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ACTIVATED RESPONSE REGULATOR PLED IN COMPLEX WITH C-DIGMP AND GTP- ALPHA-S
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1W25 PDB ENTRY 1W25
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 PROTEIN SOLUTION: 100 MICROM PLED, 0.2 MM C-DI-GMP, 1 MM GTP-ALPHA-S, 1 MM BECL2, 10 MM NAF, 10 MM MGCL2 RESERVOIR: 0.1 M HEPES, PH 8.0, 0.73 M NA2SO4
Crystal Properties Matthews coefficient Solvent content 3.8 68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.965 α = 90 b = 132.557 β = 90 c = 88.425 γ = 90
Symmetry Space Group P 21 21 2
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 MARRESEARCH 2006-05-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
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 2.7 73 95.6 0.1 6.1 3.02 39328
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 2.7 2.85 80.2 0.46 6.05 2.58
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 PDB ENTRY 1W25 2.71 30 37302 1969 94 0.216 0.215 0.2195 0.252 0.2578 RANDOM 35.58
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] 0.01 -2.08 2.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.258 r_dihedral_angle_4_deg 17.955 r_dihedral_angle_3_deg 17.933 r_dihedral_angle_1_deg 5.756 r_scangle_it 4.154 r_scbond_it 2.725 r_mcangle_it 1.515 r_angle_refined_deg 1.505 r_mcbond_it 1.279 r_angle_other_deg 1.007
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.258 r_dihedral_angle_4_deg 17.955 r_dihedral_angle_3_deg 17.933 r_dihedral_angle_1_deg 5.756 r_scangle_it 4.154 r_scbond_it 2.725 r_mcangle_it 1.515 r_angle_refined_deg 1.505 r_mcbond_it 1.279 r_angle_other_deg 1.007 r_symmetry_hbond_refined 0.229 r_nbd_refined 0.223 r_symmetry_vdw_other 0.22 r_nbd_other 0.193 r_nbtor_refined 0.177 r_xyhbond_nbd_refined 0.145 r_chiral_restr 0.091 r_nbtor_other 0.09 r_symmetry_vdw_refined 0.084 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.002 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7012 Nucleic Acid Atoms Solvent Atoms 14 Heterogen Atoms 272
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing