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Crystal structure of the first fibronectin type III domain of neural cell adhesion molecule splicing isoform from human muscle culture lambda-4.4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 293 22-25% PEG 3350, 0.1M Bis-Tris-HCl, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.73 54.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.378 α = 90 b = 55.378 β = 90 c = 118.83 γ = 120
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 RIGAKU JUPITER 210 mirrors 2006-10-03 M MAD 2 1 x-ray 100 CCD MARMOSAIC 300 mm CCD mirrors 2006-10-11 M SINGLE WAVELENGTH 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL26B2 0.979274, 0.979740, 0.964000 SPring-8 BL26B2 2 SYNCHROTRON APS BEAMLINE 22-ID 0.97105 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.95 50 98.5 0.073 36.1 10 29327 -3 16.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1,2 1.95 1.98 80.6 0.387 3.38 4.6 1248
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 1.95 30 27783 1500 98.5 0.183 0.182 0.1805 0.211 0.1797 RANDOM 41.2
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] 0.16 0.08 0.16 -0.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.074 r_dihedral_angle_3_deg 9.976 r_dihedral_angle_4_deg 5.987 r_dihedral_angle_1_deg 4.568 r_scangle_it 1.974 r_scbond_it 1.283 r_angle_refined_deg 1.275 r_mcangle_it 0.791 r_mcbond_it 0.627 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.074 r_dihedral_angle_3_deg 9.976 r_dihedral_angle_4_deg 5.987 r_dihedral_angle_1_deg 4.568 r_scangle_it 1.974 r_scbond_it 1.283 r_angle_refined_deg 1.275 r_mcangle_it 0.791 r_mcbond_it 0.627 r_nbtor_refined 0.3 r_symmetry_vdw_refined 0.211 r_nbd_refined 0.191 r_symmetry_hbond_refined 0.145 r_xyhbond_nbd_refined 0.113 r_chiral_restr 0.072 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_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other 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 2278 Nucleic Acid Atoms Solvent Atoms 233 Heterogen Atoms 65
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing