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Crystal structure of the CLIC homologue EXC-4 from c. elegans
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1K0M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 15% PEG 3350, pH 7.00, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.31 46.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.913 α = 90 b = 91.395 β = 99.61 c = 63.286 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 AREA DETECTOR MARRESEARCH OSMIC MIRRORS 2004-08-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR571 1.5418
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 1.6 16.63 75.8 0.04 0.04 16.7 3.65 61432 27
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) 1.6 1.69 75.8 0.52 0.52 2.5 3.75
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 1K0M 1.6 16.61 57443 3042 74.6 0.19 0.188 0.1941 0.235 0.2337 RANDOM 28.48
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] 0.24 0.07 -0.26 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.402 r_dihedral_angle_4_deg 22.291 r_dihedral_angle_3_deg 13.341 r_scangle_it 9.579 r_scbond_it 7.398 r_mcangle_it 6.559 r_mcbond_it 5.762 r_dihedral_angle_1_deg 5.103 r_mcbond_other 1.74 r_angle_refined_deg 1.456
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.402 r_dihedral_angle_4_deg 22.291 r_dihedral_angle_3_deg 13.341 r_scangle_it 9.579 r_scbond_it 7.398 r_mcangle_it 6.559 r_mcbond_it 5.762 r_dihedral_angle_1_deg 5.103 r_mcbond_other 1.74 r_angle_refined_deg 1.456 r_angle_other_deg 0.914 r_nbd_refined 0.227 r_symmetry_hbond_refined 0.227 r_symmetry_vdw_other 0.217 r_nbd_other 0.188 r_nbtor_refined 0.184 r_symmetry_vdw_refined 0.183 r_xyhbond_nbd_refined 0.135 r_chiral_restr 0.09 r_nbtor_other 0.085 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4555 Nucleic Acid Atoms Solvent Atoms 344 Heterogen Atoms 2
Software Software Software Name Purpose AMoRE phasing REFMAC refinement MOSFLM data reduction SCALA data scaling