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 | APS BEAMLINE 23-ID-D The make, model or name of the source of radiation. |
Synchrotron site _diffrn_source.pdbx_synchrotron_site | APS Synchrotron site. |
Beamline _diffrn_source.pdbx_synchrotron_beamline | 23-ID-D Synchrotron beamline. |
Temperature [K] _diffrn.ambient_temp | 100 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 | 2016-06-30 The date of data collection. |
Detector _diffrn_detector.type | DECTRIS PILATUS3 6M The make, model or name of the detector device used. |
Wavelength(s) [Å] _diffrn_source.pdbx_wavelength_list | 1.033 Comma separated list of wavelengths or wavelength range. |
Software | |
Data reduction _software.classification | XDS (2017-05-29) The classification of the program according to its |
Data scaling _software.classification | Aimless (0.5.32) The classification of the program according to its |
Phasing #1 _software.classification | SHARP The classification of the program according to its |
Phasing #2 _software.classification | SOLOMON The classification of the program according to its |
Refinement _software.classification | PHENIX (1.14-3260) The classification of the program according to its |
General information | |
Spacegroup name _symmetry.space_group_name_H-M | P 32 Hermann-Mauguin space-group symbol. Note that the |
Unit cell parameters _cell.length_{a,b,c} _cell.angle_{alpha,beta,gamma} | 67.887 Unit-cell length a corresponding to the structure reported in 67.887 Unit-cell length b corresponding to the structure reported in 149.130 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. 120.0 Unit-cell angle gamma of the reported structure in degrees. |
Wavelength _diffrn_radiation_wavelength.wavelength | 1.28100 The radiation wavelength in angstroms. 1.77100 The radiation wavelength in angstroms. 0.97940 The radiation wavelength in angstroms. 0.97900 The radiation wavelength in angstroms. 1.03900 The radiation wavelength in angstroms. 1.03300 ÅThe radiation wavelength in angstroms. |
Data quality metrics | Overall | InnerShell | OuterShell |
---|---|---|---|
Low resolution limit [Å] _reflns.d_resolution_low _reflns_shell.d_res_low | 59.154 The largest value in angstroms for the interplanar spacings | 37.960 The highest value in angstroms for the interplanar spacings | 2.680 The highest value in angstroms for the interplanar spacings |
High resolution limit [Å] _reflns.d_resolution_high _reflns_shell.d_res_high | 2.539 The smallest value in angstroms for the interplanar spacings | 8.030 The smallest value in angstroms for the interplanar spacings | 2.540 The smallest value in angstroms for the interplanar spacings |
Rmerge _reflns.pdbx_Rmerge_I_obs _reflns_shell.Rmerge_I_obs | 0.124 The R value for merging intensities satisfying the observed | 0.069 The value of Rmerge(I) for reflections classified as 'observed' | 3.394 The value of Rmerge(I) for reflections classified as 'observed' |
Rmeas _reflns.pdbx_Rrim_I_all _reflns_shell.pdbx_Rrim_I_all | 0.130 The redundancy-independent merging R factor value Rrim, | 0.072 The redundancy-independent merging R factor value Rrim, | 3.761 The redundancy-independent merging R factor value Rrim, |
Rpim _reflns.pdbx_Rpim_I_all _reflns_shell.pdbx_Rpim_I_all | 0.039 The precision-indicating merging R factor value Rpim, | 0.022 The precision-indicating merging R factor value Rpim, | 1.213 The precision-indicating merging R factor value Rpim, |
Total number of observations | - | - | - |
Total number unique _reflns.number_obs _reflns_shell.number_unique_obs | 50608 The number of reflections in the REFLN list (not the DIFFRN_REFLN | 817 The total number of measured reflections classified as 'observed' | 3715 The total number of measured reflections classified as 'observed' |
<I/σ(I)> _reflns.pdbx_netI_over_sigmaI _reflns_shell.meanI_over_sigI_obs | 18.80 The mean of the ratio of the intensities to their | 56.00 The ratio of the mean of the intensities of the reflections | 0.90 The ratio of the mean of the intensities of the reflections |
Completeness [%] _reflns.percent_possible_obs _reflns_shell.percent_possible_all | 99.9 The percentage of geometrically possible reflections represented | 99.3 The percentage of geometrically possible reflections represented | 99.9 The percentage of geometrically possible reflections represented |
Multiplicity _reflns.pdbx_redundancy _reflns_shell.pdbx_redundancy | 11.0 Overall redundancy for this data set. | 11.1 Redundancy for the current shell. | 9.0 Redundancy for the current shell. |
CC(1/2) _reflns.pdbx_CC_half _reflns_shell.pdbx_CC_half | 0.996 The Pearson's correlation coefficient expressed as a decimal value | 0.996 The Pearson's correlation coefficient expressed as a decimal value | 0.468 The Pearson's correlation coefficient expressed as a decimal value |
Refinement | |
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PDB entry ID _entry.id | 6VJI |
Deposition date _pdbx_database_status.recvd_initial_deposition_date | 2020-01-16 |
Resolution _refine.ls_d_res_low _refine.ls_d_res_high | 38.0 - 2.540 Å |
Rwork/Rfree _refine.ls_R_factor_R_work _refine.ls_R_factor_R_free | 0.2503 / 0.2749 |
Structure solution method _refine.pdbx_method_to_determine_struct | MIRAS |