data_2G2F # _model_server_result.job_id 5mv1KJ_tn-qQ3-6-0c07Dg _model_server_result.datetime_utc '2024-11-22 04:38:47' _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 2g2f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":601}' # _entry.id 2G2F # _exptl.entry_id 2G2F _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.247 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' _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 90 _cell.angle_gamma 90 _cell.entry_id 2G2F _cell.length_a 105.669 _cell.length_b 133.322 _cell.length_c 56.576 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2G2F _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,F,H 1 1 B,D,G 2 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 # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id C _struct_conn.ptnr1_label_atom_id CZ _struct_conn.ptnr1_label_comp_id PHE _struct_conn.ptnr1_label_seq_id 4 _struct_conn.ptnr1_auth_asym_id C _struct_conn.ptnr1_auth_comp_id PHE _struct_conn.ptnr1_auth_seq_id 107 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id E _struct_conn.ptnr2_label_atom_id NS _struct_conn.ptnr2_label_comp_id 112 _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id C _struct_conn.ptnr2_auth_comp_id 112 _struct_conn.ptnr2_auth_seq_id 201 _struct_conn.ptnr2_symmetry 1_555 _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 1.465 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C10 H16 N5 O12 P3 S' _chem_comp.formula_weight 523.247 _chem_comp.id AGS _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ATP-GAMMA-S;ADENOSINE 5'-(3-THIOTRIPHOSPHATE);ADENOSINE 5'-(GAMMA-THIOTRIPHOSPHATE);ADENOSINE-5'-DIPHOSPHATE MONOTHIOPHOSPHATE" # 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 PG S1G AGS doub 57 n n PG O2G AGS sing 58 n n PG O3G AGS sing 59 n n PG O3B AGS sing 60 n n PB O1B AGS doub 61 n n PB O2B AGS sing 62 n n PB O3B AGS sing 63 n n PB O3A AGS sing 64 n n PA O1A AGS doub 65 n n PA O2A AGS sing 66 n n PA O3A AGS sing 67 n n PA O5' AGS sing 68 n n O5' C5' AGS sing 69 n n C5' C4' AGS sing 70 n n C4' O4' AGS sing 71 n n C4' C3' AGS sing 72 n n O4' C1' AGS sing 73 n n C3' O3' AGS sing 74 n n C3' C2' AGS sing 75 n n C2' O2' AGS sing 76 n n C2' C1' AGS sing 77 n n C1' N9 AGS sing 78 n n N9 C8 AGS sing 79 n y N9 C4 AGS sing 80 n y C8 N7 AGS doub 81 n y N7 C5 AGS sing 82 n y C5 C6 AGS sing 83 n y C5 C4 AGS doub 84 n y C6 N6 AGS sing 85 n n C6 N1 AGS doub 86 n y N1 C2 AGS sing 87 n y C2 N3 AGS doub 88 n y N3 C4 AGS sing 89 n y O2G HOG2 AGS sing 90 n n O3G H21 AGS sing 91 n n O2B HOB2 AGS sing 92 n n O2A HOA2 AGS sing 93 n n C5' "H5'1" AGS sing 94 n n C5' "H5'2" AGS sing 95 n n C4' H4' AGS sing 96 n n C3' H3' AGS sing 97 n n O3' HO3' AGS sing 98 n n C2' H2' AGS sing 99 n n O2' HO2' AGS sing 100 n n C1' H1' AGS sing 101 n n C8 H8 AGS sing 102 n n N6 HN61 AGS sing 103 n n N6 HN62 AGS sing 104 n n C2 H2 AGS sing 105 n n # _atom_sites.entry_id 2G2F _atom_sites.fract_transf_matrix[1][1] 0.009464 _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] 0.007501 _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] 0.017675 _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 D 3 AGS B 1 601 201 AGS ATG . E 4 112 C 1 201 101 112 112 . F 5 HOH A 1 601 3 HOH HOH . F 5 HOH A 2 602 5 HOH HOH . F 5 HOH A 3 603 6 HOH HOH . F 5 HOH A 4 604 7 HOH HOH . F 5 HOH A 5 605 8 HOH HOH . F 5 HOH A 6 606 9 HOH HOH . F 5 HOH A 7 607 10 HOH HOH . F 5 HOH A 8 608 11 HOH HOH . F 5 HOH A 9 609 12 HOH HOH . F 5 HOH A 10 610 13 HOH HOH . F 5 HOH A 11 611 14 HOH HOH . F 5 HOH A 12 612 15 HOH HOH . F 5 HOH A 13 613 16 HOH HOH . F 5 HOH A 14 614 18 HOH HOH . F 5 HOH A 15 615 19 HOH HOH . F 5 HOH A 16 616 20 HOH HOH . F 5 HOH A 17 617 21 HOH HOH . F 5 HOH A 18 618 26 HOH HOH . F 5 HOH A 19 619 28 HOH HOH . F 5 HOH A 20 620 29 HOH HOH . F 5 HOH A 21 621 30 HOH HOH . F 5 HOH A 22 622 33 HOH HOH . F 5 HOH A 23 623 34 HOH HOH . F 5 HOH A 24 624 35 HOH HOH . F 5 HOH A 25 625 36 HOH HOH . F 5 HOH A 26 626 38 HOH HOH . F 5 HOH A 27 627 40 HOH HOH . F 5 HOH A 28 628 45 HOH HOH . F 5 HOH A 29 629 47 HOH HOH . F 5 HOH A 30 630 48 HOH HOH . F 5 HOH A 31 631 50 HOH HOH . F 5 HOH A 32 632 51 HOH HOH . F 5 HOH A 33 633 53 HOH HOH . F 5 HOH A 34 634 56 HOH HOH . F 5 HOH A 35 635 63 HOH HOH . F 5 HOH A 36 636 66 HOH HOH . F 5 HOH A 37 637 68 HOH HOH . F 5 HOH A 38 638 72 HOH HOH . F 5 HOH A 39 639 74 HOH HOH . F 5 HOH A 40 640 75 HOH HOH . F 5 HOH A 41 641 78 HOH HOH . F 5 HOH A 42 642 83 HOH HOH . F 5 HOH A 43 643 91 HOH HOH . F 5 HOH A 44 644 96 HOH HOH . F 5 HOH A 45 645 97 HOH HOH . F 5 HOH A 46 646 102 HOH HOH . F 5 HOH A 47 647 105 HOH HOH . F 5 HOH A 48 648 107 HOH HOH . F 5 HOH A 49 649 110 HOH HOH . F 5 HOH A 50 650 114 HOH HOH . F 5 HOH A 51 651 123 HOH HOH . F 5 HOH A 52 652 125 HOH HOH . F 5 HOH A 53 653 126 HOH HOH . G 5 HOH B 1 701 1 HOH HOH . G 5 HOH B 2 702 2 HOH HOH . G 5 HOH B 3 703 17 HOH HOH . G 5 HOH B 4 704 22 HOH HOH . G 5 HOH B 5 705 23 HOH HOH . G 5 HOH B 6 706 24 HOH HOH . G 5 HOH B 7 707 27 HOH HOH . G 5 HOH B 8 708 31 HOH HOH . G 5 HOH B 9 709 32 HOH HOH . G 5 HOH B 10 710 37 HOH HOH . G 5 HOH B 11 711 39 HOH HOH . G 5 HOH B 12 712 41 HOH HOH . G 5 HOH B 13 713 42 HOH HOH . G 5 HOH B 14 714 43 HOH HOH . G 5 HOH B 15 715 44 HOH HOH . G 5 HOH B 16 716 46 HOH HOH . G 5 HOH B 17 717 52 HOH HOH . G 5 HOH B 18 718 57 HOH HOH . G 5 HOH B 19 719 58 HOH HOH . G 5 HOH B 20 720 59 HOH HOH . G 5 HOH B 21 721 67 HOH HOH . G 5 HOH B 22 722 71 HOH HOH . G 5 HOH B 23 723 80 HOH HOH . G 5 HOH B 24 724 84 HOH HOH . G 5 HOH B 25 725 90 HOH HOH . G 5 HOH B 26 726 99 HOH HOH . G 5 HOH B 27 727 103 HOH HOH . G 5 HOH B 28 728 116 HOH HOH . G 5 HOH B 29 729 120 HOH HOH . G 5 HOH B 30 730 121 HOH HOH . H 5 HOH C 1 301 4 HOH HOH . H 5 HOH C 2 302 25 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 P PG AGS . . . D 3 22.348 123.055 36.625 1 108.69 ? PG AGS 601 B 1 HETATM 2 S S1G AGS . . . D 3 20.821 122.002 37.014 1 108.95 ? S1G AGS 601 B 1 HETATM 3 O O2G AGS . . . D 3 22.193 123.609 35.168 1 107.09 ? O2G AGS 601 B 1 HETATM 4 O O3G AGS . . . D 3 22.701 124.104 37.658 1 107.54 ? O3G AGS 601 B 1 HETATM 5 P PB AGS . . . D 3 24.15 121.35 37.984 1 107.89 ? PB AGS 601 B 1 HETATM 6 O O1B AGS . . . D 3 22.921 121.173 39.001 1 107.17 ? O1B AGS 601 B 1 HETATM 7 O O2B AGS . . . D 3 24.661 119.983 37.5 1 107.42 ? O2B AGS 601 B 1 HETATM 8 O O3B AGS . . . D 3 23.713 122.164 36.693 1 107.61 ? O3B AGS 601 B 1 HETATM 9 P PA AGS . . . D 3 26.933 121.975 39.097 1 102.01 ? PA AGS 601 B 1 HETATM 10 O O1A AGS . . . D 3 27.625 123.161 38.45 1 102.32 ? O1A AGS 601 B 1 HETATM 11 O O2A AGS . . . D 3 27.044 121.676 40.618 1 100.77 ? O2A AGS 601 B 1 HETATM 12 O O3A AGS . . . D 3 25.272 122.005 38.835 1 104.6 ? O3A AGS 601 B 1 HETATM 13 O O5' AGS . . . D 3 27.145 120.72 37.987 1 99.12 ? O5' AGS 601 B 1 HETATM 14 C C5' AGS . . . D 3 27.838 120.983 36.77 1 93.13 ? C5' AGS 601 B 1 HETATM 15 C C4' AGS . . . D 3 27.944 119.708 35.915 1 89.26 ? C4' AGS 601 B 1 HETATM 16 O O4' AGS . . . D 3 29.206 119.144 36.138 1 87.16 ? O4' AGS 601 B 1 HETATM 17 C C3' AGS . . . D 3 26.868 118.674 36.254 1 87.49 ? C3' AGS 601 B 1 HETATM 18 O O3' AGS . . . D 3 25.897 118.555 35.233 1 88.23 ? O3' AGS 601 B 1 HETATM 19 C C2' AGS . . . D 3 27.625 117.407 36.479 1 86.45 ? C2' AGS 601 B 1 HETATM 20 O O2' AGS . . . D 3 27.44 116.403 35.402 1 86.25 ? O2' AGS 601 B 1 HETATM 21 C C1' AGS . . . D 3 29.058 117.806 36.529 1 84.46 ? C1' AGS 601 B 1 HETATM 22 N N9 AGS . . . D 3 29.422 117.603 38.016 1 80.32 ? N9 AGS 601 B 1 HETATM 23 C C8 AGS . . . D 3 29.086 118.328 39.2 1 78.43 ? C8 AGS 601 B 1 HETATM 24 N N7 AGS . . . D 3 29.562 117.937 40.373 1 77.04 ? N7 AGS 601 B 1 HETATM 25 C C5 AGS . . . D 3 30.292 116.842 39.988 1 76.32 ? C5 AGS 601 B 1 HETATM 26 C C6 AGS . . . D 3 31.1 115.923 40.746 1 74.68 ? C6 AGS 601 B 1 HETATM 27 N N6 AGS . . . D 3 31.239 116.09 42.165 1 73.75 ? N6 AGS 601 B 1 HETATM 28 N N1 AGS . . . D 3 31.743 114.882 40.118 1 74.58 ? N1 AGS 601 B 1 HETATM 29 C C2 AGS . . . D 3 31.622 114.712 38.722 1 75.74 ? C2 AGS 601 B 1 HETATM 30 N N3 AGS . . . D 3 30.884 115.529 37.85 1 76.88 ? N3 AGS 601 B 1 HETATM 31 C C4 AGS . . . D 3 30.237 116.587 38.54 1 77.9 ? C4 AGS 601 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 294 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #