data_1BDZ

_pdbx_vrpt_database.id    PDB
_pdbx_vrpt_database.code  1BDZ
#
_pdbx_vrpt_exptl.ordinal  1
_pdbx_vrpt_exptl.method   nmr
#
_pdbx_vrpt_summary.entry_id                    1BDZ
_pdbx_vrpt_summary.PDB_deposition_date         1998-05-12
_pdbx_vrpt_summary.PDB_revision_number         4
_pdbx_vrpt_summary.PDB_revision_date           2022-02-16
_pdbx_vrpt_summary.report_creation_date        2022-08-21:10:57
_pdbx_vrpt_summary.attempted_validation_steps  molprobity,validation-pack,coreclust,chemicalshifts,percentiles,writepdf,writexml,writecif
_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(*AP*CP*AP*AP*CP*TP*GP*CP*AP*GP*TP*TP*GP*T)-3')"
#
loop_
_pdbx_vrpt_asym.label_asym_id
_pdbx_vrpt_asym.entity_id
A  1  
B  1  
#
loop_
_pdbx_vrpt_summary_entity_geometry.ordinal
_pdbx_vrpt_summary_entity_geometry.PDB_model_num
_pdbx_vrpt_summary_entity_geometry.entity_id
_pdbx_vrpt_summary_entity_geometry.label_asym_id
_pdbx_vrpt_summary_entity_geometry.auth_asym_id
_pdbx_vrpt_summary_entity_geometry.angles_RMSZ
_pdbx_vrpt_summary_entity_geometry.bonds_RMSZ
_pdbx_vrpt_summary_entity_geometry.num_bonds_RMSZ
_pdbx_vrpt_summary_entity_geometry.num_angles_RMSZ
1  1  1  A  A  2.46  1.59  318  489  
2  1  1  B  B  2.46  1.58  318  489  
#
_pdbx_vrpt_summary_geometry.ordinal                 1
_pdbx_vrpt_summary_geometry.clashscore_full_length  0.00
_pdbx_vrpt_summary_geometry.num_H_reduce            320
_pdbx_vrpt_summary_geometry.num_bonds_RMSZ          636
_pdbx_vrpt_summary_geometry.bonds_RMSZ              1.59
_pdbx_vrpt_summary_geometry.num_angles_RMSZ         978
_pdbx_vrpt_summary_geometry.angles_RMSZ             2.46
#
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_bond_outliers
_pdbx_vrpt_model_instance.count_angle_outliers
_pdbx_vrpt_model_instance.count_plane_outliers
 1  1  1  A   1  DA  A   1  .  ?        ?  3     ?  
 2  1  1  A   2  DC  A   2  .  ?        ?  1     ?  
 3  1  1  A   3  DA  A   3  .  ?        ?  4     ?  
 4  1  1  A   4  DA  A   4  .  ?        ?  3     ?  
 5  1  1  A   5  DC  A   5  .  ?        ?  1     ?  
 6  1  1  A   6  DT  A   6  .  ?        1  2     ?  
 7  1  1  A   7  DG  A   7  .  ?        ?  3     1  
 8  1  1  A   8  DC  A   8  .  ?        ?  1     ?  
 9  1  1  A   9  DA  A   9  .  ?        ?  3     ?  
10  1  1  A  10  DG  A  10  .  ?        ?  1     ?  
11  1  1  A  11  DT  A  11  .  ?        1  2     1  
12  1  1  A  12  DT  A  12  .  ?        1  2     ?  
13  1  1  A  13  DG  A  13  .  ?        ?  2     ?  
14  1  1  A  14  DT  A  14  .  ?        1  2     ?  
15  1  1  B   1  DA  B   1  .  ?        ?  3     1  
16  1  1  B   2  DC  B   2  .  ?        ?  1     ?  
17  1  1  B   3  DA  B   3  .  ?        ?  4     ?  
18  1  1  B   4  DA  B   4  .  ?        ?  3     ?  
19  1  1  B   5  DC  B   5  .  ?        ?  1     ?  
20  1  1  B   6  DT  B   6  .  ?        1  2     ?  
21  1  1  B   7  DG  B   7  .  ?        ?  3     1  
22  1  1  B   8  DC  B   8  .  ?        ?  1     ?  
23  1  1  B   9  DA  B   9  .  ?        ?  3     ?  
24  1  1  B  10  DG  B  10  .  ?        ?  1     ?  
25  1  1  B  11  DT  B  11  .  ?        1  2     ?  
26  1  1  B  12  DT  B  12  .  ?        1  2     ?  
27  1  1  B  13  DG  B  13  .  ?        ?  2     ?  
28  1  1  B  14  DT  B  14  .  ?        1  2     ?  
#
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  21  1.45  33  2.52  molprobity  
 2   2  11  21  1.51  32  2.32  molprobity  
 3   3  11  24  1.49  37  2.88  molprobity  
 4   4  11  24  1.40  37  2.67  molprobity  
 5   5  11  21  1.54  32  2.18  molprobity  
 6   6  12  22  1.84  34  2.51  molprobity  
 7   7  11  25  1.49  39  2.43  molprobity  
 8   8  11  21  1.52  32  2.17  molprobity  
 9   9  11  24  1.40  37  2.58  molprobity  
10  10  11  25  1.47  39  2.31  molprobity  
11  11  12  22  1.86  34  2.43  molprobity  
12  12  12  22  1.91  34  2.50  molprobity  
13  13  11  25  1.45  39  2.34  molprobity  
14  14  13  21  1.87  30  2.47  molprobity  
15  15  12  21  1.42  33  2.60  molprobity  
16  16  11  21  1.52  32  2.25  molprobity  
17  17  11  24  1.49  37  2.87  molprobity  
18  18  11  24  1.40  37  2.63  molprobity  
19  19  11  21  1.53  32  2.24  molprobity  
20  20  12  22  1.84  34  2.55  molprobity  
21  21  11  25  1.50  39  2.42  molprobity  
22  22  11  21  1.50  32  2.16  molprobity  
23  23  11  24  1.41  37  2.56  molprobity  
24  24  11  25  1.45  39  2.28  molprobity  
25  25  12  22  1.86  34  2.40  molprobity  
26  26  12  22  1.87  34  2.49  molprobity  
27  27  11  25  1.44  39  2.33  molprobity  
28  28  13  21  1.87  30  2.45  molprobity  
#
loop_
_pdbx_vrpt_instance_intra_plane_outliers.ordinal
_pdbx_vrpt_instance_intra_plane_outliers.instance_id
_pdbx_vrpt_instance_intra_plane_outliers.type
_pdbx_vrpt_instance_intra_plane_outliers.plane_rmsd
1   7  sidechain  0.07  
2  11  sidechain  0.06  
3  15  sidechain  0.05  
4  21  sidechain  0.08  
#
loop_
_pdbx_vrpt_instance_intra_bond_outliers.ordinal
_pdbx_vrpt_instance_intra_bond_outliers.instance_id
_pdbx_vrpt_instance_intra_bond_outliers.atom_1
_pdbx_vrpt_instance_intra_bond_outliers.atom_2
_pdbx_vrpt_instance_intra_bond_outliers.obs
_pdbx_vrpt_instance_intra_bond_outliers.mean
_pdbx_vrpt_instance_intra_bond_outliers.stdev
_pdbx_vrpt_instance_intra_bond_outliers.Z
1   6  C5  C7  1.530  1.496  0.006  5.66  
2  11  C5  C7  1.529  1.496  0.006  5.58  
3  12  C5  C7  1.530  1.496  0.006  5.74  
4  14  C5  C7  1.530  1.496  0.006  5.65  
5  20  C5  C7  1.530  1.496  0.006  5.70  
6  25  C5  C7  1.529  1.496  0.006  5.53  
7  26  C5  C7  1.529  1.496  0.006  5.52  
8  28  C5  C7  1.530  1.496  0.006  5.64  
#
loop_
_pdbx_vrpt_instance_intra_angle_outliers.ordinal
_pdbx_vrpt_instance_intra_angle_outliers.instance_id
_pdbx_vrpt_instance_intra_angle_outliers.atom_1
_pdbx_vrpt_instance_intra_angle_outliers.atom_2
_pdbx_vrpt_instance_intra_angle_outliers.atom_3
_pdbx_vrpt_instance_intra_angle_outliers.obs
_pdbx_vrpt_instance_intra_angle_outliers.mean
_pdbx_vrpt_instance_intra_angle_outliers.stdev
_pdbx_vrpt_instance_intra_angle_outliers.Z
 1   1  C4     C5     C6  113.937  117.000  0.500  -6.13  
 2   1  C5     C6     N1  121.144  117.700  0.500   6.89  
 3   1  N1     C6     N6  114.569  118.600  0.600  -6.72  
 4   2  N3     C2     O2  117.430  121.900  0.700  -6.39  
 5   3  C4     C5     C6  113.709  117.000  0.500  -6.58  
 6   3  C5     C6     N1  121.598  117.700  0.500   7.80  
 7   3  N1     C6     N6  114.817  118.600  0.600  -6.30  
 8   3  "O4'"  "C1'"  N9  111.870  108.000  0.700   5.53  
 9   4  C4     C5     C6  113.714  117.000  0.500  -6.57  
10   4  C5     C6     N1  121.399  117.700  0.500   7.40  
11   4  N1     C6     N6  114.338  118.600  0.600  -7.10  
12   5  N3     C2     O2  117.980  121.900  0.700  -5.60  
13   6  C6     C5     C7  118.862  122.900  0.600  -6.73  
14   6  N3     C2     O2  118.532  122.300  0.600  -6.28  
15   7  C5     C6     N1  114.200  111.500  0.500   5.40  
16   7  N1     C6     O6  116.616  119.900  0.600  -5.47  
17   7  "O4'"  "C1'"  N9  112.127  108.000  0.700   5.90  
18   8  N3     C2     O2  117.884  121.900  0.700  -5.74  
19   9  C4     C5     C6  113.788  117.000  0.500  -6.42  
20   9  C5     C6     N1  121.572  117.700  0.500   7.74  
21   9  N1     C6     N6  114.552  118.600  0.600  -6.75  
22  10  C5     C6     N1  114.332  111.500  0.500   5.66  
23  11  C6     C5     C7  119.535  122.900  0.600  -5.61  
24  11  N3     C2     O2  118.375  122.300  0.600  -6.54  
25  12  C6     C5     C7  118.651  122.900  0.600  -7.08  
26  12  N3     C2     O2  118.944  122.300  0.600  -5.59  
27  13  C5     C6     N1  114.070  111.500  0.500   5.14  
28  13  N1     C6     O6  116.880  119.900  0.600  -5.03  
29  14  C6     C5     C7  119.397  122.900  0.600  -5.84  
30  14  N3     C2     O2  118.711  122.300  0.600  -5.98  
31  15  C4     C5     C6  113.837  117.000  0.500  -6.33  
32  15  C5     C6     N1  121.128  117.700  0.500   6.86  
33  15  N1     C6     N6  114.546  118.600  0.600  -6.76  
34  16  N3     C2     O2  117.550  121.900  0.700  -6.21  
35  17  C4     C5     C6  113.738  117.000  0.500  -6.52  
36  17  C5     C6     N1  121.555  117.700  0.500   7.71  
37  17  N1     C6     N6  114.822  118.600  0.600  -6.30  
38  17  "O4'"  "C1'"  N9  111.943  108.000  0.700   5.63  
39  18  C4     C5     C6  113.782  117.000  0.500  -6.44  
40  18  C5     C6     N1  121.351  117.700  0.500   7.30  
41  18  N1     C6     N6  114.427  118.600  0.600  -6.96  
42  19  N3     C2     O2  118.036  121.900  0.700  -5.52  
43  20  C6     C5     C7  118.880  122.900  0.600  -6.70  
44  20  N3     C2     O2  118.554  122.300  0.600  -6.24  
45  21  C5     C6     N1  114.205  111.500  0.500   5.41  
46  21  N1     C6     O6  116.561  119.900  0.600  -5.57  
47  21  "O4'"  "C1'"  N9  112.199  108.000  0.700   6.00  
48  22  N3     C2     O2  117.948  121.900  0.700  -5.64  
49  23  C4     C5     C6  113.770  117.000  0.500  -6.46  
50  23  C5     C6     N1  121.549  117.700  0.500   7.70  
51  23  N1     C6     N6  114.522  118.600  0.600  -6.80  
52  24  C5     C6     N1  114.304  111.500  0.500   5.61  
53  25  C6     C5     C7  119.572  122.900  0.600  -5.55  
54  25  N3     C2     O2  118.462  122.300  0.600  -6.40  
55  26  C6     C5     C7  118.716  122.900  0.600  -6.97  
56  26  N3     C2     O2  118.889  122.300  0.600  -5.68  
57  27  C5     C6     N1  114.089  111.500  0.500   5.18  
58  27  N1     C6     O6  116.882  119.900  0.600  -5.03  
59  28  C6     C5     C7  119.414  122.900  0.600  -5.81  
60  28  N3     C2     O2  118.802  122.300  0.600  -5.83  
#
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  
##
