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Structure of human eIF4E homologous protein 4EHP with m7GTP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1IPB PDB ENTRY 1IPB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 20% PEG-3000, 0.1M SODIUM CITRATE PH 5.5 WITH 1MM M7GTP IN THE DROP
Crystal Properties Matthews coefficient Solvent content 2.5 43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.499 α = 90 b = 49.299 β = 90 c = 103.767 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 IMAGE PLATE RIGAKU IMAGE PLATE MIRRORS 2005-06-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.7 30 99.6 0.06 17.7 4.5 111967 -3 17.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.79 99.2 0.37 3.4 4.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1IPB 1.7 51.92 23859 1262 99.4 0.204 0.202 0.242 RANDOM 18.37
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] 0.53 -0.49 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.425 r_dihedral_angle_4_deg 19.504 r_dihedral_angle_3_deg 13.642 r_dihedral_angle_1_deg 5.991 r_scangle_it 3.979 r_scbond_it 2.492 r_mcangle_it 1.697 r_angle_refined_deg 1.494 r_mcbond_it 1.153 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.425 r_dihedral_angle_4_deg 19.504 r_dihedral_angle_3_deg 13.642 r_dihedral_angle_1_deg 5.991 r_scangle_it 3.979 r_scbond_it 2.492 r_mcangle_it 1.697 r_angle_refined_deg 1.494 r_mcbond_it 1.153 r_nbtor_refined 0.305 r_symmetry_vdw_refined 0.231 r_nbd_refined 0.209 r_xyhbond_nbd_refined 0.143 r_symmetry_hbond_refined 0.106 r_chiral_restr 0.098 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1665 Nucleic Acid Atoms Solvent Atoms 193 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing