data_3X01 # _model_server_result.job_id xhfN5Vu69o5Ifkk1NFsqVA _model_server_result.datetime_utc '2024-11-13 11:42:21' _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 3x01 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":501}' # _entry.id 3X01 # _exptl.entry_id 3X01 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ADENOSINE MONOPHOSPHATE' _entity.pdbx_number_of_molecules 4 _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 3X01 _cell.length_a 108.385 _cell.length_b 181.79 _cell.length_c 107.619 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3X01 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _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,H _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N # _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 13 n n P O2P AMP sing 14 n n P O3P AMP sing 15 n n P O5' AMP sing 16 n n O2P HOP2 AMP sing 17 n n O3P HOP3 AMP sing 18 n n O5' C5' AMP sing 19 n n C5' C4' AMP sing 20 n n C5' "H5'1" AMP sing 21 n n C5' "H5'2" AMP sing 22 n n C4' O4' AMP sing 23 n n C4' C3' AMP sing 24 n n C4' H4' AMP sing 25 n n O4' C1' AMP sing 26 n n C3' O3' AMP sing 27 n n C3' C2' AMP sing 28 n n C3' H3' AMP sing 29 n n O3' HO3' AMP sing 30 n n C2' O2' AMP sing 31 n n C2' C1' AMP sing 32 n n C2' H2' AMP sing 33 n n O2' HO2' AMP sing 34 n n C1' N9 AMP sing 35 n n C1' H1' AMP sing 36 n n N9 C8 AMP sing 37 n y N9 C4 AMP sing 38 n y C8 N7 AMP doub 39 n y C8 H8 AMP sing 40 n n N7 C5 AMP sing 41 n y C5 C6 AMP sing 42 n y C5 C4 AMP doub 43 n y C6 N6 AMP sing 44 n n C6 N1 AMP doub 45 n y N6 HN61 AMP sing 46 n n N6 HN62 AMP sing 47 n n N1 C2 AMP sing 48 n y C2 N3 AMP doub 49 n y C2 H2 AMP sing 50 n n N3 C4 AMP sing 51 n y # _atom_sites.entry_id 3X01 _atom_sites.fract_transf_matrix[1][1] 0.009226 _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] 0.005501 _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] 0.009292 _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 AMP A 1 501 501 AMP AMP . D 2 AMP A 1 502 502 AMP AMP . E 2 AMP A 1 503 503 AMP AMP . F 2 AMP B 1 501 501 AMP AMP . G 3 HOH A 1 601 601 HOH HOH . G 3 HOH A 2 602 602 HOH HOH . G 3 HOH A 3 603 603 HOH HOH . G 3 HOH A 4 604 604 HOH HOH . G 3 HOH A 5 605 605 HOH HOH . G 3 HOH A 6 606 606 HOH HOH . G 3 HOH A 7 607 607 HOH HOH . G 3 HOH A 8 608 608 HOH HOH . G 3 HOH A 9 609 609 HOH HOH . G 3 HOH A 10 610 610 HOH HOH . G 3 HOH A 11 611 611 HOH HOH . G 3 HOH A 12 612 612 HOH HOH . G 3 HOH A 13 613 613 HOH HOH . G 3 HOH A 14 614 614 HOH HOH . G 3 HOH A 15 615 615 HOH HOH . G 3 HOH A 16 616 616 HOH HOH . G 3 HOH A 17 617 617 HOH HOH . G 3 HOH A 18 618 618 HOH HOH . G 3 HOH A 19 619 619 HOH HOH . G 3 HOH A 20 620 620 HOH HOH . G 3 HOH A 21 621 621 HOH HOH . G 3 HOH A 22 622 622 HOH HOH . G 3 HOH A 23 623 623 HOH HOH . G 3 HOH A 24 624 624 HOH HOH . G 3 HOH A 25 625 625 HOH HOH . G 3 HOH A 26 626 626 HOH HOH . G 3 HOH A 27 627 627 HOH HOH . G 3 HOH A 28 628 628 HOH HOH . G 3 HOH A 29 629 629 HOH HOH . G 3 HOH A 30 630 630 HOH HOH . G 3 HOH A 31 631 631 HOH HOH . G 3 HOH A 32 632 632 HOH HOH . G 3 HOH A 33 633 633 HOH HOH . G 3 HOH A 34 634 634 HOH HOH . G 3 HOH A 35 635 635 HOH HOH . G 3 HOH A 36 636 636 HOH HOH . G 3 HOH A 37 637 637 HOH HOH . G 3 HOH A 38 638 638 HOH HOH . G 3 HOH A 39 639 639 HOH HOH . G 3 HOH A 40 640 640 HOH HOH . G 3 HOH A 41 641 641 HOH HOH . G 3 HOH A 42 642 642 HOH HOH . G 3 HOH A 43 643 643 HOH HOH . G 3 HOH A 44 644 644 HOH HOH . G 3 HOH A 45 645 645 HOH HOH . G 3 HOH A 46 646 646 HOH HOH . G 3 HOH A 47 647 647 HOH HOH . G 3 HOH A 48 648 648 HOH HOH . G 3 HOH A 49 649 649 HOH HOH . G 3 HOH A 50 650 650 HOH HOH . G 3 HOH A 51 651 651 HOH HOH . G 3 HOH A 52 652 652 HOH HOH . G 3 HOH A 53 653 653 HOH HOH . G 3 HOH A 54 654 654 HOH HOH . G 3 HOH A 55 655 655 HOH HOH . H 3 HOH B 1 601 601 HOH HOH . H 3 HOH B 2 602 602 HOH HOH . H 3 HOH B 3 603 603 HOH HOH . H 3 HOH B 4 604 604 HOH HOH . H 3 HOH B 5 605 605 HOH HOH . H 3 HOH B 6 606 606 HOH HOH . H 3 HOH B 7 607 607 HOH HOH . H 3 HOH B 8 608 608 HOH HOH . H 3 HOH B 9 609 609 HOH HOH . H 3 HOH B 10 610 610 HOH HOH . H 3 HOH B 11 611 611 HOH HOH . H 3 HOH B 12 612 612 HOH HOH . H 3 HOH B 13 613 613 HOH HOH . H 3 HOH B 14 614 614 HOH HOH . H 3 HOH B 15 615 615 HOH HOH . H 3 HOH B 16 616 616 HOH HOH . H 3 HOH B 17 617 617 HOH HOH . H 3 HOH B 18 618 618 HOH HOH . H 3 HOH B 19 619 619 HOH HOH . H 3 HOH B 20 620 620 HOH HOH . H 3 HOH B 21 621 621 HOH HOH . H 3 HOH B 22 622 622 HOH HOH . H 3 HOH B 23 623 623 HOH HOH . H 3 HOH B 24 624 624 HOH HOH . H 3 HOH B 25 625 625 HOH HOH . H 3 HOH B 26 626 626 HOH HOH . H 3 HOH B 27 627 627 HOH HOH . H 3 HOH B 28 628 628 HOH HOH . H 3 HOH B 29 629 629 HOH HOH . H 3 HOH B 30 630 630 HOH HOH . H 3 HOH B 31 631 631 HOH HOH . H 3 HOH B 32 632 632 HOH HOH . H 3 HOH B 33 633 633 HOH HOH . H 3 HOH B 34 634 634 HOH HOH . H 3 HOH B 35 635 635 HOH HOH . H 3 HOH B 36 636 636 HOH HOH . H 3 HOH B 37 637 637 HOH HOH . H 3 HOH B 38 638 638 HOH HOH . H 3 HOH B 39 639 639 HOH HOH . H 3 HOH B 40 640 640 HOH HOH . H 3 HOH B 41 641 641 HOH HOH . H 3 HOH B 42 642 642 HOH HOH . H 3 HOH B 43 643 643 HOH HOH . H 3 HOH B 44 644 644 HOH HOH . H 3 HOH B 45 645 645 HOH HOH . H 3 HOH B 46 646 646 HOH HOH . H 3 HOH B 47 647 647 HOH HOH . H 3 HOH B 48 648 648 HOH HOH . H 3 HOH B 49 649 649 HOH HOH . H 3 HOH B 50 650 650 HOH HOH . H 3 HOH B 51 651 651 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 . . . F 2 33.448 3.074 -27.59 1 143.19 ? P AMP 501 B 1 HETATM 2 O O1P AMP . . . F 2 34.349 2.743 -28.716 1 141.98 ? O1P AMP 501 B 1 HETATM 3 O O2P AMP . . . F 2 32.338 2.111 -27.373 1 144.26 ? O2P AMP 501 B 1 HETATM 4 O O3P AMP . . . F 2 33.005 4.478 -27.525 1 141.59 ? O3P AMP 501 B 1 HETATM 5 O O5' AMP . . . F 2 34.302 2.927 -26.273 1 117.92 ? O5' AMP 501 B 1 HETATM 6 C C5' AMP . . . F 2 35.536 2.26 -26.3 1 112.37 ? C5' AMP 501 B 1 HETATM 7 C C4' AMP . . . F 2 35.836 1.527 -24.998 1 105.84 ? C4' AMP 501 B 1 HETATM 8 O O4' AMP . . . F 2 35.275 2.224 -23.906 1 101.16 ? O4' AMP 501 B 1 HETATM 9 C C3' AMP . . . F 2 35.259 0.148 -24.916 1 102.98 ? C3' AMP 501 B 1 HETATM 10 O O3' AMP . . . F 2 36.166 -0.682 -24.215 1 100.89 ? O3' AMP 501 B 1 HETATM 11 C C2' AMP . . . F 2 34.06 0.281 -24.051 1 99.45 ? C2' AMP 501 B 1 HETATM 12 O O2' AMP . . . F 2 33.858 -0.984 -23.461 1 94.27 ? O2' AMP 501 B 1 HETATM 13 C C1' AMP . . . F 2 34.554 1.339 -23.092 1 97.1 ? C1' AMP 501 B 1 HETATM 14 N N9 AMP . . . F 2 33.523 2.111 -22.412 1 85.48 ? N9 AMP 501 B 1 HETATM 15 C C8 AMP . . . F 2 32.611 2.811 -23.02 1 82.89 ? C8 AMP 501 B 1 HETATM 16 N N7 AMP . . . F 2 31.825 3.405 -22.142 1 80.75 ? N7 AMP 501 B 1 HETATM 17 C C5 AMP . . . F 2 32.257 3.072 -20.957 1 79.59 ? C5 AMP 501 B 1 HETATM 18 C C6 AMP . . . F 2 31.877 3.371 -19.599 1 74.51 ? C6 AMP 501 B 1 HETATM 19 N N6 AMP . . . F 2 30.851 4.16 -19.389 1 74.78 ? N6 AMP 501 B 1 HETATM 20 N N1 AMP . . . F 2 32.562 2.849 -18.61 1 73.44 ? N1 AMP 501 B 1 HETATM 21 C C2 AMP . . . F 2 33.595 2.081 -18.834 1 72.54 ? C2 AMP 501 B 1 HETATM 22 N N3 AMP . . . F 2 33.992 1.778 -20.052 1 77.08 ? N3 AMP 501 B 1 HETATM 23 C C4 AMP . . . F 2 33.379 2.227 -21.132 1 78.32 ? C4 AMP 501 B 1 HETATM 24 H "H5'1" AMP . . . F 2 36.316 3.001 -26.477 1 134.8 ? "H5'1" AMP 501 B 1 HETATM 25 H "H5'2" AMP . . . F 2 35.547 1.57 -27.142 1 134.8 ? "H5'2" AMP 501 B 1 HETATM 26 H H4' AMP . . . F 2 36.92 1.456 -24.867 1 126.96 ? H4' AMP 501 B 1 HETATM 27 H H3' AMP . . . F 2 34.983 -0.27 -25.888 1 123.53 ? H3' AMP 501 B 1 HETATM 28 H HO3' AMP . . . F 2 36.943 -0.841 -24.763 1 121.03 ? HO3' AMP 501 B 1 HETATM 29 H H2' AMP . . . F 2 33.198 0.628 -24.631 1 119.29 ? H2' AMP 501 B 1 HETATM 30 H HO2' AMP . . . F 2 34.093 -1.669 -24.097 1 113.09 ? HO2' AMP 501 B 1 HETATM 31 H H1' AMP . . . F 2 35.224 0.87 -22.365 1 116.48 ? H1' AMP 501 B 1 HETATM 32 H H8 AMP . . . F 2 32.509 2.881 -24.092 1 99.42 ? H8 AMP 501 B 1 HETATM 33 H HN61 AMP . . . F 2 30.564 4.375 -18.451 1 89.69 ? HN61 AMP 501 B 1 HETATM 34 H HN62 AMP . . . F 2 30.346 4.537 -20.173 1 89.69 ? HN62 AMP 501 B 1 HETATM 35 H H2 AMP . . . F 2 34.131 1.676 -17.993 1 87.01 ? H2 AMP 501 B 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 18 _model_server_stats.element_count 35 #