data_2R7K # _model_server_result.job_id r5Styyg4g3089KA2tqeV1w _model_server_result.datetime_utc '2024-10-10 07:27:34' _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 2r7k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":400}' # _entry.id 2R7K # _exptl.entry_id 2R7K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC 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 120 _cell.entry_id 2R7K _cell.length_a 109.435 _cell.length_b 109.435 _cell.length_c 255.994 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2R7K _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 1,2,3,4,5,6 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 5 'crystal symmetry operation' 5_555 x-y,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 6 'crystal symmetry operation' 6_555 -x,-x+y,-z -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C11 H18 N5 O12 P3' _chem_comp.formula_weight 505.208 _chem_comp.id ACP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE" # 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 O1G ACP doub 1 n n PG O2G ACP sing 2 n n PG O3G ACP sing 3 n n PG C3B ACP sing 4 n n O2G HOG2 ACP sing 5 n n O3G HOG3 ACP sing 6 n n PB O1B ACP doub 7 n n PB O2B ACP sing 8 n n PB C3B ACP sing 9 n n PB O3A ACP sing 10 n n O2B HOB2 ACP sing 11 n n C3B H3B1 ACP sing 12 n n C3B H3B2 ACP sing 13 n n PA O1A ACP doub 14 n n PA O2A ACP sing 15 n n PA O3A ACP sing 16 n n PA O5' ACP sing 17 n n O2A HOA2 ACP sing 18 n n O5' C5' ACP sing 19 n n C5' C4' ACP sing 20 n n C5' "H5'1" ACP sing 21 n n C5' "H5'2" ACP sing 22 n n C4' O4' ACP sing 23 n n C4' C3' ACP sing 24 n n C4' H4' ACP sing 25 n n O4' C1' ACP sing 26 n n C3' O3' ACP sing 27 n n C3' C2' ACP sing 28 n n C3' H3' ACP sing 29 n n O3' HO3' ACP sing 30 n n C2' O2' ACP sing 31 n n C2' C1' ACP sing 32 n n C2' H2' ACP sing 33 n n O2' HO2' ACP sing 34 n n C1' N9 ACP sing 35 n n C1' H1' ACP sing 36 n n N9 C8 ACP sing 37 n y N9 C4 ACP sing 38 n y C8 N7 ACP doub 39 n y C8 H8 ACP sing 40 n n N7 C5 ACP sing 41 n y C5 C6 ACP sing 42 n y C5 C4 ACP doub 43 n y C6 N6 ACP sing 44 n n C6 N1 ACP doub 45 n y N6 HN61 ACP sing 46 n n N6 HN62 ACP sing 47 n n N1 C2 ACP sing 48 n y C2 N3 ACP doub 49 n y C2 H2 ACP sing 50 n n N3 C4 ACP sing 51 n y # _atom_sites.entry_id 2R7K _atom_sites.fract_transf_matrix[1][1] 0.009138 _atom_sites.fract_transf_matrix[1][2] 0.005276 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010551 _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] 0.003906 _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 B 2 SO4 A 1 500 500 SO4 SO4 . C 3 CL A 1 601 601 CL CL . D 3 CL A 1 602 602 CL CL . E 4 ACP A 1 400 400 ACP ACP . F 5 AMZ A 1 401 401 AMZ AMZ . G 6 HOH A 1 603 1 HOH HOH . G 6 HOH A 2 604 2 HOH HOH . G 6 HOH A 3 605 3 HOH HOH . G 6 HOH A 4 606 4 HOH HOH . G 6 HOH A 5 607 5 HOH HOH . G 6 HOH A 6 608 6 HOH HOH . G 6 HOH A 7 609 7 HOH HOH . G 6 HOH A 8 610 8 HOH HOH . G 6 HOH A 9 611 9 HOH HOH . G 6 HOH A 10 612 10 HOH HOH . G 6 HOH A 11 613 11 HOH HOH . G 6 HOH A 12 614 12 HOH HOH . G 6 HOH A 13 615 13 HOH HOH . G 6 HOH A 14 616 14 HOH HOH . G 6 HOH A 15 617 15 HOH HOH . G 6 HOH A 16 618 16 HOH HOH . G 6 HOH A 17 619 17 HOH HOH . G 6 HOH A 18 620 18 HOH HOH . G 6 HOH A 19 621 19 HOH HOH . G 6 HOH A 20 622 20 HOH HOH . G 6 HOH A 21 623 21 HOH HOH . G 6 HOH A 22 624 22 HOH HOH . G 6 HOH A 23 625 23 HOH HOH . G 6 HOH A 24 626 24 HOH HOH . G 6 HOH A 25 627 25 HOH HOH . G 6 HOH A 26 628 26 HOH HOH . G 6 HOH A 27 629 27 HOH HOH . G 6 HOH A 28 630 28 HOH HOH . G 6 HOH A 29 631 29 HOH HOH . G 6 HOH A 30 632 30 HOH HOH . G 6 HOH A 31 633 31 HOH HOH . G 6 HOH A 32 634 32 HOH HOH . G 6 HOH A 33 635 33 HOH HOH . G 6 HOH A 34 636 34 HOH HOH . G 6 HOH A 35 637 35 HOH HOH . G 6 HOH A 36 638 36 HOH HOH . G 6 HOH A 37 639 37 HOH HOH . G 6 HOH A 38 640 38 HOH HOH . G 6 HOH A 39 641 39 HOH HOH . G 6 HOH A 40 642 40 HOH HOH . G 6 HOH A 41 643 41 HOH HOH . G 6 HOH A 42 644 42 HOH HOH . G 6 HOH A 43 645 43 HOH HOH . G 6 HOH A 44 646 44 HOH HOH . G 6 HOH A 45 647 45 HOH HOH . G 6 HOH A 46 648 46 HOH HOH . G 6 HOH A 47 649 47 HOH HOH . G 6 HOH A 48 650 48 HOH HOH . G 6 HOH A 49 651 49 HOH HOH . G 6 HOH A 50 652 50 HOH HOH . G 6 HOH A 51 653 51 HOH HOH . G 6 HOH A 52 654 52 HOH HOH . G 6 HOH A 53 655 53 HOH HOH . G 6 HOH A 54 656 54 HOH HOH . G 6 HOH A 55 657 55 HOH HOH . G 6 HOH A 56 658 56 HOH HOH . G 6 HOH A 57 659 57 HOH HOH . G 6 HOH A 58 660 58 HOH HOH . G 6 HOH A 59 661 59 HOH HOH . G 6 HOH A 60 662 60 HOH HOH . G 6 HOH A 61 663 61 HOH HOH . G 6 HOH A 62 664 62 HOH HOH . G 6 HOH A 63 665 63 HOH HOH . G 6 HOH A 64 666 64 HOH HOH . G 6 HOH A 65 667 65 HOH HOH . G 6 HOH A 66 668 66 HOH HOH . G 6 HOH A 67 669 67 HOH HOH . G 6 HOH A 68 670 68 HOH HOH . G 6 HOH A 69 671 69 HOH HOH . G 6 HOH A 70 672 70 HOH HOH . G 6 HOH A 71 673 71 HOH HOH . G 6 HOH A 72 674 72 HOH HOH . G 6 HOH A 73 675 73 HOH HOH . G 6 HOH A 74 676 74 HOH HOH . G 6 HOH A 75 677 75 HOH HOH . G 6 HOH A 76 678 76 HOH HOH . G 6 HOH A 77 679 77 HOH HOH . G 6 HOH A 78 680 78 HOH HOH . G 6 HOH A 79 681 79 HOH HOH . G 6 HOH A 80 682 80 HOH HOH . G 6 HOH A 81 683 81 HOH HOH . G 6 HOH A 82 684 82 HOH HOH . G 6 HOH A 83 685 83 HOH HOH . G 6 HOH A 84 686 84 HOH HOH . G 6 HOH A 85 687 85 HOH HOH . G 6 HOH A 86 688 86 HOH HOH . G 6 HOH A 87 689 87 HOH HOH . G 6 HOH A 88 690 88 HOH HOH . G 6 HOH A 89 691 89 HOH HOH . G 6 HOH A 90 692 90 HOH HOH . G 6 HOH A 91 693 91 HOH HOH . G 6 HOH A 92 694 92 HOH HOH . G 6 HOH A 93 695 93 HOH HOH . G 6 HOH A 94 696 94 HOH HOH . G 6 HOH A 95 697 95 HOH HOH . G 6 HOH A 96 698 96 HOH HOH . G 6 HOH A 97 699 97 HOH HOH . G 6 HOH A 98 700 98 HOH HOH . G 6 HOH A 99 701 99 HOH HOH . G 6 HOH A 100 702 100 HOH HOH . G 6 HOH A 101 703 101 HOH HOH . G 6 HOH A 102 704 102 HOH HOH . G 6 HOH A 103 705 103 HOH HOH . G 6 HOH A 104 706 104 HOH HOH . G 6 HOH A 105 707 105 HOH HOH . G 6 HOH A 106 708 106 HOH HOH . G 6 HOH A 107 709 107 HOH HOH . G 6 HOH A 108 710 108 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 ACP . . . E 4 17.576 7.407 32.264 1 82.19 ? PG ACP 400 A 1 HETATM 2 O O1G ACP . . . E 4 18.457 6.388 32.95 1 83.07 ? O1G ACP 400 A 1 HETATM 3 O O2G ACP . . . E 4 18.34 8.375 31.389 1 80.72 ? O2G ACP 400 A 1 HETATM 4 O O3G ACP . . . E 4 16.359 6.803 31.598 1 84.48 ? O3G ACP 400 A 1 HETATM 5 P PB ACP . . . E 4 16.132 9.915 32.935 1 69.14 ? PB ACP 400 A 1 HETATM 6 O O1B ACP . . . E 4 15.493 9.571 31.611 1 72.71 ? O1B ACP 400 A 1 HETATM 7 O O2B ACP . . . E 4 17.136 11.048 32.956 1 69.65 ? O2B ACP 400 A 1 HETATM 8 C C3B ACP . . . E 4 16.912 8.422 33.607 1 73.08 ? C3B ACP 400 A 1 HETATM 9 P PA ACP . . . E 4 15.059 10.573 35.494 1 43.5 ? PA ACP 400 A 1 HETATM 10 O O1A ACP . . . E 4 14.878 12.048 35.738 1 43.1 ? O1A ACP 400 A 1 HETATM 11 O O2A ACP . . . E 4 16.242 9.825 36.053 1 46.26 ? O2A ACP 400 A 1 HETATM 12 O O3A ACP . . . E 4 14.915 10.332 33.904 1 57.8 ? O3A ACP 400 A 1 HETATM 13 O O5' ACP . . . E 4 13.747 9.835 36.034 1 42.97 ? O5' ACP 400 A 1 HETATM 14 C C5' ACP . . . E 4 13.728 8.421 36.155 1 36.77 ? C5' ACP 400 A 1 HETATM 15 C C4' ACP . . . E 4 12.276 8.057 36.375 1 41.13 ? C4' ACP 400 A 1 HETATM 16 O O4' ACP . . . E 4 11.846 8.547 37.649 1 39.22 ? O4' ACP 400 A 1 HETATM 17 C C3' ACP . . . E 4 11.37 8.734 35.358 1 37.53 ? C3' ACP 400 A 1 HETATM 18 O O3' ACP . . . E 4 11.214 7.965 34.157 1 42.27 ? O3' ACP 400 A 1 HETATM 19 C C2' ACP . . . E 4 10.071 8.881 36.12 1 41.93 ? C2' ACP 400 A 1 HETATM 20 O O2' ACP . . . E 4 9.318 7.676 35.993 1 42.84 ? O2' ACP 400 A 1 HETATM 21 C C1' ACP . . . E 4 10.515 9.056 37.571 1 34.38 ? C1' ACP 400 A 1 HETATM 22 N N9 ACP . . . E 4 10.568 10.498 37.889 1 33.81 ? N9 ACP 400 A 1 HETATM 23 C C8 ACP . . . E 4 11.572 11.324 37.534 1 31.03 ? C8 ACP 400 A 1 HETATM 24 N N7 ACP . . . E 4 11.334 12.588 37.956 1 33.89 ? N7 ACP 400 A 1 HETATM 25 C C5 ACP . . . E 4 10.153 12.577 38.604 1 33.3 ? C5 ACP 400 A 1 HETATM 26 C C6 ACP . . . E 4 9.324 13.575 39.311 1 31.22 ? C6 ACP 400 A 1 HETATM 27 N N6 ACP . . . E 4 9.713 14.869 39.397 1 34.99 ? N6 ACP 400 A 1 HETATM 28 N N1 ACP . . . E 4 8.161 13.155 39.85 1 36.47 ? N1 ACP 400 A 1 HETATM 29 C C2 ACP . . . E 4 7.76 11.869 39.77 1 34.2 ? C2 ACP 400 A 1 HETATM 30 N N3 ACP . . . E 4 8.467 10.907 39.146 1 35.61 ? N3 ACP 400 A 1 HETATM 31 C C4 ACP . . . E 4 9.648 11.198 38.549 1 28.69 ? C4 ACP 400 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 264 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 31 #