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Crystal structure of CXCL12
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 300 0.1 M Tris-HCl pH 8.5, 20% Jeffamine M-600, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.07 40.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.834 α = 90 b = 117.468 β = 90 c = 134.501 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 ADSC QUANTUM 315r M SAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.0400 NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.2 31 39406
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 SAD THROUGHOUT 2.2 29.18 33679 709 99.63 0.2294 0.22832 0.2388 0.27995 0.2879 RANDOM 28.569
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] -0.57 0.03 0.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.218 r_dihedral_angle_3_deg 19.248 r_dihedral_angle_4_deg 16.225 r_scangle_it 10.726 r_scbond_it 8.485 r_mcangle_it 8.245 r_mcbond_it 6.287 r_dihedral_angle_1_deg 6.086 r_angle_refined_deg 1.229 r_chiral_restr 0.087
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.218 r_dihedral_angle_3_deg 19.248 r_dihedral_angle_4_deg 16.225 r_scangle_it 10.726 r_scbond_it 8.485 r_mcangle_it 8.245 r_mcbond_it 6.287 r_dihedral_angle_1_deg 6.086 r_angle_refined_deg 1.229 r_chiral_restr 0.087 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4979 Nucleic Acid Atoms Solvent Atoms 231 Heterogen Atoms 12
Software Software Software Name Purpose CBASS data collection SHARP phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling