Experiment | |
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Method _exptl.method | X-RAY DIFFRACTION The method used in the experiment. |
Experimental protocol _diffrn_radiation.pdbx_diffrn_protocol | SINGLE WAVELENGTH SINGLE WAVELENGTH, LAUE, or MAD. |
Source type _diffrn_source.source | SYNCHROTRON The general class of the radiation source. |
Source details _diffrn_source.type | PHOTON FACTORY BEAMLINE BL-5A The make, model or name of the source of radiation. |
Synchrotron site _diffrn_source.pdbx_synchrotron_site | Photon Factory Synchrotron site. |
Beamline _diffrn_source.pdbx_synchrotron_beamline | BL-5A Synchrotron beamline. |
Temperature [K] _diffrn.ambient_temp | 95 The mean temperature in kelvins at which the intensities were |
Detector technology _diffrn_detector.detector | PIXEL The general class of the radiation detector. |
Collection date _diffrn_detector.pdbx_collection_date | 2020-02-22 The date of data collection. |
Detector _diffrn_detector.type | DECTRIS PILATUS 6M The make, model or name of the detector device used. |
Wavelength(s) [Å] _diffrn_source.pdbx_wavelength_list | 1.0 Comma separated list of wavelengths or wavelength range. |
Software | |
Data reduction _software.classification | XDS (Wolfgang Kabsch; Wolfgang.Kabsch@mpimf-heidelberg.mpg.de) The classification of the program according to its |
Data scaling _software.classification | SCALA (3.3.22; 2013/07/21; Phil R. Evans; pre@mrc-lmb.cam.ac.uk) The classification of the program according to its |
Phasing _software.classification | MOLREP (Alexei Vaguine; alexei@ysbl.york.ac.uk) The classification of the program according to its |
Refinement _software.classification | REFMAC (5.8.0131; Garib N. Murshudov; garib@ysbl.york.ac.uk) The classification of the program according to its |
General information | |
Spacegroup name _symmetry.space_group_name_H-M | P 41 21 2 Hermann-Mauguin space-group symbol. Note that the |
Unit cell parameters _cell.length_{a,b,c} _cell.angle_{alpha,beta,gamma} | 67.448 Unit-cell length a corresponding to the structure reported in 67.448 Unit-cell length b corresponding to the structure reported in 140.959 Unit-cell length c corresponding to the structure reported in 90.0 Unit-cell angle alpha of the reported structure in degrees. 90.0 Unit-cell angle beta of the reported structure in degrees. 90.0 Unit-cell angle gamma of the reported structure in degrees. |
Wavelength _diffrn_radiation_wavelength.wavelength | 1.00000 ÅThe radiation wavelength in angstroms. |
Data quality metrics | Overall | InnerShell | OuterShell |
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Low resolution limit [Å] _reflns.d_resolution_low _reflns_shell.d_res_low | 60.842 The largest value in angstroms for the interplanar spacings | 47.693 The highest value in angstroms for the interplanar spacings | 1.690 The highest value in angstroms for the interplanar spacings |
High resolution limit [Å] _reflns.d_resolution_high _reflns_shell.d_res_high | 1.600 The smallest value in angstroms for the interplanar spacings | 5.060 The smallest value in angstroms for the interplanar spacings | 1.600 The smallest value in angstroms for the interplanar spacings |
Rmerge _reflns.pdbx_Rsym_value _reflns_shell.Rmerge_I_obs | 0.060 The R sym value as a decimal number. | 0.036 The value of Rmerge(I) for reflections classified as 'observed' | 0.493 The value of Rmerge(I) for reflections classified as 'observed' |
Rmeas _reflns.pdbx_Rrim_I_all _reflns_shell.pdbx_Rrim_I_all | 0.062 The redundancy-independent merging R factor value Rrim, | 0.038 The redundancy-independent merging R factor value Rrim, | 0.540 The redundancy-independent merging R factor value Rrim, |
Rpim _reflns.pdbx_Rpim_I_all _reflns_shell.pdbx_Rpim_I_all | 0.018 The precision-indicating merging R factor value Rpim, | 0.011 The precision-indicating merging R factor value Rpim, | 0.215 The precision-indicating merging R factor value Rpim, |
Total number of observations _reflns.pdbx_number_measured_all _reflns_shell.number_measured_all | 497134 Total number of measured reflections. | 18482 The total number of reflections measured for this | 38153 The total number of reflections measured for this |
Total number unique _reflns.number_obs _reflns_shell.number_unique_obs | 43853 The number of reflections in the REFLN list (not the DIFFRN_REFLN | 1587 The total number of measured reflections classified as 'observed' | 6263 The total number of measured reflections classified as 'observed' |
<I/σ(I)> _reflns.pdbx_netI_over_sigmaI _reflns_shell.meanI_over_sigI_obs | 24.50 The mean of the ratio of the intensities to their | 14.80 The ratio of the mean of the intensities of the reflections | 1.50 The ratio of the mean of the intensities of the reflections |
Completeness [%] _reflns.percent_possible_obs _reflns_shell.percent_possible_all | 100.0 The percentage of geometrically possible reflections represented | 99.9 The percentage of geometrically possible reflections represented | 99.9 The percentage of geometrically possible reflections represented |
Multiplicity _reflns.pdbx_redundancy _reflns_shell.pdbx_redundancy | 11.3 Overall redundancy for this data set. | 11.6 Redundancy for the current shell. | 6.1 Redundancy for the current shell. |
CC(1/2) | - | - | - |
Refinement | |
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PDB entry ID _entry.id | 7Y05 |
Deposition date _pdbx_database_status.recvd_initial_deposition_date | 2022-06-03 |
Resolution _refine.ls_d_res_low _refine.ls_d_res_high | 48.7 - 1.600 Å |
Rwork/Rfree _refine.ls_R_factor_R_work _refine.ls_R_factor_R_free | 0.2109 / 0.2308 |
Structure solution method _refine.pdbx_method_to_determine_struct | MOLECULAR REPLACEMENT |
Starting model (for MR) _refine.pdbx_starting_model | 4HUO |