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Crystal structure of gamma-butyrolactone receptor (ArpA like protein)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 PEG 6000, lithium sulfate, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.1 40.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.153 α = 90 b = 68.066 β = 90 c = 145.422 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 CCD MARRESEARCH 2002-07-06 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 0.9792, 0.9795, 0.9710 SPring-8 BL41XU
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 2 30 99.9 0.121 0.121 2.5 21.2 26450 26420 5.8
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 2 2.03 99.9 0.437 0.437 1.4 5.8 1147
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 MAD THROUGHOUT 2.4 30 14698 14630 802 99.54 0.21749 0.21749 0.21375 0.2182 0.28645 0.2857 RANDOM 14.979
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] 0.25 -0.53 0.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 20.609 r_scangle_it 4.383 r_dihedral_angle_1_deg 4.338 r_scbond_it 2.634 r_mcangle_it 1.448 r_angle_refined_deg 1.339 r_angle_other_deg 0.809 r_mcbond_it 0.751 r_nbd_refined 0.382 r_xyhbond_nbd_refined 0.255
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 20.609 r_scangle_it 4.383 r_dihedral_angle_1_deg 4.338 r_scbond_it 2.634 r_mcangle_it 1.448 r_angle_refined_deg 1.339 r_angle_other_deg 0.809 r_mcbond_it 0.751 r_nbd_refined 0.382 r_xyhbond_nbd_refined 0.255 r_symmetry_hbond_refined 0.196 r_nbd_other 0.193 r_symmetry_vdw_refined 0.179 r_symmetry_vdw_other 0.153 r_chiral_restr 0.078 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_gen_planes_other 0.004 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3138 Nucleic Acid Atoms Solvent Atoms 75 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling SOLVE phasing