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The Rho-GAP domain of human N-chimaerin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1XA6 PDB entry 1XA6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 298 30% Jeffamine ED-2001, 0.1M HEPES pH 7.0, 0.1 M Adenosine-5-triphosphate disodium salt, VAPOR DIFFUSION, SITTING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.51 51.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.49 α = 90 b = 92.49 β = 90 c = 47.095 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 100 IMAGE PLATE RIGAKU RAXIS IV++ 2006-08-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.54178
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.8 18.43 98.2 0.09 13.8 3.5 21064 21064 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.8 1.86 90.4 0.77 1.1 1.9 1912
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 1XA6 1.8 18.43 19956 19956 1082 98.02 0.18978 0.18671 0.186 0.25131 0.2471 RANDOM 36.411
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] -1.11 -0.56 -1.11 1.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.101 r_dihedral_angle_4_deg 21.355 r_dihedral_angle_3_deg 14.146 r_dihedral_angle_1_deg 5.05 r_scangle_it 4.938 r_scbond_it 3.81 r_mcangle_it 2.427 r_mcbond_it 1.848 r_angle_refined_deg 1.498 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.101 r_dihedral_angle_4_deg 21.355 r_dihedral_angle_3_deg 14.146 r_dihedral_angle_1_deg 5.05 r_scangle_it 4.938 r_scbond_it 3.81 r_mcangle_it 2.427 r_mcbond_it 1.848 r_angle_refined_deg 1.498 r_nbtor_refined 0.304 r_nbd_refined 0.224 r_symmetry_hbond_refined 0.19 r_symmetry_vdw_refined 0.165 r_xyhbond_nbd_refined 0.142 r_chiral_restr 0.104 r_bond_refined_d 0.017 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1582 Nucleic Acid Atoms Solvent Atoms 153 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing