data_7TM2

_audit_conform.dict_name      mmcif_pdbx_vrpt.dic
_audit_conform.dict_version   0.066
_audit_conform.dict_location  https://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx_vrpt.dic
#
_pdbx_vrpt_database.id    PDB
_pdbx_vrpt_database.code  7TM2
#
_pdbx_vrpt_exptl.ordinal  1
_pdbx_vrpt_exptl.method   x-ray
#
_pdbx_vrpt_summary.entry_id                    7TM2
_pdbx_vrpt_summary.PDB_deposition_date         2022-01-19
_pdbx_vrpt_summary.PDB_revision_number         5
_pdbx_vrpt_summary.PDB_revision_date           2024-09-25
_pdbx_vrpt_summary.report_creation_date        2024-09-17:14:14
_pdbx_vrpt_summary.attempted_validation_steps  molprobity,validation-pack,xtriage,eds,mogul,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      "bipyridyl-conjugated helical peptide"  
2  non-polymer  tert-butylbenzene  
3  water        water  
#
loop_
_pdbx_vrpt_asym.label_asym_id
_pdbx_vrpt_asym.entity_id
A  1  
B  2  
C  2  
D  2  
E  3  
#
loop_
_pdbx_vrpt_percentile_list.id
_pdbx_vrpt_percentile_list.range
_pdbx_vrpt_percentile_list.exp_method
1  all   x-ray  
2  0.88  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         
5  R_value_R_free                
#
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  180529     ?     ?  
 2  2  1   99.86    1400  0.76  1.00  
 3  1  2  100.00  177936     ?     ?  
 4  2  2  100.00    1322  0.76  1.00  
 5  1  3  100.00  177891     ?     ?  
 6  2  3  100.00    1323  0.76  1.00  
 7  1  4  100.00  164620     ?     ?  
 8  2  4  100.00    1259  0.76  1.00  
 9  1  5   99.95  164625     ?     ?  
10  2  5   95.99    1262  0.76  1.00  
#
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      0.59
_pdbx_vrpt_summary_entity_geometry.bonds_RMSZ       0.36
_pdbx_vrpt_summary_entity_geometry.num_bonds_RMSZ   44
_pdbx_vrpt_summary_entity_geometry.num_angles_RMSZ  57
#
_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                   84
_pdbx_vrpt_summary_geometry.num_bonds_RMSZ                 44
_pdbx_vrpt_summary_geometry.bonds_RMSZ                     0.36
_pdbx_vrpt_summary_geometry.num_angles_RMSZ                57
_pdbx_vrpt_summary_geometry.angles_RMSZ                    0.59
#
_pdbx_vrpt_summary_diffraction.exp_method                x-ray
_pdbx_vrpt_summary_diffraction.ordinal                   1
_pdbx_vrpt_summary_diffraction.bulk_solvent_b            67.181
_pdbx_vrpt_summary_diffraction.Wilson_B_estimate         4.647
_pdbx_vrpt_summary_diffraction.I_over_sigma              -0.71(0.83A)
_pdbx_vrpt_summary_diffraction.num_miller_indices        8694
_pdbx_vrpt_summary_diffraction.bulk_solvent_k            0.287
_pdbx_vrpt_summary_diffraction.Padilla_Yeates_L_mean     0.483
_pdbx_vrpt_summary_diffraction.Padilla_Yeates_L2_mean    0.317
_pdbx_vrpt_summary_diffraction.Fo_Fc_correlation         0.991
_pdbx_vrpt_summary_diffraction.DCC_R                     0.0987
_pdbx_vrpt_summary_diffraction.DCC_Rfree                 0.1058
_pdbx_vrpt_summary_diffraction.EDS_R                     0.0994
_pdbx_vrpt_summary_diffraction.EDS_res_high              0.88
_pdbx_vrpt_summary_diffraction.EDS_res_low               12.84
_pdbx_vrpt_summary_diffraction.Wilson_B_aniso            "[4.923,5.510,3.711,0.000,0.240,0.000]"
_pdbx_vrpt_summary_diffraction.data_anisotropy           0.382
_pdbx_vrpt_summary_diffraction.trans_NCS_details         "The analyses of the Patterson function reveals a significant off-origin peak that is 35.00 % 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 6.2443e-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         3
_pdbx_vrpt_summary_diffraction.centric_outliers          0
_pdbx_vrpt_summary_diffraction.data_completeness         91.05
_pdbx_vrpt_summary_diffraction.number_reflns_R_free      7247
_pdbx_vrpt_summary_diffraction.percent_free_reflections  10.02
_pdbx_vrpt_summary_diffraction.percent_RSRZ_outliers     0.00
_pdbx_vrpt_summary_diffraction.PDB_resolution_high       0.88
_pdbx_vrpt_summary_diffraction.PDB_resolution_low        12.84
_pdbx_vrpt_summary_diffraction.PDB_R                     0.10
_pdbx_vrpt_summary_diffraction.PDB_Rfree                 0.11
_pdbx_vrpt_summary_diffraction.density_fitness_version   1.0.11
_pdbx_vrpt_summary_diffraction.CCP4_version              "9.0.002 (Gargrove)"
#
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_mogul_torsion_outliers
 1  1  1  A   1  I6W  A    1  .  ?        ?  
 2  1  1  A   2  LEU  A    2  .  ?        ?  
 3  1  1  A   3  AIB  A    3  .  ?        ?  
 4  1  1  A   4  ALA  A    4  .  ?        ?  
 5  1  1  A   5  AIB  A    5  .  ?        ?  
 6  1  1  A   6  LEU  A    6  .  ?        ?  
 7  1  1  A   7  AIB  A    7  .  ?        2  
 8  1  1  A   8  GLN  A    8  .  ?        ?  
 9  1  1  A   9  AIB  A    9  .  ?        ?  
10  1  1  A  10  LEU  A   10  A  ?        ?  
11  1  1  A  10  LEU  A   10  B  ?        ?  
12  1  1  A  11  I77  A   11  .  ?        ?  
13  1  2  B   .  I7E  A  201  .  ?        ?  
14  1  2  C   .  I7E  A  202  .  ?        ?  
15  1  2  D   .  I7E  A  203  A  ?        6  
16  1  2  D   .  I7E  A  203  B  ?        ?  
17  1  3  E   .  HOH  A  301  .  ?        ?  
#
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  ?         ?      ?  ?           ?  7.710     ?     ?     ?     ?  ?           1.000  
 2   2  tp        ?      ?  ?          10  8.190     7  0.50     8  0.76  molprobity  1.000  
 3   3  ?         ?      ?  ?           7  6.630     1  1.09     0     ?  mogul       1.000  
 4   4  ?     -59.9  -43.9  Favored     5  5.060     4  0.53     4  0.28  molprobity  1.000  
 5   5  ?         ?      ?  ?           7  5.210     1  1.20     0     ?  mogul       1.000  
 6   6  mt    -86.5  -41.5  Favored    11  6.630     7  0.31     8  0.35  molprobity  1.000  
 7   7  ?         ?      ?  ?           7  6.510     1  1.24     0     ?  mogul       1.000  
 8   8  pt20  -55.1  -24.0  Favored     8  4.640     8  0.29     9  0.47  molprobity  1.000  
 9   9  ?         ?      ?  ?           7  4.970     1  1.15     0     ?  mogul       1.000  
10  10  mt        ?      ?  ?          11  3.340     7  0.33     8  0.69  molprobity  0.500  
11  11  mt        ?      ?  ?          11  3.340     7  0.33     8  0.69  molprobity  0.500  
12  12  ?         ?      ?  ?           ?  5.320     ?     ?     ?     ?  ?           1.000  
13  13  ?         ?      ?  ?           ?  6.170    10  0.27    14  0.42  mogul       1.000  
14  14  ?         ?      ?  ?           ?  7.910    10  0.26    14  0.47  mogul       1.000  
15  15  ?         ?      ?  ?           ?  3.910    10  0.13    14  0.75  mogul       0.500  
16  16  ?         ?      ?  ?           ?  3.910    10  0.36    14  0.42  mogul       0.500  
17  17  ?         ?      ?  ?           ?  5.840     ?     ?     ?     ?  ?           1.000  
#
loop_
_pdbx_vrpt_instance_mogul_torsion_outliers.ordinal
_pdbx_vrpt_instance_mogul_torsion_outliers.instance_id
_pdbx_vrpt_instance_mogul_torsion_outliers.atom_1
_pdbx_vrpt_instance_mogul_torsion_outliers.atom_2
_pdbx_vrpt_instance_mogul_torsion_outliers.atom_3
_pdbx_vrpt_instance_mogul_torsion_outliers.atom_4
_pdbx_vrpt_instance_mogul_torsion_outliers.obsval
_pdbx_vrpt_instance_mogul_torsion_outliers.mean
_pdbx_vrpt_instance_mogul_torsion_outliers.numobs
_pdbx_vrpt_instance_mogul_torsion_outliers.stdev
_pdbx_vrpt_instance_mogul_torsion_outliers.mindiff
_pdbx_vrpt_instance_mogul_torsion_outliers.local_density
1   7  O    C    CA   CB1    34.24  54.18     50  30.18  2.95  4.00  
2   7  O    C    CA   CB2   -83.24  45.88     50  24.07  4.30  4.00  
3  15  C01  C02  C05  C06    30.28  66.50  40560  45.17  0.00  4.36  
4  15  C01  C02  C05  C10  -151.14  67.42  40560  45.18  0.00  4.36  
5  15  C03  C02  C05  C06   148.64  65.77  40560  44.30  0.01  4.46  
6  15  C03  C02  C05  C10   -32.79  64.82  40560  44.35  0.01  4.40  
7  15  C04  C02  C05  C06   -87.67  47.01  40560  25.87  0.02  4.01  
8  15  C04  C02  C05  C10    90.91  47.02  40560  25.73  0.03  4.01  
#
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
_pdbx_vrpt_model_instance_density.EDIAm
_pdbx_vrpt_model_instance_density.OPIA
 1   1  30  0.981  0.043       ?  0.849   76.470  
 2   2  19  0.989  0.035  -0.749  0.829   50.000  
 3   3  13  0.996  0.021       ?  0.869   66.670  
 4   4  10  0.998  0.015  -1.294  0.849   60.000  
 5   5  13  0.997  0.020       ?  0.868   66.670  
 6   6  19  0.996  0.020  -1.387  0.897   87.500  
 7   7  13  0.995  0.024       ?  0.842   66.670  
 8   8  17  0.997  0.016  -1.278  0.852   77.780  
 9   9  13  0.996  0.022       ?  0.838   66.670  
10  10  38  0.990  0.029  -1.004  0.700   71.140  
11  11  38  0.990  0.029  -1.004  0.700   71.140  
12  12  28  0.989  0.032       ?  0.836   68.420  
13  13  24  0.995  0.022       ?      ?        ?  
14  14  24  0.985  0.039       ?      ?        ?  
15  15  48  0.959  0.061       ?      ?        ?  
16  16  48  0.959  0.061       ?      ?        ?  
17  17   1  0.998  0.014       ?  0.945  100.000  
#
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  mogul        "2022.3.0, CSD as543be (2022)"                                        Y  
3  eds          3.0                                                                   Y  
4  dcc          '"2.27  (2023-04-10)"'                                                Y  
5  xtriage      1.20.1                                                                Y  
6  percentiles  "20231227.v01 (using entries in the PDB archive December 27th 2023)"  Y  
##
