Starting Model(s)
| Initial Refinement Model(s) |
|---|
| Type | Source | Accession Code | Details |
|---|
|
experimental model | PDB | 1LZ7 | GTB |
Crystallization
| Crystal Properties |
|---|
| Matthews coefficient | Solvent content |
|---|
| 2.39 | 48.58 |
Crystal Data
| Unit Cell |
|---|
| Length ( Å ) | Angle ( ˚ ) |
|---|
| a = 53.39 | α = 90 |
| b = 151.85 | β = 90 |
| c = 80.24 | γ = 90 |
| Symmetry |
|---|
| Space Group | C 2 2 21 |
|---|
Diffraction
| Diffraction Experiment |
|---|
| ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol |
|---|
| 1 | 1 | x-ray | 113 | IMAGE PLATE | RIGAKU RAXIS IV | Osmic | 2006-05-27 | M | SINGLE WAVELENGTH |
| Radiation Source |
|---|
| ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
|---|
| 1 | ROTATING ANODE | RIGAKU | | | |
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 | 2.39 | 19.5 | 96 | 0.075 | 11.5 | 4.43 | | 12774 | | | |
| 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 | 2.39 | 2.48 | 95.6 | | 0.273 | 3.8 | 4.43 | 1263 |
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-Work (DCC) | R-Free (Depositor) | R-Free (DCC) | R-Free Selection Details | Mean Isotropic B |
|---|
| X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | THROUGHOUT | GTB | 2.39 | 19.5 | 12746 | 630 | 95.83 | 0.172 | 0.168 | 0.1645 | 0.236 | 0.232 | RANDOM | 29.52 |
| 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] |
|---|
| -0.64 | | | 0.39 | | 0.26 |
| RMS Deviations |
|---|
| Key | Refinement Restraint Deviation |
|---|
| r_dihedral_angle_2_deg | 34.252 |
| r_dihedral_angle_4_deg | 18.51 |
| r_dihedral_angle_3_deg | 16.098 |
| r_dihedral_angle_1_deg | 6.411 |
| r_scangle_it | 3.019 |
| r_scbond_it | 1.876 |
| r_mcangle_it | 1.384 |
| r_angle_refined_deg | 1.341 |
| r_mcbond_it | 0.835 |
| r_nbtor_refined | 0.306 |
| RMS Deviations |
|---|
| Key | Refinement Restraint Deviation |
|---|
| r_dihedral_angle_2_deg | 34.252 |
| r_dihedral_angle_4_deg | 18.51 |
| r_dihedral_angle_3_deg | 16.098 |
| r_dihedral_angle_1_deg | 6.411 |
| r_scangle_it | 3.019 |
| r_scbond_it | 1.876 |
| r_mcangle_it | 1.384 |
| r_angle_refined_deg | 1.341 |
| r_mcbond_it | 0.835 |
| r_nbtor_refined | 0.306 |
| r_symmetry_vdw_refined | 0.215 |
| r_nbd_refined | 0.193 |
| r_xyhbond_nbd_refined | 0.139 |
| r_symmetry_hbond_refined | 0.126 |
| r_chiral_restr | 0.092 |
| r_bond_refined_d | 0.012 |
| r_gen_planes_refined | 0.005 |
| Non-Hydrogen Atoms Used in Refinement |
|---|
| Non-Hydrogen Atoms | Number |
|---|
| Protein Atoms | 2221 |
| Nucleic Acid Atoms | |
| Solvent Atoms | 119 |
| Heterogen Atoms | |
Software
| Software |
|---|
| Software Name | Purpose |
|---|
| d*TREK | data scaling |
| AMoRE | phasing |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| CrystalClear | data collection |
| d*TREK | data reduction |
| MOLREP | phasing |
