data_5AWL

_pdbx_vrpt_database.id    PDB
_pdbx_vrpt_database.code  5AWL
#
_pdbx_vrpt_exptl.ordinal  1
_pdbx_vrpt_exptl.method   x-ray
#
_pdbx_vrpt_summary.entry_id                    5AWL
_pdbx_vrpt_summary.PDB_deposition_date         2015-07-05
_pdbx_vrpt_summary.PDB_revision_number         3
_pdbx_vrpt_summary.PDB_revision_date           2024-03-20
_pdbx_vrpt_summary.report_creation_date        2024-03-13:06:34
_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  "A mutant of Chignolin, CLN025"  
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  1.11  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      
4  RSRZ_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   99.92    1205  1.10  1.14  
3  1  2  100.00  138981     ?     ?  
4  2  2  100.00    1168  1.10  1.14  
5  1  3  100.00  138945     ?     ?  
6  2  3  100.00    1165  1.10  1.14  
7  1  4  100.00  127900     ?     ?  
8  2  4  100.00    1146  1.10  1.14  
#
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  
5  7  4  A  1  1  A  100.00  
6  8  4  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      1.51
_pdbx_vrpt_summary_entity_geometry.bonds_RMSZ       0.87
_pdbx_vrpt_summary_entity_geometry.num_bonds_RMSZ   98
_pdbx_vrpt_summary_entity_geometry.num_angles_RMSZ  134
#
_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                   73
_pdbx_vrpt_summary_geometry.num_bonds_RMSZ                 98
_pdbx_vrpt_summary_geometry.bonds_RMSZ                     0.87
_pdbx_vrpt_summary_geometry.num_angles_RMSZ                134
_pdbx_vrpt_summary_geometry.angles_RMSZ                    1.51
#
_pdbx_vrpt_summary_diffraction.exp_method                x-ray
_pdbx_vrpt_summary_diffraction.ordinal                   1
_pdbx_vrpt_summary_diffraction.Babinet_b                 106.656
_pdbx_vrpt_summary_diffraction.bulk_solvent_b            28.615
_pdbx_vrpt_summary_diffraction.Wilson_B_estimate         7.983
_pdbx_vrpt_summary_diffraction.I_over_sigma              2.38(1.11A)
_pdbx_vrpt_summary_diffraction.num_miller_indices        3087
_pdbx_vrpt_summary_diffraction.Babinet_k                 0.146
_pdbx_vrpt_summary_diffraction.bulk_solvent_k            0.166
_pdbx_vrpt_summary_diffraction.Padilla_Yeates_L_mean     0.492
_pdbx_vrpt_summary_diffraction.Padilla_Yeates_L2_mean    0.330
_pdbx_vrpt_summary_diffraction.Fo_Fc_correlation         0.987
_pdbx_vrpt_summary_diffraction.DCC_R                     0.09
_pdbx_vrpt_summary_diffraction.EDS_R                     0.11
_pdbx_vrpt_summary_diffraction.EDS_res_high              1.11
_pdbx_vrpt_summary_diffraction.EDS_res_low               16.80
_pdbx_vrpt_summary_diffraction.Wilson_B_aniso            "[7.811,7.483,8.584,0.000,0.000,0.000]"
_pdbx_vrpt_summary_diffraction.data_anisotropy           0.138
_pdbx_vrpt_summary_diffraction.trans_NCS_details         "The analyses of the Patterson function reveals a significant off-origin peak that is 32.23 % of the origin peak, indicating pseudo-translational symmetry.  The chance of finding a peak of this or larger height by random in a structure without pseudo-translational symmetry is equal to 9.7255e-04. The detected translational NCS is most likely also responsible for the elevated intensity ratio.  See the relevant section of the logfile for more details."
_pdbx_vrpt_summary_diffraction.B_factor_type             FULL
_pdbx_vrpt_summary_diffraction.acentric_outliers         0
_pdbx_vrpt_summary_diffraction.centric_outliers          0
_pdbx_vrpt_summary_diffraction.data_completeness         95.09
_pdbx_vrpt_summary_diffraction.number_reflns_R_free      0
_pdbx_vrpt_summary_diffraction.percent_free_reflections  0.00
_pdbx_vrpt_summary_diffraction.percent_RSRZ_outliers     0.00
_pdbx_vrpt_summary_diffraction.PDB_resolution_high       1.11
_pdbx_vrpt_summary_diffraction.PDB_resolution_low        16.80
_pdbx_vrpt_summary_diffraction.PDB_R                     0.09
_pdbx_vrpt_summary_diffraction.PDB_Rfree                 0.12
#
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
 1  1  1  A   1  TYR  A    1  .  ?        2  
 2  1  1  A   2  TYR  A    2  .  ?        ?  
 3  1  1  A   3  ASP  A    3  .  ?        ?  
 4  1  1  A   4  PRO  A    4  .  ?        ?  
 5  1  1  A   5  GLU  A    5  .  ?        ?  
 6  1  1  A   6  THR  A    6  .  ?        ?  
 7  1  1  A   7  GLY  A    7  .  ?        ?  
 8  1  1  A   8  THR  A    8  .  ?        ?  
 9  1  1  A   9  TRP  A    9  .  ?        ?  
10  1  1  A  10  TYR  A   10  .  ?        ?  
11  1  2  B   .  HOH  A  101  .  ?        ?  
12  1  2  B   .  HOH  A  102  .  ?        ?  
13  1  2  B   .  HOH  A  103  .  ?        ?  
14  1  2  B   .  HOH  A  104  .  ?        ?  
15  1  2  B   .  HOH  A  105  .  ?        ?  
16  1  2  B   .  HOH  A  106  .  ?        ?  
17  1  2  B   .  HOH  A  107  .  ?        ?  
18  1  2  B   .  HOH  A  108  .  ?        ?  
19  1  2  B   .  HOH  A  109  .  ?        ?  
20  1  2  B   .  HOH  A  110  .  ?        ?  
21  1  2  B   .  HOH  A  111  .  ?        ?  
22  1  2  B   .  HOH  A  112  .  ?        ?  
#
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.OWAB
_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
_pdbx_vrpt_model_instance_geometry.average_occupancy
 1   1  m-85          ?      ?  ?          11  13.150    13  0.88    18  2.68  molprobity  1.000  
 2   2  m-85      -93.3  138.4  Favored     9   7.080    13  0.86    18  1.12  molprobity  1.000  
 3   3  t70       -75.6  133.6  Favored     4   6.170     8  1.10    12  1.87  molprobity  1.000  
 4   4  Cg_endo   -71.8  -20.9  Favored     7   7.840     8  0.48    11  0.63  molprobity  1.000  
 5   5  mm-40     -91.9  -40.8  Favored     6  15.320     9  0.83    12  0.66  molprobity  1.000  
 6   6  p        -106.3  -17.1  Favored     7   9.850     7  0.37    10  1.28  molprobity  1.000  
 7   7  ?          70.4   17.0  Favored     3   7.120     4  1.08     5  1.40  molprobity  1.000  
 8   8  p        -104.0  153.3  Favored     7   7.730     7  1.16    10  0.79  molprobity  1.000  
 9   9  t-105     -80.6  133.2  Favored    10   8.010    16  0.73    23  0.75  molprobity  1.000  
10  10  p90           ?      ?  ?           9   6.950    13  1.01    15  1.94  molprobity  1.000  
11  11  ?             ?      ?  ?           ?  33.460     ?     ?     ?     ?  ?           1.000  
12  12  ?             ?      ?  ?           ?  34.870     ?     ?     ?     ?  ?           1.000  
13  13  ?             ?      ?  ?           ?  10.240     ?     ?     ?     ?  ?           1.000  
14  14  ?             ?      ?  ?           ?  25.640     ?     ?     ?     ?  ?           1.000  
15  15  ?             ?      ?  ?           ?  21.960     ?     ?     ?     ?  ?           0.500  
16  16  ?             ?      ?  ?           ?  14.090     ?     ?     ?     ?  ?           1.000  
17  17  ?             ?      ?  ?           ?  33.070     ?     ?     ?     ?  ?           1.000  
18  18  ?             ?      ?  ?           ?  18.180     ?     ?     ?     ?  ?           1.000  
19  19  ?             ?      ?  ?           ?  68.490     ?     ?     ?     ?  ?           1.000  
20  20  ?             ?      ?  ?           ?  17.730     ?     ?     ?     ?  ?           1.000  
21  21  ?             ?      ?  ?           ?  24.450     ?     ?     ?     ?  ?           0.500  
22  22  ?             ?      ?  ?           ?  64.330     ?     ?     ?     ?  ?           0.500  
#
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  CB  CG  CD1  124.434  121.000  0.600   5.72  
2  1  CB  CG  CD2  117.269  121.000  0.600  -6.22  
#
loop_
_pdbx_vrpt_model_instance_density.ordinal
_pdbx_vrpt_model_instance_density.instance_id
_pdbx_vrpt_model_instance_density.natoms_eds
_pdbx_vrpt_model_instance_density.RSRCC
_pdbx_vrpt_model_instance_density.RSR
_pdbx_vrpt_model_instance_density.RSRZ
 1   1  12  0.972  0.071   0.122  
 2   2  12  0.985  0.049  -0.602  
 3   3   8  0.987  0.048  -0.638  
 4   4   7  0.989  0.046  -0.653  
 5   5   9  0.972  0.075  -0.350  
 6   6   7  0.987  0.052  -0.468  
 7   7   4  0.988  0.053  -0.342  
 8   8   7  0.991  0.043  -0.721  
 9   9  14  0.987  0.048  -0.691  
10  10  13  0.986  0.052  -0.503  
11  11   1  0.901  0.150       ?  
12  12   1  0.783  0.221       ?  
13  13   1  0.996  0.082       ?  
14  14   1  0.969  0.139       ?  
15  15   1  0.987  0.226       ?  
16  16   1  0.997  0.023       ?  
17  17   1  0.927  0.374       ?  
18  18   1  0.982  0.049       ?  
19  19   1  0.724  0.772       ?  
20  20   1  0.982  0.080       ?  
21  21   1  0.953  0.197       ?  
22  22   1  0.485  0.478       ?  
#
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  eds          2.36                                                                  Y  
3  dcc          '"2.27  (2023-04-10)"'                                                Y  
4  xtriage      1.13                                                                  Y  
5  percentiles  "20191225.v01 (using entries in the PDB archive December 25th 2019)"  Y  
##
