data_3VQX # _model_server_result.job_id ZZSSM2wZWnpM5qwW2NTFUQ _model_server_result.datetime_utc '2025-01-11 13:05:34' _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 3vqx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":501}' # _entry.id 3VQX # _exptl.entry_id 3VQX _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 106.92 _cell.angle_beta 91.41 _cell.angle_gamma 113.83 _cell.entry_id 3VQX _cell.length_a 62.798 _cell.length_b 69.422 _cell.length_c 83.326 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VQX _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # 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 dimeric 2 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,B,E,F,G,H,M,N 1 1 C,D,I,J,K,L,O,P 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 G 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 3VQX _atom_sites.fract_transf_matrix[1][1] 0.015924 _atom_sites.fract_transf_matrix[1][2] 0.007033 _atom_sites.fract_transf_matrix[1][3] 0.002867 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015747 _atom_sites.fract_transf_matrix[2][3] 0.005489 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.012713 _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 2 AMP A 1 501 501 AMP AMP . F 3 PO4 A 1 502 5954 PO4 PO4 . G 2 AMP B 1 501 502 AMP AMP . H 3 PO4 B 1 502 5953 PO4 PO4 . I 4 BLK C 1 601 601 BLK BLK . J 3 PO4 C 1 602 603 PO4 PO4 . K 4 BLK D 1 501 501 BLK BLK . L 3 PO4 D 1 502 503 PO4 PO4 . M 5 HOH A 1 601 601 HOH HOH . M 5 HOH A 2 602 602 HOH HOH . M 5 HOH A 3 603 603 HOH HOH . M 5 HOH A 4 604 604 HOH HOH . M 5 HOH A 5 605 605 HOH HOH . M 5 HOH A 6 606 606 HOH HOH . M 5 HOH A 7 607 607 HOH HOH . M 5 HOH A 8 608 608 HOH HOH . M 5 HOH A 9 609 609 HOH HOH . M 5 HOH A 10 610 610 HOH HOH . M 5 HOH A 11 611 611 HOH HOH . M 5 HOH A 12 612 612 HOH HOH . M 5 HOH A 13 613 613 HOH HOH . M 5 HOH A 14 614 614 HOH HOH . M 5 HOH A 15 615 615 HOH HOH . M 5 HOH A 16 616 616 HOH HOH . M 5 HOH A 17 617 617 HOH HOH . M 5 HOH A 18 618 618 HOH HOH . M 5 HOH A 19 619 619 HOH HOH . M 5 HOH A 20 620 620 HOH HOH . M 5 HOH A 21 621 621 HOH HOH . M 5 HOH A 22 622 622 HOH HOH . M 5 HOH A 23 623 623 HOH HOH . M 5 HOH A 24 624 624 HOH HOH . M 5 HOH A 25 625 625 HOH HOH . M 5 HOH A 26 626 626 HOH HOH . M 5 HOH A 27 627 627 HOH HOH . M 5 HOH A 28 628 628 HOH HOH . M 5 HOH A 29 629 629 HOH HOH . M 5 HOH A 30 630 630 HOH HOH . M 5 HOH A 31 631 631 HOH HOH . M 5 HOH A 32 632 632 HOH HOH . M 5 HOH A 33 633 633 HOH HOH . M 5 HOH A 34 634 634 HOH HOH . M 5 HOH A 35 635 635 HOH HOH . M 5 HOH A 36 636 636 HOH HOH . M 5 HOH A 37 637 637 HOH HOH . M 5 HOH A 38 638 638 HOH HOH . M 5 HOH A 39 639 639 HOH HOH . M 5 HOH A 40 640 640 HOH HOH . M 5 HOH A 41 641 641 HOH HOH . M 5 HOH A 42 642 642 HOH HOH . M 5 HOH A 43 643 643 HOH HOH . M 5 HOH A 44 644 644 HOH HOH . M 5 HOH A 45 645 645 HOH HOH . M 5 HOH A 46 646 646 HOH HOH . N 5 HOH B 1 601 601 HOH HOH . N 5 HOH B 2 602 602 HOH HOH . N 5 HOH B 3 603 603 HOH HOH . N 5 HOH B 4 604 604 HOH HOH . N 5 HOH B 5 605 605 HOH HOH . N 5 HOH B 6 606 606 HOH HOH . N 5 HOH B 7 607 607 HOH HOH . N 5 HOH B 8 608 608 HOH HOH . N 5 HOH B 9 609 609 HOH HOH . N 5 HOH B 10 610 610 HOH HOH . N 5 HOH B 11 611 611 HOH HOH . N 5 HOH B 12 612 612 HOH HOH . N 5 HOH B 13 613 613 HOH HOH . N 5 HOH B 14 614 614 HOH HOH . N 5 HOH B 15 615 615 HOH HOH . N 5 HOH B 16 616 616 HOH HOH . N 5 HOH B 17 617 617 HOH HOH . N 5 HOH B 18 618 618 HOH HOH . N 5 HOH B 19 619 619 HOH HOH . N 5 HOH B 20 620 620 HOH HOH . N 5 HOH B 21 621 621 HOH HOH . N 5 HOH B 22 622 622 HOH HOH . N 5 HOH B 23 623 623 HOH HOH . N 5 HOH B 24 624 624 HOH HOH . N 5 HOH B 25 625 625 HOH HOH . N 5 HOH B 26 626 626 HOH HOH . N 5 HOH B 27 627 627 HOH HOH . N 5 HOH B 28 628 628 HOH HOH . N 5 HOH B 29 629 629 HOH HOH . N 5 HOH B 30 630 630 HOH HOH . N 5 HOH B 31 631 631 HOH HOH . N 5 HOH B 32 632 632 HOH HOH . N 5 HOH B 33 633 633 HOH HOH . N 5 HOH B 34 634 634 HOH HOH . N 5 HOH B 35 635 635 HOH HOH . N 5 HOH B 36 636 636 HOH HOH . N 5 HOH B 37 637 637 HOH HOH . N 5 HOH B 38 638 638 HOH HOH . N 5 HOH B 39 639 639 HOH HOH . N 5 HOH B 40 640 640 HOH HOH . N 5 HOH B 41 641 641 HOH HOH . N 5 HOH B 42 642 642 HOH HOH . N 5 HOH B 43 643 643 HOH HOH . N 5 HOH B 44 644 644 HOH HOH . N 5 HOH B 45 645 645 HOH HOH . N 5 HOH B 46 646 646 HOH HOH . N 5 HOH B 47 647 647 HOH HOH . N 5 HOH B 48 648 648 HOH HOH . N 5 HOH B 49 649 649 HOH HOH . O 5 HOH C 1 701 701 HOH HOH . O 5 HOH C 2 702 702 HOH HOH . O 5 HOH C 3 703 703 HOH HOH . O 5 HOH C 4 704 704 HOH HOH . O 5 HOH C 5 705 705 HOH HOH . O 5 HOH C 6 706 706 HOH HOH . O 5 HOH C 7 707 707 HOH HOH . O 5 HOH C 8 708 708 HOH HOH . O 5 HOH C 9 709 709 HOH HOH . O 5 HOH C 10 710 710 HOH HOH . O 5 HOH C 11 711 711 HOH HOH . O 5 HOH C 12 712 712 HOH HOH . O 5 HOH C 13 713 713 HOH HOH . O 5 HOH C 14 714 714 HOH HOH . O 5 HOH C 15 715 715 HOH HOH . O 5 HOH C 16 716 716 HOH HOH . O 5 HOH C 17 717 717 HOH HOH . O 5 HOH C 18 718 718 HOH HOH . O 5 HOH C 19 719 719 HOH HOH . O 5 HOH C 20 720 720 HOH HOH . O 5 HOH C 21 721 721 HOH HOH . O 5 HOH C 22 722 722 HOH HOH . O 5 HOH C 23 723 723 HOH HOH . O 5 HOH C 24 724 724 HOH HOH . O 5 HOH C 25 725 725 HOH HOH . O 5 HOH C 26 726 726 HOH HOH . O 5 HOH C 27 727 727 HOH HOH . O 5 HOH C 28 728 728 HOH HOH . O 5 HOH C 29 729 729 HOH HOH . O 5 HOH C 30 730 730 HOH HOH . O 5 HOH C 31 731 731 HOH HOH . O 5 HOH C 32 732 732 HOH HOH . O 5 HOH C 33 733 733 HOH HOH . O 5 HOH C 34 734 734 HOH HOH . O 5 HOH C 35 735 735 HOH HOH . O 5 HOH C 36 736 736 HOH HOH . O 5 HOH C 37 737 737 HOH HOH . O 5 HOH C 38 738 738 HOH HOH . O 5 HOH C 39 739 739 HOH HOH . P 5 HOH D 1 601 601 HOH HOH . P 5 HOH D 2 602 602 HOH HOH . P 5 HOH D 3 603 603 HOH HOH . P 5 HOH D 4 604 604 HOH HOH . P 5 HOH D 5 605 605 HOH HOH . P 5 HOH D 6 606 606 HOH HOH . P 5 HOH D 7 607 607 HOH HOH . P 5 HOH D 8 608 608 HOH HOH . P 5 HOH D 9 609 609 HOH HOH . P 5 HOH D 10 610 610 HOH HOH . P 5 HOH D 11 611 611 HOH HOH . P 5 HOH D 12 612 612 HOH HOH . P 5 HOH D 13 613 613 HOH HOH . P 5 HOH D 14 614 614 HOH HOH . P 5 HOH D 15 615 615 HOH HOH . P 5 HOH D 16 616 616 HOH HOH . P 5 HOH D 17 617 617 HOH HOH . P 5 HOH D 18 618 618 HOH HOH . P 5 HOH D 19 619 619 HOH HOH . P 5 HOH D 20 620 620 HOH HOH . P 5 HOH D 21 621 621 HOH HOH . P 5 HOH D 22 622 622 HOH HOH . P 5 HOH D 23 623 623 HOH HOH . P 5 HOH D 24 624 624 HOH HOH . P 5 HOH D 25 625 625 HOH HOH . P 5 HOH D 26 626 626 HOH HOH . P 5 HOH D 27 627 627 HOH HOH . P 5 HOH D 28 628 628 HOH HOH . P 5 HOH D 29 629 629 HOH HOH . P 5 HOH D 30 630 630 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 . . . G 2 -5.251 19.026 81.758 1 81.24 ? P AMP 501 B 1 HETATM 2 O O1P AMP . . . G 2 -5.522 17.731 80.841 1 82.06 ? O1P AMP 501 B 1 HETATM 3 O O2P AMP . . . G 2 -6.271 19.203 82.815 1 80.19 ? O2P AMP 501 B 1 HETATM 4 O O3P AMP . . . G 2 -3.756 18.854 82.332 1 81.77 ? O3P AMP 501 B 1 HETATM 5 O O5' AMP . . . G 2 -5.185 20.272 80.743 1 78.64 ? O5' AMP 501 B 1 HETATM 6 C C5' AMP . . . G 2 -5.173 20.045 79.332 1 74.9 ? C5' AMP 501 B 1 HETATM 7 C C4' AMP . . . G 2 -4.945 21.366 78.597 1 71.63 ? C4' AMP 501 B 1 HETATM 8 O O4' AMP . . . G 2 -5.887 22.37 79.013 1 70.43 ? O4' AMP 501 B 1 HETATM 9 C C3' AMP . . . G 2 -3.579 21.956 78.943 1 70.42 ? C3' AMP 501 B 1 HETATM 10 O O3' AMP . . . G 2 -2.577 21.314 78.151 1 69.61 ? O3' AMP 501 B 1 HETATM 11 C C2' AMP . . . G 2 -3.834 23.361 78.404 1 69.42 ? C2' AMP 501 B 1 HETATM 12 O O2' AMP . . . G 2 -3.98 23.304 76.983 1 69.89 ? O2' AMP 501 B 1 HETATM 13 C C1' AMP . . . G 2 -5.198 23.634 79.041 1 69.25 ? C1' AMP 501 B 1 HETATM 14 N N9 AMP . . . G 2 -5.034 24.044 80.454 1 66.45 ? N9 AMP 501 B 1 HETATM 15 C C8 AMP . . . G 2 -4.95 23.24 81.512 1 66.37 ? C8 AMP 501 B 1 HETATM 16 N N7 AMP . . . G 2 -4.836 23.968 82.621 1 64.94 ? N7 AMP 501 B 1 HETATM 17 C C5 AMP . . . G 2 -4.849 25.25 82.268 1 64.53 ? C5 AMP 501 B 1 HETATM 18 C C6 AMP . . . G 2 -4.77 26.45 82.967 1 63.89 ? C6 AMP 501 B 1 HETATM 19 N N6 AMP . . . G 2 -4.671 26.461 84.293 1 60.63 ? N6 AMP 501 B 1 HETATM 20 N N1 AMP . . . G 2 -4.813 27.6 82.28 1 63.46 ? N1 AMP 501 B 1 HETATM 21 C C2 AMP . . . G 2 -4.93 27.608 80.964 1 63.5 ? C2 AMP 501 B 1 HETATM 22 N N3 AMP . . . G 2 -5.01 26.487 80.268 1 63.51 ? N3 AMP 501 B 1 HETATM 23 C C4 AMP . . . G 2 -4.972 25.3 80.887 1 65 ? C4 AMP 501 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 23 #