Experiment | |
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Method _exptl.method | X-RAY DIFFRACTION The method used in the experiment. |
Experimental protocol _diffrn_radiation.pdbx_diffrn_protocol | MAD SINGLE WAVELENGTH, LAUE, or MAD. |
Source type _diffrn_source.source | SYNCHROTRON The general class of the radiation source. |
Source details _diffrn_source.type | DIAMOND BEAMLINE I23 The make, model or name of the source of radiation. |
Synchrotron site _diffrn_source.pdbx_synchrotron_site | Diamond Synchrotron site. |
Beamline _diffrn_source.pdbx_synchrotron_beamline | I23 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 | 2023-09-23 The date of data collection. |
Detector _diffrn_detector.type | DECTRIS PILATUS 12M The make, model or name of the detector device used. |
Wavelength(s) [Å] _diffrn_source.pdbx_wavelength_list | 2.75, 3.14, 3.54, 4.35, 4.50 and 5.16 Comma separated list of wavelengths or wavelength range. |
Software | |
Data reduction _software.classification | DIALS The classification of the program according to its |
Data scaling #1 _software.classification | xia2.multiplex The classification of the program according to its |
Data scaling #2 _software.classification | STARANISO The classification of the program according to its |
Phasing _software.classification | DIMPLE The classification of the program according to its |
Model building _software.classification | Coot (After using ANODE) The classification of the program according to its |
Refinement #1 _software.classification | PDB-REDO (8.11) The classification of the program according to its |
Refinement #2 _software.classification | PHENIX (4.4.7) The classification of the program according to its |
General information | |
Spacegroup name _symmetry.space_group_name_H-M | P 31 2 1 Hermann-Mauguin space-group symbol. Note that the |
Unit cell parameters _cell.length_{a,b,c} _cell.angle_{alpha,beta,gamma} | 158.533 Unit-cell length a corresponding to the structure reported in 158.533 Unit-cell length b corresponding to the structure reported in 210.820 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 | 2.75000 The radiation wavelength in angstroms. 3.14000 The radiation wavelength in angstroms. 3.54000 The radiation wavelength in angstroms. 4.35000 The radiation wavelength in angstroms. 4.50000 The radiation wavelength in angstroms. 5.16000 ÅThe radiation wavelength in angstroms. |
Data quality metrics | Overall | OuterShell |
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Low resolution limit [Å] _reflns.d_resolution_low _reflns_shell.d_res_low | 210.820 The largest value in angstroms for the interplanar spacings | 2.410 The highest value in angstroms for the interplanar spacings |
High resolution limit [Å] _reflns.d_resolution_high _reflns_shell.d_res_high | 2.370 The smallest value in angstroms for the interplanar spacings | 2.370 The smallest value in angstroms for the interplanar spacings |
Rmerge _reflns.pdbx_Rmerge_I_obs _reflns_shell.Rmerge_I_obs | 0.215 The R value for merging intensities satisfying the observed | 5.369 The value of Rmerge(I) for reflections classified as 'observed' |
Rmeas | - | - |
Rpim _reflns.pdbx_Rpim_I_all _reflns_shell.pdbx_Rpim_I_all | 0.027 The precision-indicating merging R factor value Rpim, | 0.796 The precision-indicating merging R factor value Rpim, |
Total number of observations | - | - |
Total number unique _reflns.number_obs _reflns_shell.number_unique_obs | 124385 The number of reflections in the REFLN list (not the DIFFRN_REFLN | 6112 The total number of measured reflections classified as 'observed' |
<I/σ(I)> _reflns.pdbx_netI_over_sigmaI | 11.60 The mean of the ratio of the intensities to their | - |
Completeness [%] _reflns.percent_possible_obs _reflns_shell.percent_possible_all | 100.0 The percentage of geometrically possible reflections represented | 100.0 The percentage of geometrically possible reflections represented |
Multiplicity _reflns.pdbx_redundancy _reflns_shell.pdbx_redundancy | 59.4 Overall redundancy for this data set. | 45.0 Redundancy for the current shell. |
CC(1/2) _reflns.pdbx_CC_half _reflns_shell.pdbx_CC_half | 0.999 The Pearson's correlation coefficient expressed as a decimal value | 0.204 The Pearson's correlation coefficient expressed as a decimal value |
Refinement | |
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PDB entry ID _entry.id | 9GEF |
Deposition date _pdbx_database_status.recvd_initial_deposition_date | 2024-08-08 |
Resolution _refine.ls_d_res_low _refine.ls_d_res_high | 79.4 - 2.620 Å |
Rwork/Rfree _refine.ls_R_factor_R_work _refine.ls_R_factor_R_free | 0.1804 / 0.2085 |
Structure solution method _refine.pdbx_method_to_determine_struct | MOLECULAR REPLACEMENT |
Starting model (for MR) _refine.pdbx_starting_model | WARNING: no starting model (for MR) given |