data_1VT5

loop_
_pdbx_vrpt_database.id
_pdbx_vrpt_database.code
PDB  1VT5    
NDB  ADH012  
#
_pdbx_vrpt_exptl.ordinal  1
_pdbx_vrpt_exptl.method   x-ray
#
_pdbx_vrpt_summary.entry_id                    1VT5
_pdbx_vrpt_summary.PDB_deposition_date         1988-08-18
_pdbx_vrpt_summary.PDB_revision_number         2
_pdbx_vrpt_summary.PDB_revision_date           2023-12-27
_pdbx_vrpt_summary.report_creation_date        2024-06-12:01:05
_pdbx_vrpt_summary.attempted_validation_steps  molprobity,validation-pack,percentiles,writexml,writecif,writepdf
_pdbx_vrpt_summary.ligands_for_buster_report   N
#
_pdbx_vrpt_entity.id           1
_pdbx_vrpt_entity.type         polymer
_pdbx_vrpt_entity.description  "DNA (5'-D(*CP*CP*CP*CP*GP*GP*GP*G)-3')"
#
_pdbx_vrpt_asym.label_asym_id  A
_pdbx_vrpt_asym.entity_id      1
#
loop_
_pdbx_vrpt_percentile_list.id
_pdbx_vrpt_percentile_list.range
_pdbx_vrpt_percentile_list.exp_method
1  all   x-ray  
2  2.25  x-ray  
#
_pdbx_vrpt_percentile_type.id    1
_pdbx_vrpt_percentile_type.type  all_atom_clashscore
#
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  35.94  141614     ?     ?  
2  2  1  37.32    1487  2.26  2.26  
#
_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      1.54
_pdbx_vrpt_summary_entity_geometry.bonds_RMSZ       0.78
_pdbx_vrpt_summary_entity_geometry.num_bonds_RMSZ   180
_pdbx_vrpt_summary_entity_geometry.num_angles_RMSZ  276
#
_pdbx_vrpt_summary_geometry.ordinal          1
_pdbx_vrpt_summary_geometry.clashscore       7.97
_pdbx_vrpt_summary_geometry.num_H_reduce     90
_pdbx_vrpt_summary_geometry.num_bonds_RMSZ   180
_pdbx_vrpt_summary_geometry.bonds_RMSZ       0.78
_pdbx_vrpt_summary_geometry.num_angles_RMSZ  276
_pdbx_vrpt_summary_geometry.angles_RMSZ      1.54
#
_pdbx_vrpt_summary_diffraction.exp_method           x-ray
_pdbx_vrpt_summary_diffraction.ordinal              1
_pdbx_vrpt_summary_diffraction.PDB_resolution_high  2.25
_pdbx_vrpt_summary_diffraction.PDB_resolution_low   8.00
_pdbx_vrpt_summary_diffraction.PDB_R                0.24
#
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
_pdbx_vrpt_model_instance.count_angle_outliers
_pdbx_vrpt_model_instance.count_clashes
1  1  1  A  1  DC  A  1  .  ?        ?     1  
2  1  1  A  2  DC  A  2  .  ?        ?     1  
3  1  1  A  3  DC  A  3  .  ?        ?     ?  
4  1  1  A  4  DC  A  4  .  ?        1     ?  
5  1  1  A  5  DG  A  5  .  ?        ?     ?  
6  1  1  A  6  DG  A  6  .  ?        ?     ?  
7  1  1  A  7  DG  A  7  .  ?        ?     1  
8  1  1  A  8  DG  A  8  .  ?        ?     1  
#
loop_
_pdbx_vrpt_model_instance_geometry.ordinal
_pdbx_vrpt_model_instance_geometry.instance_id
_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  12  18  0.61  28  0.89  molprobity  
2  2  11  21  0.87  32  1.56  molprobity  
3  3  11  21  0.80  32  1.80  molprobity  
4  4  11  21  0.85  32  1.74  molprobity  
5  5  11  25  0.87  39  1.62  molprobity  
6  6  11  25  0.74  39  1.70  molprobity  
7  7  11  25  0.77  39  1.67  molprobity  
8  8  12  24  0.71  35  0.91  molprobity  
#
loop_
_pdbx_vrpt_instance_clashes.ordinal
_pdbx_vrpt_instance_clashes.instance_id
_pdbx_vrpt_instance_clashes.label_atom_id
_pdbx_vrpt_instance_clashes.cid
_pdbx_vrpt_instance_clashes.clashmag
_pdbx_vrpt_instance_clashes.dist
1  1  "H2'"   1  0.48  2.49  
2  2  C6      1  0.48  2.49  
3  7  "H2''"  2  0.43  2.01  
4  8  "H5'"   2  0.43  2.01  
#
_pdbx_vrpt_instance_intra_angle_outliers.ordinal      1
_pdbx_vrpt_instance_intra_angle_outliers.instance_id  4
_pdbx_vrpt_instance_intra_angle_outliers.atom_1       P
_pdbx_vrpt_instance_intra_angle_outliers.atom_2       "O3'"
_pdbx_vrpt_instance_intra_angle_outliers.atom_3       "C3'"
_pdbx_vrpt_instance_intra_angle_outliers.obs          112.005
_pdbx_vrpt_instance_intra_angle_outliers.mean         119.700
_pdbx_vrpt_instance_intra_angle_outliers.stdev        1.200
_pdbx_vrpt_instance_intra_angle_outliers.Z            -6.41
_pdbx_vrpt_instance_intra_angle_outliers.link         Y
#
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  percentiles  "20191225.v01 (using entries in the PDB archive December 25th 2019)"  N  
##
