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High resolution crystal structures of thymus and activation-regulated chemokine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other RANTES
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 285 0.16M ammonium sulfate, 0.08M Sodium acetate, 20% PEG 4000, 15% glycerol, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 285K
Crystal Properties Matthews coefficient Solvent content 2.52 50.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.35 α = 69.97 b = 56.525 β = 85.56 c = 76.616 γ = 72.74
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 90 IMAGE PLATE MARRESEARCH Mirrors 2002-08-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 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 1.72 23 92.8 0.063 0.053 12 7 70685 65586
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) 1.72 1.78 81.5 0.241 0.26 5.1 3 5781
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT RANTES 1.72 24.92 65586 62269 3316 92.79 0.2378 0.20115 0.19917 0.2131 0.23896 0.2478 RANDOM 31.584
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] -0.02 -0.71 2.03 0.13 -0.6 0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.15 r_scangle_it 6.334 r_scbond_it 3.947 r_mcangle_it 2.479 r_angle_refined_deg 2.18 r_mcbond_it 1.386 r_angle_other_deg 0.95 r_symmetry_vdw_refined 0.499 r_symmetry_hbond_refined 0.488 r_symmetry_vdw_other 0.375
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.15 r_scangle_it 6.334 r_scbond_it 3.947 r_mcangle_it 2.479 r_angle_refined_deg 2.18 r_mcbond_it 1.386 r_angle_other_deg 0.95 r_symmetry_vdw_refined 0.499 r_symmetry_hbond_refined 0.488 r_symmetry_vdw_other 0.375 r_xyhbond_nbd_refined 0.288 r_nbd_other 0.252 r_nbd_refined 0.239 r_chiral_restr 0.131 r_nbtor_other 0.09 r_bond_refined_d 0.023 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4205 Nucleic Acid Atoms Solvent Atoms 647 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling CNS refinement BEAST model building AMoRE phasing EPMR phasing DENZO data reduction CNS phasing BEAST phasing