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Crystal structure of thioesterase superfamily (YP_508616.1) from Jannaschia sp. CCS1 at 2.00 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, NANODROP 4.2 277 40.0% PEG-300, 0.1M Phosphate Citrate pH 4.2, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.57 52.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.412 α = 90 b = 68.412 β = 90 c = 260.002 γ = 120
Symmetry Space Group P 61 2 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 MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2006-12-05 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837, 0.97932 SSRL BL11-1
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 29.617 100 0.142 0.142 14 10.3 25559 27.03
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 2.05 100 0.011 1.121 2.2 10.5 1835
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 2 29.617 25455 1297 99.94 0.168 0.167 0.1776 0.193 0.2044 RANDOM 29.134
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] 1.05 0.52 1.05 -1.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.478 r_dihedral_angle_3_deg 13.297 r_dihedral_angle_4_deg 11.486 r_scangle_it 6.212 r_dihedral_angle_1_deg 6.198 r_scbond_it 4.989 r_mcangle_it 2.745 r_mcbond_it 1.852 r_angle_refined_deg 1.528 r_angle_other_deg 0.957
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.478 r_dihedral_angle_3_deg 13.297 r_dihedral_angle_4_deg 11.486 r_scangle_it 6.212 r_dihedral_angle_1_deg 6.198 r_scbond_it 4.989 r_mcangle_it 2.745 r_mcbond_it 1.852 r_angle_refined_deg 1.528 r_angle_other_deg 0.957 r_mcbond_other 0.399 r_symmetry_vdw_other 0.269 r_symmetry_hbond_refined 0.226 r_nbd_refined 0.208 r_nbd_other 0.206 r_nbtor_refined 0.185 r_symmetry_vdw_refined 0.183 r_xyhbond_nbd_refined 0.148 r_chiral_restr 0.093 r_nbtor_other 0.087 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2284 Nucleic Acid Atoms Solvent Atoms 208 Heterogen Atoms 72
Software Software Software Name Purpose MolProbity model building SHELX phasing REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction CCP4 data scaling SHELXD phasing SHARP phasing