data_6DKZ

_pdbx_vrpt_database.id    PDB
_pdbx_vrpt_database.code  6DKZ
#
_pdbx_vrpt_exptl.ordinal  1
_pdbx_vrpt_exptl.method   x-ray
#
_pdbx_vrpt_summary.entry_id                    6DKZ
_pdbx_vrpt_summary.PDB_deposition_date         2018-05-31
_pdbx_vrpt_summary.PDB_revision_number         3
_pdbx_vrpt_summary.PDB_revision_date           2020-01-01
_pdbx_vrpt_summary.report_creation_date        2023-10-07:21:41
_pdbx_vrpt_summary.attempted_validation_steps  molprobity,validation-pack,xtriage,eds,percentiles,writexml,writecif,writepdf
_pdbx_vrpt_summary.ligands_for_buster_report   N
#
loop_
_pdbx_vrpt_entity.id
_pdbx_vrpt_entity.type
_pdbx_vrpt_entity.description
1  polymer  ribifolin  
2  water    water      
#
loop_
_pdbx_vrpt_asym.label_asym_id
_pdbx_vrpt_asym.entity_id
A  1  
B  2  
#
loop_
_pdbx_vrpt_percentile_list.id
_pdbx_vrpt_percentile_list.range
_pdbx_vrpt_percentile_list.exp_method
1  all   x-ray  
2  0.99  x-ray  
#
loop_
_pdbx_vrpt_percentile_type.id
_pdbx_vrpt_percentile_type.type
1  all_atom_clashscore           
2  Ramachandran_outlier_percent  
3  rotamer_outliers_percent      
#
loop_
_pdbx_vrpt_percentile_conditions.id
_pdbx_vrpt_percentile_conditions.percentile_list_id
_pdbx_vrpt_percentile_conditions.type_id
_pdbx_vrpt_percentile_conditions.rank
_pdbx_vrpt_percentile_conditions.number_entries_total
_pdbx_vrpt_percentile_conditions.res_high
_pdbx_vrpt_percentile_conditions.res_low
1  1  1   99.96  141614     ?     ?  
2  2  1   99.82    1117  0.94  1.06  
3  1  2  100.00  138981     ?     ?  
4  2  2  100.00    1043  0.94  1.06  
5  1  3  100.00  138945     ?     ?  
6  2  3  100.00    1045  0.94  1.06  
#
loop_
_pdbx_vrpt_percentile_entity_view.ordinal
_pdbx_vrpt_percentile_entity_view.conditions_id
_pdbx_vrpt_percentile_entity_view.type_id
_pdbx_vrpt_percentile_entity_view.label_asym_id
_pdbx_vrpt_percentile_entity_view.PDB_model_num
_pdbx_vrpt_percentile_entity_view.entity_id
_pdbx_vrpt_percentile_entity_view.auth_asym_id
_pdbx_vrpt_percentile_entity_view.rank
1  3  2  A  1  1  A  100.00  
2  4  2  A  1  1  A  100.00  
3  5  3  A  1  1  A  100.00  
4  6  3  A  1  1  A  100.00  
#
_pdbx_vrpt_summary_entity_geometry.ordinal          1
_pdbx_vrpt_summary_entity_geometry.PDB_model_num    1
_pdbx_vrpt_summary_entity_geometry.entity_id        1
_pdbx_vrpt_summary_entity_geometry.label_asym_id    A
_pdbx_vrpt_summary_entity_geometry.auth_asym_id     A
_pdbx_vrpt_summary_entity_geometry.angles_RMSZ      0.55
_pdbx_vrpt_summary_entity_geometry.bonds_RMSZ       0.34
_pdbx_vrpt_summary_entity_geometry.num_bonds_RMSZ   53
_pdbx_vrpt_summary_entity_geometry.num_angles_RMSZ  70
#
_pdbx_vrpt_summary_geometry.ordinal                        1
_pdbx_vrpt_summary_geometry.percent_ramachandran_outliers  0.00
_pdbx_vrpt_summary_geometry.percent_rotamer_outliers       0.00
_pdbx_vrpt_summary_geometry.clashscore                     0.00
_pdbx_vrpt_summary_geometry.num_H_reduce                   66
_pdbx_vrpt_summary_geometry.num_bonds_RMSZ                 53
_pdbx_vrpt_summary_geometry.bonds_RMSZ                     0.34
_pdbx_vrpt_summary_geometry.num_angles_RMSZ                70
_pdbx_vrpt_summary_geometry.angles_RMSZ                    0.55
#
_pdbx_vrpt_summary_diffraction.exp_method           x-ray
_pdbx_vrpt_summary_diffraction.ordinal              1
_pdbx_vrpt_summary_diffraction.DCC_R                0.17
_pdbx_vrpt_summary_diffraction.DCC_Rfree            0.18
_pdbx_vrpt_summary_diffraction.B_factor_type        FULL
_pdbx_vrpt_summary_diffraction.PDB_resolution_high  0.99
_pdbx_vrpt_summary_diffraction.PDB_resolution_low   11.47
_pdbx_vrpt_summary_diffraction.PDB_R                0.17
_pdbx_vrpt_summary_diffraction.PDB_Rfree            0.17
#
loop_
_pdbx_vrpt_model_instance.id
_pdbx_vrpt_model_instance.PDB_model_num
_pdbx_vrpt_model_instance.entity_id
_pdbx_vrpt_model_instance.label_asym_id
_pdbx_vrpt_model_instance.label_seq_id
_pdbx_vrpt_model_instance.label_comp_id
_pdbx_vrpt_model_instance.auth_asym_id
_pdbx_vrpt_model_instance.auth_seq_id
_pdbx_vrpt_model_instance.label_alt_id
_pdbx_vrpt_model_instance.PDB_ins_code
 1  1  1  A  1  SER  A    1  .  ?     
 2  1  1  A  2  ILE  A    2  .  ?     
 3  1  1  A  3  ILE  A    3  .  ?     
 4  1  1  A  4  LEU  A    4  .  ?     
 5  1  1  A  5  GLY  A    5  .  ?     
 6  1  1  A  6  ILE  A    6  .  ?     
 7  1  1  A  7  LEU  A    7  .  ?     
 8  1  1  A  8  GLY  A    8  .  ?     
 9  1  2  B  .  HOH  A  101  .  ?     
10  1  2  B  .  HOH  A  102  .  ?     
#
loop_
_pdbx_vrpt_model_instance_geometry.ordinal
_pdbx_vrpt_model_instance_geometry.instance_id
_pdbx_vrpt_model_instance_geometry.rotamer_class
_pdbx_vrpt_model_instance_geometry.phi
_pdbx_vrpt_model_instance_geometry.psi
_pdbx_vrpt_model_instance_geometry.ramachandran_class
_pdbx_vrpt_model_instance_geometry.num_H_reduce
_pdbx_vrpt_model_instance_geometry.num_bonds_RMSZ
_pdbx_vrpt_model_instance_geometry.bonds_RMSZ
_pdbx_vrpt_model_instance_geometry.num_angles_RMSZ
_pdbx_vrpt_model_instance_geometry.angles_RMSZ
_pdbx_vrpt_model_instance_geometry.program_for_bond_angle_geometry
1  1  t          ?      ?  ?         5  6  0.33   8  0.42  molprobity  
2  2  mm     -62.8  -37.6  Favored  11  8  0.33  11  0.43  molprobity  
3  3  mt     -67.2  -45.5  Favored  11  8  0.33  11  0.33  molprobity  
4  4  mt     -80.0  -27.2  Favored  11  8  0.30  11  0.71  molprobity  
5  5  ?       76.6   16.5  Favored   3  4  0.14   5  0.78  molprobity  
6  6  tt    -154.0  163.0  Allowed  11  8  0.41  11  0.57  molprobity  
7  7  mt      56.8   31.2  Favored  11  8  0.33  11  0.58  molprobity  
8  8  ?          ?      ?  ?         3  3  0.47   2  0.61  molprobity  
#
loop_
_pdbx_vrpt_software.ordinal
_pdbx_vrpt_software.name
_pdbx_vrpt_software.version
_pdbx_vrpt_software.success_y_or_n
1  molprobity   4.02b-467                                                             Y  
2  dcc          '"2.27  (2023-04-10)"'                                                Y  
3  xtriage      1.13                                                                  N  
4  percentiles  "20191225.v01 (using entries in the PDB archive December 25th 2019)"  Y  
##
