data_7KR3 # _model_server_result.job_id uiIRQVKSsngPDHG8SoVAKA _model_server_result.datetime_utc '2024-12-22 01:57:18' _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 7kr3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":101}' # _entry.id 7KR3 # _exptl.entry_id 7KR3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ADENOSINE MONOPHOSPHATE' _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 7KR3 _cell.length_a 73.681 _cell.length_b 101.665 _cell.length_c 115.5 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7KR3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,H,I,J _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 5 _struct_asym.id E _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 C P DA 1 C DA 1 1_555 E O3P AMP . C AMP 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.598 ? hydrog WATSON-CRICK hydrog1 B N1 DA 1 B DA 3 1_555 D N3 DT 18 D DT 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N6 DA 1 B DA 3 1_555 D O4 DT 18 D DT 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B N1 DA 2 B DA 4 1_555 D N3 DT 17 D DT 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N6 DA 2 B DA 4 1_555 D O4 DT 17 D DT 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B N3 DT 3 B DT 5 1_555 D N1 DA 16 D DA 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B O4 DT 3 B DT 5 1_555 D N6 DA 16 D DA 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B N1 DG 4 B DG 6 1_555 D N3 DC 15 D DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B N2 DG 4 B DG 6 1_555 D O2 DC 15 D DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B O6 DG 4 B DG 6 1_555 D N4 DC 15 D DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 B N3 DT 5 B DT 7 1_555 D N1 DA 14 D DA 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 B O4 DT 5 B DT 7 1_555 D N6 DA 14 D DA 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 B N3 DC 6 B DC 8 1_555 D N1 DG 13 D DG 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 B N4 DC 6 B DC 8 1_555 D O6 DG 13 D DG 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 B O2 DC 6 B DC 8 1_555 D N2 DG 13 D DG 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 B N3 DT 7 B DT 9 1_555 D N1 DA 12 D DA 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 B O4 DT 7 B DT 9 1_555 D N6 DA 12 D DA 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 B N1 DG 8 B DG 10 1_555 D N3 DC 11 D DC 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 B N2 DG 8 B DG 10 1_555 D O2 DC 11 D DC 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 B O6 DG 8 B DG 10 1_555 D N4 DC 11 D DC 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 B N3 DC 10 B DC 12 1_555 D N1 DG 10 D DG 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 B N4 DC 10 B DC 12 1_555 D O6 DG 10 D DG 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 B O2 DC 10 B DC 12 1_555 D N2 DG 10 D DG 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 B N3 DC 11 B DC 13 1_555 D N1 DG 9 D DG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 B N4 DC 11 B DC 13 1_555 D O6 DG 9 D DG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 B O2 DC 11 B DC 13 1_555 D N2 DG 9 D DG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 B N3 DC 12 B DC 14 1_555 D N1 DG 8 D DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 B N4 DC 12 B DC 14 1_555 D O6 DG 8 D DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 B O2 DC 12 B DC 14 1_555 D N2 DG 8 D DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 C N1 DA 1 C DA 1 1_555 D N3 DT 7 D DT 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 C N6 DA 1 C DA 1 1_555 D O4 DT 7 D DT 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 C N3 DT 2 C DT 2 1_555 D N1 DA 6 D DA 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 C O4 DT 2 C DT 2 1_555 D N6 DA 6 D DA 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog33 C N3 DT 3 C DT 3 1_555 D N1 DA 5 D DA 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog34 C O4 DT 3 C DT 3 1_555 D N6 DA 5 D DA 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog35 C N3 DC 4 C DC 4 1_555 D N1 DG 4 D DG 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog36 C N4 DC 4 C DC 4 1_555 D O6 DG 4 D DG 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog37 C O2 DC 4 C DC 4 1_555 D N2 DG 4 D DG 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog38 C N3 DT 5 C DT 5 1_555 D N1 DA 3 D DA 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog39 C O4 DT 5 C DT 5 1_555 D N6 DA 3 D DA 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog40 C N1 DG 6 C DG 6 1_555 D N3 DC 2 D DC 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog41 C N2 DG 6 C DG 6 1_555 D O2 DC 2 D DC 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog42 C O6 DG 6 C DG 6 1_555 D N4 DC 2 D DC 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog43 C N3 DC 7 C DC 7 1_555 D N1 DG 1 D DG 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog44 C N4 DC 7 C DC 7 1_555 D O6 DG 1 D DG 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog45 C O2 DC 7 C DC 7 1_555 D N2 DG 1 D DG 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C10 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id AMP _chem_comp.mon_nstd_flag . _chem_comp.name 'ADENOSINE MONOPHOSPHATE' _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 P O1P AMP doub 19 n n P O2P AMP sing 20 n n P O3P AMP sing 21 n n P O5' AMP sing 22 n n O2P HOP2 AMP sing 23 n n O3P HOP3 AMP sing 24 n n O5' C5' AMP sing 25 n n C5' C4' AMP sing 26 n n C5' "H5'1" AMP sing 27 n n C5' "H5'2" AMP sing 28 n n C4' O4' AMP sing 29 n n C4' C3' AMP sing 30 n n C4' H4' AMP sing 31 n n O4' C1' AMP sing 32 n n C3' O3' AMP sing 33 n n C3' C2' AMP sing 34 n n C3' H3' AMP sing 35 n n O3' HO3' AMP sing 36 n n C2' O2' AMP sing 37 n n C2' C1' AMP sing 38 n n C2' H2' AMP sing 39 n n O2' HO2' AMP sing 40 n n C1' N9 AMP sing 41 n n C1' H1' AMP sing 42 n n N9 C8 AMP sing 43 n y N9 C4 AMP sing 44 n y C8 N7 AMP doub 45 n y C8 H8 AMP sing 46 n n N7 C5 AMP sing 47 n y C5 C6 AMP sing 48 n y C5 C4 AMP doub 49 n y C6 N6 AMP sing 50 n n C6 N1 AMP doub 51 n y N6 HN61 AMP sing 52 n n N6 HN62 AMP sing 53 n n N1 C2 AMP sing 54 n y C2 N3 AMP doub 55 n y C2 H2 AMP sing 56 n n N3 C4 AMP sing 57 n y # _atom_sites.entry_id 7KR3 _atom_sites.fract_transf_matrix[1][1] 0.013572 _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] 0.009836 _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] 0.008658 _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 5 AMP C 1 101 1 AMP AMP . F 6 ACT D 1 101 101 ACT ACT . G 7 HOH A 1 1001 11 HOH HOH . G 7 HOH A 2 1002 20 HOH HOH . G 7 HOH A 3 1003 34 HOH HOH . G 7 HOH A 4 1004 21 HOH HOH . G 7 HOH A 5 1005 37 HOH HOH . G 7 HOH A 6 1006 18 HOH HOH . G 7 HOH A 7 1007 8 HOH HOH . G 7 HOH A 8 1008 19 HOH HOH . G 7 HOH A 9 1009 15 HOH HOH . H 7 HOH B 1 101 16 HOH HOH . H 7 HOH B 2 102 35 HOH HOH . I 7 HOH C 1 201 27 HOH HOH . I 7 HOH C 2 202 49 HOH HOH . J 7 HOH D 1 201 2 HOH HOH . J 7 HOH D 2 202 26 HOH HOH . J 7 HOH D 3 203 4 HOH HOH . J 7 HOH D 4 204 29 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 P AMP . . . E 5 12.856 -11.022 -16.258 1 64.73 ? P AMP 101 C 1 HETATM 2 O O1P AMP . . . E 5 13.425 -10.443 -17.532 1 64.24 ? O1P AMP 101 C 1 HETATM 3 O O2P AMP . . . E 5 11.401 -10.679 -16.046 1 68.98 ? O2P AMP 101 C 1 HETATM 4 O O3P AMP . . . E 5 13.724 -10.827 -15.031 1 72.84 ? O3P AMP 101 C 1 HETATM 5 O O5' AMP . . . E 5 12.823 -12.594 -16.533 1 54.34 ? O5' AMP 101 C 1 HETATM 6 C C5' AMP . . . E 5 14.024 -13.333 -16.751 1 50.42 ? C5' AMP 101 C 1 HETATM 7 C C4' AMP . . . E 5 14.254 -14.336 -15.649 1 50.13 ? C4' AMP 101 C 1 HETATM 8 O O4' AMP . . . E 5 13.277 -15.39 -15.74 1 57.83 ? O4' AMP 101 C 1 HETATM 9 C C3' AMP . . . E 5 15.591 -15.043 -15.704 1 54.04 ? C3' AMP 101 C 1 HETATM 10 O O3' AMP . . . E 5 16.558 -14.288 -14.975 1 57.43 ? O3' AMP 101 C 1 HETATM 11 C C2' AMP . . . E 5 15.316 -16.378 -14.995 1 58.17 ? C2' AMP 101 C 1 HETATM 12 O O2' AMP . . . E 5 15.735 -16.42 -13.652 1 55.65 ? O2' AMP 101 C 1 HETATM 13 C C1' AMP . . . E 5 13.789 -16.549 -15.107 1 62.9 ? C1' AMP 101 C 1 HETATM 14 N N9 AMP . . . E 5 13.354 -17.748 -15.832 1 68.71 ? N9 AMP 101 C 1 HETATM 15 C C8 AMP . . . E 5 12.413 -18.591 -15.368 1 70.55 ? C8 AMP 101 C 1 HETATM 16 N N7 AMP . . . E 5 12.217 -19.628 -16.219 1 71.46 ? N7 AMP 101 C 1 HETATM 17 C C5 AMP . . . E 5 13.057 -19.464 -17.253 1 71.4 ? C5 AMP 101 C 1 HETATM 18 C C6 AMP . . . E 5 13.359 -20.204 -18.498 1 69.92 ? C6 AMP 101 C 1 HETATM 19 N N6 AMP . . . E 5 12.706 -21.349 -18.806 1 67.87 ? N6 AMP 101 C 1 HETATM 20 N N1 AMP . . . E 5 14.306 -19.694 -19.309 1 74.46 ? N1 AMP 101 C 1 HETATM 21 C C2 AMP . . . E 5 14.962 -18.556 -19.013 1 75.12 ? C2 AMP 101 C 1 HETATM 22 N N3 AMP . . . E 5 14.737 -17.837 -17.899 1 72.15 ? N3 AMP 101 C 1 HETATM 23 C C4 AMP . . . E 5 13.814 -18.229 -16.992 1 70.95 ? C4 AMP 101 C 1 HETATM 24 H "H5'1" AMP . . . E 5 13.962 -13.853 -17.709 1 60.5 ? "H5'1" AMP 101 C 1 HETATM 25 H "H5'2" AMP . . . E 5 14.871 -12.644 -16.798 1 60.5 ? "H5'2" AMP 101 C 1 HETATM 26 H H4' AMP . . . E 5 14.163 -13.826 -14.68 1 60.16 ? H4' AMP 101 C 1 HETATM 27 H H3' AMP . . . E 5 15.898 -15.212 -16.745 1 64.85 ? H3' AMP 101 C 1 HETATM 28 H HO3' AMP . . . E 5 17.413 -14.74 -15.01 1 68.92 ? HO3' AMP 101 C 1 HETATM 29 H H2' AMP . . . E 5 15.803 -17.184 -15.562 1 69.81 ? H2' AMP 101 C 1 HETATM 30 H HO2' AMP . . . E 5 16.692 -16.29 -13.609 1 66.78 ? HO2' AMP 101 C 1 HETATM 31 H H1' AMP . . . E 5 13.388 -16.596 -14.085 1 75.48 ? H1' AMP 101 C 1 HETATM 32 H H8 AMP . . . E 5 11.873 -18.453 -14.439 1 84.66 ? H8 AMP 101 C 1 HETATM 33 H HN61 AMP . . . E 5 11.999 -21.711 -18.182 1 81.44 ? HN61 AMP 101 C 1 HETATM 34 H HN62 AMP . . . E 5 12.925 -21.841 -19.661 1 81.44 ? HN62 AMP 101 C 1 HETATM 35 H H2 AMP . . . E 5 15.713 -18.202 -19.708 1 90.14 ? H2 AMP 101 C 1 # _model_server_stats.io_time_ms 34 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 368 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 35 #