data_7JRI # _model_server_result.job_id CxuolANDPtlQ6fxdidA50Q _model_server_result.datetime_utc '2024-11-22 19:02:01' _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 7jri # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":601}' # _entry.id 7JRI # _exptl.entry_id 7JRI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 120.152 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description BENZAMIDINE _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 107.63 _cell.angle_gamma 90 _cell.entry_id 7JRI _cell.length_a 83.69 _cell.length_b 83.4 _cell.length_c 86.87 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7JRI _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 x,y,z _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 covale ? covale1 A SG CYS 5 A CYS 13 1_555 C CBC 3Q8 . A 3Q8 500 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.864 ? covale ? covale2 A SG CYS 5 A CYS 13 1_555 C CBC 3Q8 . A 3Q8 500 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.86 ? covale ? covale3 B SG CYS 5 B CYS 13 1_555 E CBC 3Q8 . B 3Q8 602 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.826 ? covale ? covale4 B SG CYS 5 B CYS 13 1_555 E CBC 3Q8 . B 3Q8 602 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.858 ? # _chem_comp.formula 'C7 H8 N2' _chem_comp.formula_weight 120.152 _chem_comp.id BEN _chem_comp.mon_nstd_flag . _chem_comp.name BENZAMIDINE _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 C1 C2 BEN doub 156 n y C1 C6 BEN sing 157 n y C1 C BEN sing 158 n n C2 C3 BEN sing 159 n y C2 H2 BEN sing 160 n n C3 C4 BEN doub 161 n y C3 H3 BEN sing 162 n n C4 C5 BEN sing 163 n y C4 H4 BEN sing 164 n n C5 C6 BEN doub 165 n y C5 H5 BEN sing 166 n n C6 H6 BEN sing 167 n n C N1 BEN doub 168 e n C N2 BEN sing 169 n n N1 HN1 BEN sing 170 n n N2 HN21 BEN sing 171 n n N2 HN22 BEN sing 172 n n # _atom_sites.entry_id 7JRI _atom_sites.fract_transf_matrix[1][1] 0.011949 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003797 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01199 _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] 0.012079 _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 C 2 3Q8 A 1 500 500 3Q8 EL5 . D 3 BEN B 1 601 601 BEN BEN . E 2 3Q8 B 1 602 500 3Q8 EL5 . F 4 HOH A 1 601 72 HOH HOH . F 4 HOH A 2 602 7 HOH HOH . F 4 HOH A 3 603 46 HOH HOH . F 4 HOH A 4 604 32 HOH HOH . F 4 HOH A 5 605 127 HOH HOH . F 4 HOH A 6 606 116 HOH HOH . F 4 HOH A 7 607 37 HOH HOH . F 4 HOH A 8 608 73 HOH HOH . F 4 HOH A 9 609 33 HOH HOH . F 4 HOH A 10 610 129 HOH HOH . F 4 HOH A 11 611 131 HOH HOH . F 4 HOH A 12 612 61 HOH HOH . F 4 HOH A 13 613 25 HOH HOH . F 4 HOH A 14 614 106 HOH HOH . F 4 HOH A 15 615 92 HOH HOH . F 4 HOH A 16 616 105 HOH HOH . F 4 HOH A 17 617 21 HOH HOH . F 4 HOH A 18 618 22 HOH HOH . F 4 HOH A 19 619 2 HOH HOH . F 4 HOH A 20 620 75 HOH HOH . F 4 HOH A 21 621 101 HOH HOH . F 4 HOH A 22 622 28 HOH HOH . F 4 HOH A 23 623 8 HOH HOH . F 4 HOH A 24 624 103 HOH HOH . F 4 HOH A 25 625 102 HOH HOH . F 4 HOH A 26 626 91 HOH HOH . F 4 HOH A 27 627 23 HOH HOH . F 4 HOH A 28 628 98 HOH HOH . F 4 HOH A 29 629 58 HOH HOH . F 4 HOH A 30 630 119 HOH HOH . F 4 HOH A 31 631 117 HOH HOH . F 4 HOH A 32 632 88 HOH HOH . F 4 HOH A 33 633 19 HOH HOH . F 4 HOH A 34 634 14 HOH HOH . F 4 HOH A 35 635 42 HOH HOH . F 4 HOH A 36 636 118 HOH HOH . F 4 HOH A 37 637 95 HOH HOH . F 4 HOH A 38 638 15 HOH HOH . F 4 HOH A 39 639 35 HOH HOH . F 4 HOH A 40 640 1 HOH HOH . F 4 HOH A 41 641 113 HOH HOH . F 4 HOH A 42 642 112 HOH HOH . F 4 HOH A 43 643 36 HOH HOH . F 4 HOH A 44 644 70 HOH HOH . F 4 HOH A 45 645 94 HOH HOH . F 4 HOH A 46 646 107 HOH HOH . F 4 HOH A 47 647 30 HOH HOH . F 4 HOH A 48 648 97 HOH HOH . F 4 HOH A 49 649 62 HOH HOH . F 4 HOH A 50 650 81 HOH HOH . F 4 HOH A 51 651 86 HOH HOH . F 4 HOH A 52 652 57 HOH HOH . F 4 HOH A 53 653 40 HOH HOH . F 4 HOH A 54 654 89 HOH HOH . F 4 HOH A 55 655 83 HOH HOH . F 4 HOH A 56 656 38 HOH HOH . G 4 HOH B 1 701 16 HOH HOH . G 4 HOH B 2 702 55 HOH HOH . G 4 HOH B 3 703 3 HOH HOH . G 4 HOH B 4 704 41 HOH HOH . G 4 HOH B 5 705 109 HOH HOH . G 4 HOH B 6 706 130 HOH HOH . G 4 HOH B 7 707 59 HOH HOH . G 4 HOH B 8 708 12 HOH HOH . G 4 HOH B 9 709 108 HOH HOH . G 4 HOH B 10 710 34 HOH HOH . G 4 HOH B 11 711 132 HOH HOH . G 4 HOH B 12 712 78 HOH HOH . G 4 HOH B 13 713 29 HOH HOH . G 4 HOH B 14 714 84 HOH HOH . G 4 HOH B 15 715 85 HOH HOH . G 4 HOH B 16 716 50 HOH HOH . G 4 HOH B 17 717 17 HOH HOH . G 4 HOH B 18 718 45 HOH HOH . G 4 HOH B 19 719 114 HOH HOH . G 4 HOH B 20 720 99 HOH HOH . G 4 HOH B 21 721 13 HOH HOH . G 4 HOH B 22 722 79 HOH HOH . G 4 HOH B 23 723 111 HOH HOH . G 4 HOH B 24 724 10 HOH HOH . G 4 HOH B 25 725 69 HOH HOH . G 4 HOH B 26 726 100 HOH HOH . G 4 HOH B 27 727 87 HOH HOH . G 4 HOH B 28 728 71 HOH HOH . G 4 HOH B 29 729 121 HOH HOH . G 4 HOH B 30 730 120 HOH HOH . G 4 HOH B 31 731 52 HOH HOH . G 4 HOH B 32 732 77 HOH HOH . G 4 HOH B 33 733 43 HOH HOH . G 4 HOH B 34 734 49 HOH HOH . G 4 HOH B 35 735 104 HOH HOH . G 4 HOH B 36 736 51 HOH HOH . G 4 HOH B 37 737 53 HOH HOH . G 4 HOH B 38 738 74 HOH HOH . G 4 HOH B 39 739 47 HOH HOH . G 4 HOH B 40 740 76 HOH HOH . G 4 HOH B 41 741 90 HOH HOH . G 4 HOH B 42 742 93 HOH HOH . G 4 HOH B 43 743 56 HOH HOH . # 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 C C1 BEN . . . D 3 -54.62 -16.69 -27.497 1 124.48 ? C1 BEN 601 B 1 HETATM 2 C C2 BEN . . . D 3 -55.216 -16.235 -26.323 1 122.19 ? C2 BEN 601 B 1 HETATM 3 C C3 BEN . . . D 3 -56.515 -16.603 -26.006 1 117.58 ? C3 BEN 601 B 1 HETATM 4 C C4 BEN . . . D 3 -57.23 -17.421 -26.851 1 117.43 ? C4 BEN 601 B 1 HETATM 5 C C5 BEN . . . D 3 -56.652 -17.878 -28.015 1 118.84 ? C5 BEN 601 B 1 HETATM 6 C C6 BEN . . . D 3 -55.355 -17.519 -28.339 1 124.03 ? C6 BEN 601 B 1 HETATM 7 C C BEN . . . D 3 -53.226 -16.3 -27.853 1 125.01 ? C BEN 601 B 1 HETATM 8 N N1 BEN . . . D 3 -53.026 -15.051 -28.325 1 117.92 ? N1 BEN 601 B 1 HETATM 9 N N2 BEN . . . D 3 -52.211 -17.1 -27.754 1 120.78 ? N2 BEN 601 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 32 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 9 #