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Adenylate cyclase class IV with active site ligand APC
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2FJT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 298 45 mg/mL ptn, 7% PEG 5K MME, 0.1M AmS, 0.1M MES, pH 5.6, vapor diffusion, hanging drop, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.41 49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.349 α = 90 b = 38.063 β = 99.19 c = 81.217 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 CCD ADSC QUANTUM 315 2008-04-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.0809 NSLS X29A
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 1.7 30 94.8 0.051 14.8 6.7 41204 41204
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 1.7 1.76 61.1 0.346 3.4 2619
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 (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 THROUGHOUT 2FJT 1.7 16 41159 2085 94.81 0.217 0.217 0.215 0.2161 0.251 0.253 RANDOM 30.364
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] 0.88 0.63 -0.34 -0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.138 r_dihedral_angle_4_deg 21.192 r_dihedral_angle_3_deg 16.25 r_dihedral_angle_1_deg 7.019 r_scangle_it 5.123 r_scbond_it 3.428 r_mcangle_it 2.207 r_angle_refined_deg 1.911 r_mcbond_it 1.491 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.138 r_dihedral_angle_4_deg 21.192 r_dihedral_angle_3_deg 16.25 r_dihedral_angle_1_deg 7.019 r_scangle_it 5.123 r_scbond_it 3.428 r_mcangle_it 2.207 r_angle_refined_deg 1.911 r_mcbond_it 1.491 r_nbtor_refined 0.308 r_symmetry_vdw_refined 0.262 r_nbd_refined 0.225 r_xyhbond_nbd_refined 0.166 r_chiral_restr 0.132 r_symmetry_hbond_refined 0.118 r_bond_refined_d 0.019 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2812 Nucleic Acid Atoms Solvent Atoms 156 Heterogen Atoms 64
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction