data_1SHG

_pdbx_vrpt_database.id    PDB
_pdbx_vrpt_database.code  1SHG
#
_pdbx_vrpt_exptl.ordinal  1
_pdbx_vrpt_exptl.method   x-ray
#
_pdbx_vrpt_summary.entry_id                    1SHG
_pdbx_vrpt_summary.PDB_deposition_date         1993-05-19
_pdbx_vrpt_summary.PDB_revision_number         6
_pdbx_vrpt_summary.PDB_revision_date           2024-02-14
_pdbx_vrpt_summary.report_creation_date        2024-06-12:11:00
_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  "ALPHA-SPECTRIN SH3 DOMAIN"
#
_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  1.8  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  22.35  141614     ?     ?  
2  2  1  10.85    6793  1.80  1.80  
3  1  2   8.16  138981     ?     ?  
4  2  2   1.57    6697  1.80  1.80  
5  1  3   8.02  138945     ?     ?  
6  2  3   1.94    6696  1.80  1.80  
#
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  8.16  
2  4  2  A  1  1  A  1.57  
3  5  3  A  1  1  A  8.02  
4  6  3  A  1  1  A  1.94  
#
_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      1.62
_pdbx_vrpt_summary_entity_geometry.bonds_RMSZ       1.08
_pdbx_vrpt_summary_entity_geometry.num_bonds_RMSZ   481
_pdbx_vrpt_summary_entity_geometry.num_angles_RMSZ  648
#
_pdbx_vrpt_summary_geometry.ordinal                        1
_pdbx_vrpt_summary_geometry.percent_ramachandran_outliers  1.82
_pdbx_vrpt_summary_geometry.percent_rotamer_outliers       9.62
_pdbx_vrpt_summary_geometry.clashscore                     11.55
_pdbx_vrpt_summary_geometry.num_H_reduce                   480
_pdbx_vrpt_summary_geometry.num_bonds_RMSZ                 481
_pdbx_vrpt_summary_geometry.bonds_RMSZ                     1.08
_pdbx_vrpt_summary_geometry.num_angles_RMSZ                648
_pdbx_vrpt_summary_geometry.angles_RMSZ                    1.62
#
_pdbx_vrpt_summary_diffraction.exp_method           x-ray
_pdbx_vrpt_summary_diffraction.ordinal              1
_pdbx_vrpt_summary_diffraction.PDB_resolution_high  1.80
_pdbx_vrpt_summary_diffraction.PDB_R                0.20
_pdbx_vrpt_summary_diffraction.PDB_Rfree            0.28
#
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_clashes
 1  1  1  A   6  LYS  A   6  .  ?        ?     ?     2  
 2  1  1  A   7  GLU  A   7  .  ?        1     ?     1  
 3  1  1  A   8  LEU  A   8  .  ?        ?     ?     ?  
 4  1  1  A   9  VAL  A   9  .  ?        ?     ?     1  
 5  1  1  A  10  LEU  A  10  .  ?        ?     ?     ?  
 6  1  1  A  11  ALA  A  11  .  ?        ?     ?     ?  
 7  1  1  A  12  LEU  A  12  .  ?        ?     ?     ?  
 8  1  1  A  13  TYR  A  13  .  ?        ?     ?     ?  
 9  1  1  A  14  ASP  A  14  .  ?        ?     2     1  
10  1  1  A  15  TYR  A  15  .  ?        ?     ?     ?  
11  1  1  A  16  GLN  A  16  .  ?        ?     ?     1  
12  1  1  A  17  GLU  A  17  .  ?        1     ?     ?  
13  1  1  A  18  LYS  A  18  .  ?        ?     ?     ?  
14  1  1  A  19  SER  A  19  .  ?        ?     ?     ?  
15  1  1  A  20  PRO  A  20  .  ?        ?     ?     ?  
16  1  1  A  21  ARG  A  21  .  ?        ?     1     ?  
17  1  1  A  22  GLU  A  22  .  ?        ?     ?     ?  
18  1  1  A  23  VAL  A  23  .  ?        ?     ?     1  
19  1  1  A  24  THR  A  24  .  ?        ?     ?     ?  
20  1  1  A  25  MET  A  25  .  ?        ?     ?     ?  
21  1  1  A  26  LYS  A  26  .  ?        ?     ?     ?  
22  1  1  A  27  LYS  A  27  .  ?        ?     ?     ?  
23  1  1  A  28  GLY  A  28  .  ?        ?     ?     ?  
24  1  1  A  29  ASP  A  29  .  ?        ?     1     ?  
25  1  1  A  30  ILE  A  30  .  ?        ?     ?     ?  
26  1  1  A  31  LEU  A  31  .  ?        ?     ?     2  
27  1  1  A  32  THR  A  32  .  ?        ?     ?     ?  
28  1  1  A  33  LEU  A  33  .  ?        ?     ?     ?  
29  1  1  A  34  LEU  A  34  .  ?        ?     ?     ?  
30  1  1  A  35  ASN  A  35  .  ?        ?     ?     ?  
31  1  1  A  36  SER  A  36  .  ?        ?     ?     ?  
32  1  1  A  37  THR  A  37  .  ?        ?     ?     ?  
33  1  1  A  38  ASN  A  38  .  ?        ?     ?     ?  
34  1  1  A  39  LYS  A  39  .  ?        ?     ?     1  
35  1  1  A  40  ASP  A  40  .  ?        ?     ?     1  
36  1  1  A  41  TRP  A  41  .  ?        ?     ?     ?  
37  1  1  A  42  TRP  A  42  .  ?        ?     ?     ?  
38  1  1  A  43  LYS  A  43  .  ?        ?     ?     ?  
39  1  1  A  44  VAL  A  44  .  ?        ?     ?     1  
40  1  1  A  45  GLU  A  45  .  ?        1     ?     ?  
41  1  1  A  46  VAL  A  46  .  ?        ?     ?     2  
42  1  1  A  47  ASN  A  47  .  ?        ?     ?     1  
43  1  1  A  48  ASP  A  48  .  ?        ?     3     3  
44  1  1  A  49  ARG  A  49  .  ?        ?     2     ?  
45  1  1  A  50  GLN  A  50  .  ?        ?     ?     1  
46  1  1  A  51  GLY  A  51  .  ?        ?     ?     1  
47  1  1  A  52  PHE  A  52  .  ?        ?     ?     ?  
48  1  1  A  53  VAL  A  53  .  ?        ?     ?     ?  
49  1  1  A  54  PRO  A  54  .  ?        ?     ?     ?  
50  1  1  A  55  ALA  A  55  .  ?        ?     ?     ?  
51  1  1  A  56  ALA  A  56  .  ?        ?     ?     ?  
52  1  1  A  57  TYR  A  57  .  ?        ?     ?     ?  
53  1  1  A  58  VAL  A  58  .  ?        ?     ?     ?  
54  1  1  A  59  LYS  A  59  .  ?        ?     ?     ?  
55  1  1  A  60  LYS  A  60  .  ?        ?     ?     2  
56  1  1  A  61  LEU  A  61  .  ?        ?     ?     ?  
57  1  1  A  62  ASP  A  62  .  ?        ?     2     ?  
#
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.flippable_sidechain
_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  OUTLIER       ?       ?  ?           ?  12   9  0.41  11  0.87  molprobity  
 2   2  mt-10     -54.4   139.1  Favored     ?   6   9  2.14  12  1.52  molprobity  
 3   3  mt       -112.2   149.6  Favored     ?  11   8  0.51  11  1.09  molprobity  
 4   4  m        -132.2   157.5  Favored     ?   9   7  1.06  10  1.22  molprobity  
 5   5  tp       -103.7   137.7  Favored     ?  11   8  0.75  11  1.05  molprobity  
 6   6  ?         -74.5   116.5  Favored     ?   5   5  1.02   7  0.80  molprobity  
 7   7  mt        -83.2   -20.9  Favored     ?  11   8  0.51  11  0.86  molprobity  
 8   8  m-85     -145.9   160.4  Favored     ?   9  13  1.13  18  1.36  molprobity  
 9   9  m-20      -65.4   145.5  Favored     ?   4   8  1.32  11  3.26  molprobity  
10  10  t80      -147.2   117.8  Favored     ?   9  13  0.69  18  1.42  molprobity  
11  11  mp0      -101.0   131.3  Favored     1   8   9  1.34  12  1.30  molprobity  
12  12  pt-20     -62.9   146.3  Favored     ?   6   9  2.50  12  1.66  molprobity  
13  13  mttp     -125.7     6.2  Favored     ?  13   9  0.75  11  1.26  molprobity  
14  14  OUTLIER  -154.9   162.2  Favored     ?   5   6  1.04   9  0.96  molprobity  
15  15  Cg_exo    -55.0   -36.6  Favored     ?   7   8  1.19  11  1.58  molprobity  
16  16  ptt180    -91.1     3.4  Favored     ?  13  11  0.81  14  2.13  molprobity  
17  17  mt-10     -92.5   159.3  Favored     ?   6   9  1.65  12  1.79  molprobity  
18  18  m        -123.3   164.0  Favored     ?   9   7  0.79  10  2.10  molprobity  
19  19  m         -99.4   147.5  Favored     ?   7   7  0.85  10  0.92  molprobity  
20  20  ptt?     -144.1   163.8  Favored     ?   9   8  0.65  10  1.40  molprobity  
21  21  OUTLIER  -118.2   146.3  Favored     ?  13   9  0.71  11  1.51  molprobity  
22  22  tttp      -50.3   130.0  Favored     ?  13   9  1.29  11  0.85  molprobity  
23  23  ?          90.3    -9.3  Favored     ?   3   4  0.20   5  0.58  molprobity  
24  24  m-20      -59.0   142.3  Favored     ?   4   8  1.51  11  2.32  molprobity  
25  25  mm       -104.6   114.5  Favored     ?  11   8  0.55  11  1.35  molprobity  
26  26  mt       -110.1   157.7  Favored     ?  11   8  0.75  11  1.94  molprobity  
27  27  m         -96.2   123.3  Favored     ?   7   7  0.87  10  1.16  molprobity  
28  28  tp        -76.8   120.5  Favored     ?  11   8  0.88  11  0.77  molprobity  
29  29  mt        -93.5   -42.0  Favored     ?  11   8  0.58  11  1.36  molprobity  
30  30  t-20     -156.9   126.6  Favored     ?   6   8  1.10  11  0.95  molprobity  
31  31  p        -122.6    28.8  Favored     ?   5   6  0.60   8  0.77  molprobity  
32  32  p         -67.3   -33.7  Favored     ?   7   7  0.56  10  0.67  molprobity  
33  33  t-20      -79.6   134.6  Favored     ?   6   8  0.60  11  0.94  molprobity  
34  34  OUTLIER   -70.5   -21.9  Favored     ?  13   9  1.16  11  1.24  molprobity  
35  35  m-20     -106.4   -30.1  Favored     ?   4   8  1.75  11  0.98  molprobity  
36  36  m95      -126.1   124.8  Favored     ?  10  16  0.88  23  1.32  molprobity  
37  37  m0       -110.0   138.5  Favored     ?  10  16  0.83  23  1.24  molprobity  
38  38  tttt      -91.0   129.2  Favored     ?  13   9  0.77  11  1.30  molprobity  
39  39  m        -134.7   170.9  Favored     ?   9   7  1.17  10  1.90  molprobity  
40  40  tt0      -122.3   125.7  Favored     ?   6   9  1.89  12  1.76  molprobity  
41  41  t        -125.3   107.0  Favored     ?   9   7  0.98  10  2.10  molprobity  
42  42  t-20       43.4   -90.1  OUTLIER     ?   6   8  0.82  11  2.17  molprobity  
43  43  p-10     -108.5   -10.3  Favored     ?   4   8  1.18  11  4.22  molprobity  
44  44  mtp180   -108.6   149.0  Favored     ?  13  11  1.07  14  2.35  molprobity  
45  45  mt-30    -116.0   145.9  Favored     ?   8   9  1.09  12  1.72  molprobity  
46  46  ?         165.8  -175.7  Favored     ?   3   4  0.46   5  0.81  molprobity  
47  47  m-85      -95.0   145.2  Favored     ?   9  12  1.08  16  1.74  molprobity  
48  48  m        -132.0   159.9  Favored     ?   9   7  0.86  11  0.69  molprobity  
49  49  Cg_exo    -63.5   129.1  Favored     ?   7   8  1.36  11  1.00  molprobity  
50  50  ?         -52.4   -35.4  Favored     ?   5   5  1.25   7  1.86  molprobity  
51  51  ?         -72.8   -17.3  Favored     ?   5   5  1.06   7  2.29  molprobity  
52  52  m-30      -91.7     8.2  Favored     ?   9  13  0.63  18  1.49  molprobity  
53  53  m        -124.0   153.7  Favored     ?   9   7  1.05  10  1.81  molprobity  
54  54  tttm     -125.5   122.3  Favored     ?  13   9  0.64  11  0.92  molprobity  
55  55  OUTLIER   -61.2   130.7  Favored     ?  13   9  0.58  11  0.90  molprobity  
56  56  mt       -111.5   106.4  Favored     ?  11   8  0.60  11  0.93  molprobity  
57  57  p-10          ?       ?  ?           ?   4   8  1.39   8  3.44  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  HB2    1  0.43  1.46  
 2   1  HE3    1  0.43  1.46  
 3   2  OE1    2  0.41  2.69  
 4   4  HG12   3  0.58  1.85  
 5   9  HB3    4  0.55  1.71  
 6  11  HE22   4  0.55  1.71  
 7  18  HG13   5  0.66  1.77  
 8  26  HD22   6  0.89  1.54  
 9  26  CD2    7  0.57  2.30  
10  34  HE2    8  0.60  2.01  
11  35  OD1    8  0.60  2.01  
12  39  O      9  0.41  2.20  
13  41  HG22   6  0.89  1.54  
14  41  HG22   7  0.57  2.30  
15  42  HB3   10  0.74  1.87  
16  43  OD1   11  0.76  2.13  
17  43  OD1   10  0.74  1.87  
18  43  N     11  0.76  2.13  
19  45  HA     9  0.41  2.20  
20  46  HA3    5  0.66  1.77  
21  55  HA     3  0.58  1.85  
22  55  CG     2  0.41  2.69  
#
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   2  CD  OE2  1.314  1.252  0.011  5.63  
2  12  CD  OE1  1.323  1.252  0.011  6.42  
3  40  CD  OE2  1.311  1.252  0.011  5.33  
#
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   9  CB  CG  OD1  122.899  118.300  0.900   5.11  
 2   9  CB  CG  OD2  110.779  118.300  0.900  -8.36  
 3  16  NE  CZ  NH1  122.925  120.300  0.500   5.25  
 4  24  CB  CG  OD2  113.458  118.300  0.900  -5.38  
 5  43  CB  CG  OD1  124.967  118.300  0.900   7.41  
 6  43  CB  CG  OD2  110.477  118.300  0.900  -8.69  
 7  43  N   CA  CB    99.732  110.600  1.800  -6.04  
 8  44  NE  CZ  NH1  122.826  120.300  0.500   5.05  
 9  44  NE  CZ  NH2  117.312  120.300  0.500  -5.98  
10  57  CB  CG  OD1  113.599  118.300  0.900  -5.22  
11  57  CB  CG  OD2  124.839  118.300  0.900   7.26  
#
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)"  Y  
##
