbond_refined 0.121 r_chiral_restr 0.092 r_nbtor_other 0.085 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 981 Nucleic Acid Atoms Solvent Atoms 41 Heterogen Atoms 4
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction ARP/wARP model building Coot model building MolProbity model building