data_7PH2
#
_model_server_result.job_id            ve5mdggI7MfSPfpI4YQYkg 
_model_server_result.datetime_utc      '2024-11-23 13:05:59' 
_model_server_result.server_version    0.9.12 
_model_server_result.query_name        ligand 
_model_server_result.source_id         pdb-bcif 
_model_server_result.entry_id          7ph2 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":200}' 
#
_entry.id    7PH2 
#
_exptl.entry_id    7PH2 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              524.524 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (1~{R},4~{R},11~{S},14~{S},19~{Z})-19-[2-[2,5-bis(oxidanylidene)pyrrolidin-1-yl]ethylimino]-7,8,17,18-tetraoxa-1,4,11,14-tetrazatricyclo[12.6.2.2^{4,11}]tetracosane-6,9,16-trione 
_entity.pdbx_number_of_molecules    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         90 
_cell.entry_id            7PH2 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7PH2 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1 
#
_pdbx_struct_oper_list.id                    1 
_pdbx_struct_oper_list.type                  'identity operation' 
_pdbx_struct_oper_list.name                  1_555 
_pdbx_struct_oper_list.symmetry_operation    ? 
_pdbx_struct_oper_list.matrix[1][1]          1 
_pdbx_struct_oper_list.matrix[1][2]          0 
_pdbx_struct_oper_list.matrix[1][3]          0 
_pdbx_struct_oper_list.matrix[2][1]          0 
_pdbx_struct_oper_list.matrix[2][2]          1 
_pdbx_struct_oper_list.matrix[2][3]          0 
_pdbx_struct_oper_list.matrix[3][1]          0 
_pdbx_struct_oper_list.matrix[3][2]          0 
_pdbx_struct_oper_list.matrix[3][3]          1 
_pdbx_struct_oper_list.vector[1]             0 
_pdbx_struct_oper_list.vector[2]             0 
_pdbx_struct_oper_list.vector[3]             0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 F N N 
? 4 H N N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
disulf ? disulf1 C SG CYS 25 C CYS 22 1_555 C SG CYS 98 C CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
disulf ? disulf2 D SG CYS 25 D CYS 22 1_555 D SG CYS 98 D CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
covale ? covale1 C SG CYS 63 C CYS 60 1_555 F C4 88T . C 88T 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.828 ? 
covale ? covale2 D SG CYS 63 D CYS 60 1_555 H C4 88T . D 88T 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.798 ? 
metalc ? metalc1 F N4 88T . C 88T 200 1_555 G GD GD . C GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? 
metalc ? metalc2 F O4 88T . C 88T 200 1_555 G GD GD . C GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? 
metalc ? metalc3 F N5 88T . C 88T 200 1_555 G GD GD . C GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.604 ? 
metalc ? metalc4 F O5 88T . C 88T 200 1_555 G GD GD . C GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.092 ? 
metalc ? metalc5 F N6 88T . C 88T 200 1_555 G GD GD . C GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.655 ? 
metalc ? metalc6 F O6 88T . C 88T 200 1_555 G GD GD . C GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? 
metalc ? metalc7 F N7 88T . C 88T 200 1_555 G GD GD . C GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? 
metalc ? metalc8 F O7 88T . C 88T 200 1_555 G GD GD . C GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.467 ? 
metalc ? metalc9 F O8 88T . C 88T 200 1_555 G GD GD . C GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? 
metalc ? metalc10 F O9 88T . C 88T 200 1_555 G GD GD . C GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? 
metalc ? metalc11 H N4 88T . D 88T 200 1_555 I GD GD . D GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.644 ? 
metalc ? metalc12 H O4 88T . D 88T 200 1_555 I GD GD . D GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? 
metalc ? metalc13 H N5 88T . D 88T 200 1_555 I GD GD . D GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.636 ? 
metalc ? metalc14 H O5 88T . D 88T 200 1_555 I GD GD . D GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.255 ? 
metalc ? metalc15 H N6 88T . D 88T 200 1_555 I GD GD . D GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.623 ? 
metalc ? metalc16 H O6 88T . D 88T 200 1_555 I GD GD . D GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? 
metalc ? metalc17 H N7 88T . D 88T 200 1_555 I GD GD . D GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.603 ? 
metalc ? metalc18 H O8 88T . D 88T 200 1_555 I GD GD . D GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? 
metalc ? metalc19 H O9 88T . D 88T 200 1_555 I GD GD . D GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? 
metalc ? metalc20 H O10 88T . D 88T 200 1_555 I GD GD . D GD 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.735 ? 
#
_chem_comp.formula           'C22 H32 N6 O9' 
_chem_comp.formula_weight    524.524 
_chem_comp.id                88T 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (1~{R},4~{R},11~{S},14~{S},19~{Z})-19-[2-[2,5-bis(oxidanylidene)pyrrolidin-1-yl]ethylimino]-7,8,17,18-tetraoxa-1,4,11,14-tetrazatricyclo[12.6.2.2^{4,11}]tetracosane-6,9,16-trione 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
O10 C25 88T doub 1 n n 
C25 C24 88T sing 2 n n 
C25 O9 88T sing 3 n n 
C24 N6 88T sing 4 n n 
O9 O6 88T sing 5 n n 
C17 N6 88T sing 6 n n 
C17 C16 88T sing 7 n n 
N6 C18 88T sing 8 n n 
C16 N5 88T sing 9 n n 
O6 C15 88T sing 10 n n 
C18 C19 88T sing 11 n n 
O7 C21 88T doub 12 n n 
C14 C15 88T sing 13 n n 
C14 N5 88T sing 14 n n 
O2 C5 88T doub 15 n n 
C4 C5 88T sing 16 n n 
C4 C6 88T sing 17 n n 
C15 O5 88T doub 18 n n 
N5 C13 88T sing 19 n n 
C5 N2 88T sing 20 n n 
C19 N7 88T sing 21 n n 
C21 O8 88T sing 22 n n 
C21 C20 88T sing 23 n n 
C6 C7 88T sing 24 n n 
C13 C12 88T sing 25 n n 
O8 O4 88T sing 26 n n 
C20 N7 88T sing 27 n n 
N2 C7 88T sing 28 n n 
N2 C8 88T sing 29 n n 
N7 C23 88T sing 30 n n 
C7 O3 88T doub 31 n n 
C8 C9 88T sing 32 n n 
O4 C10 88T sing 33 n n 
C12 N4 88T sing 34 n n 
N4 C22 88T sing 35 n n 
N4 C11 88T sing 36 n n 
C23 C22 88T sing 37 n n 
C10 C11 88T sing 38 n n 
C10 N3 88T doub 39 n n 
C9 N3 88T sing 40 n n 
C4 H1 88T sing 41 n n 
C4 H2 88T sing 42 n n 
C6 H5 88T sing 43 n n 
C6 H6 88T sing 44 n n 
C8 H9 88T sing 45 n n 
C8 H10 88T sing 46 n n 
C9 H11 88T sing 47 n n 
C9 H12 88T sing 48 n n 
C11 H13 88T sing 49 n n 
C11 H14 88T sing 50 n n 
C12 H15 88T sing 51 n n 
C12 H16 88T sing 52 n n 
C13 H17 88T sing 53 n n 
C13 H18 88T sing 54 n n 
C14 H19 88T sing 55 n n 
C14 H20 88T sing 56 n n 
C16 H21 88T sing 57 n n 
C16 H22 88T sing 58 n n 
C17 H23 88T sing 59 n n 
C17 H24 88T sing 60 n n 
C18 H25 88T sing 61 n n 
C18 H26 88T sing 62 n n 
C19 H27 88T sing 63 n n 
C19 H28 88T sing 64 n n 
C20 H29 88T sing 65 n n 
C20 H30 88T sing 66 n n 
C22 H31 88T sing 67 n n 
C22 H32 88T sing 68 n n 
C23 H33 88T sing 69 n n 
C23 H34 88T sing 70 n n 
C24 H35 88T sing 71 n n 
C24 H36 88T sing 72 n n 
#
_atom_sites.entry_id                     7PH2 
_atom_sites.fract_transf_matrix[1][1]    1 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    1 
_atom_sites.fract_transf_matrix[2][3]    0 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    1 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_ins_code
E 3 EIW A 1 601 601 EIW JSG . 
F 4 88T C 1 200 200 88T 8WI . 
G 5 GD C 1 201 201 GD GD . 
H 4 88T D 1 200 200 88T 8WI . 
I 5 GD D 1 201 201 GD GD . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 N N2 88T . . . H 4 140.04 123.21 45.15 0.09 146.69 ? N2 88T 200 D 1 
HETATM 2 O O2 88T . . . H 4 140.47 124.944 46.731 0.09 146.69 ? O2 88T 200 D 1 
HETATM 3 N N3 88T . . . H 4 143.36 123.976 43.562 0.09 146.69 ? N3 88T 200 D 1 
HETATM 4 O O3 88T . . . H 4 138.651 121.722 43.853 0.09 146.69 ? O3 88T 200 D 1 
HETATM 5 C C4 88T . . . H 4 138.207 124.163 46.432 0.09 146.69 ? C4 88T 200 D 1 
HETATM 6 N N4 88T . . . H 4 146.676 123.616 45.489 0.09 146.69 ? N4 88T 200 D 1 
HETATM 7 O O4 88T . . . H 4 144.08 124.412 45.71 0.09 146.69 ? O4 88T 200 D 1 
HETATM 8 C C5 88T . . . H 4 139.701 124.22 46.188 0.09 146.69 ? C5 88T 200 D 1 
HETATM 9 N N5 88T . . . H 4 146.897 121.337 47.29 0.09 146.69 ? N5 88T 200 D 1 
HETATM 10 O O5 88T . . . H 4 144.607 120.864 44.835 0.09 146.69 ? O5 88T 200 D 1 
HETATM 11 C C6 88T . . . H 4 137.617 123.012 45.655 0.09 146.69 ? C6 88T 200 D 1 
HETATM 12 N N6 88T . . . H 4 146.301 122.949 49.47 0.09 146.69 ? N6 88T 200 D 1 
HETATM 13 O O6 88T . . . H 4 143.942 120.922 46.917 0.09 146.69 ? O6 88T 200 D 1 
HETATM 14 C C7 88T . . . H 4 138.759 122.511 44.733 0.09 146.69 ? C7 88T 200 D 1 
HETATM 15 N N7 88T . . . H 4 146.026 125.249 47.816 0.09 146.69 ? N7 88T 200 D 1 
HETATM 16 O O7 88T . . . H 4 142.605 125.316 48.77 0.09 146.69 ? O7 88T 200 D 1 
HETATM 17 C C8 88T . . . H 4 141.387 122.933 44.615 0.09 146.69 ? C8 88T 200 D 1 
HETATM 18 O O8 88T . . . H 4 143.449 124.696 46.851 0.09 146.69 ? O8 88T 200 D 1 
HETATM 19 C C9 88T . . . H 4 141.94 124.197 43.904 0.09 146.69 ? C9 88T 200 D 1 
HETATM 20 O O9 88T . . . H 4 144.301 121.029 48.363 0.09 146.69 ? O9 88T 200 D 1 
HETATM 21 C C10 88T . . . H 4 144.394 124.115 44.604 0.09 146.69 ? C10 88T 200 D 1 
HETATM 22 O O10 88T . . . H 4 142.948 122.526 49.205 0.09 146.69 ? O10 88T 200 D 1 
HETATM 23 C C11 88T . . . H 4 145.889 123.886 44.252 0.09 146.69 ? C11 88T 200 D 1 
HETATM 24 C C12 88T . . . H 4 147.623 122.498 45.209 0.09 146.69 ? C12 88T 200 D 1 
HETATM 25 C C13 88T . . . H 4 148.086 121.847 46.551 0.09 146.69 ? C13 88T 200 D 1 
HETATM 26 C C14 88T . . . H 4 146.25 120.251 46.524 0.09 146.69 ? C14 88T 200 D 1 
HETATM 27 C C15 88T . . . H 4 144.849 120.707 46.064 0.09 146.69 ? C15 88T 200 D 1 
HETATM 28 C C16 88T . . . H 4 147.311 120.847 48.629 0.09 146.69 ? C16 88T 200 D 1 
HETATM 29 C C17 88T . . . H 4 147.484 122.059 49.585 0.09 146.69 ? C17 88T 200 D 1 
HETATM 30 C C18 88T . . . H 4 146.619 124.288 50.023 0.09 146.69 ? C18 88T 200 D 1 
HETATM 31 C C19 88T . . . H 4 147.077 125.221 48.864 0.09 146.69 ? C19 88T 200 D 1 
HETATM 32 C C20 88T . . . H 4 144.872 126.045 48.291 0.09 146.69 ? C20 88T 200 D 1 
HETATM 33 C C21 88T . . . H 4 143.564 125.308 47.951 0.09 146.69 ? C21 88T 200 D 1 
HETATM 34 C C22 88T . . . H 4 147.473 124.827 45.839 0.09 146.69 ? C22 88T 200 D 1 
HETATM 35 C C23 88T . . . H 4 146.575 125.865 46.581 0.09 146.69 ? C23 88T 200 D 1 
HETATM 36 C C24 88T . . . H 4 145.159 122.364 50.202 0.09 146.69 ? C24 88T 200 D 1 
HETATM 37 C C25 88T . . . H 4 144.071 121.949 49.196 0.09 146.69 ? C25 88T 200 D 1 
#
_model_server_stats.io_time_ms              73 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    33 
_model_server_stats.query_time_ms           255 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           37 
#