data_4MV8 # _model_server_result.job_id 9nTdZnGLYnuYrLMnPGH-Ow _model_server_result.datetime_utc '2025-01-11 01:47:41' _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 4mv8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":502}' # _entry.id 4MV8 # _exptl.entry_id 4MV8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 3 _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 4MV8 _cell.length_a 86.839 _cell.length_b 86.839 _cell.length_c 103.222 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4MV8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 172 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 64' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 PISA monomeric 1 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,C,D 1 1,2 A,B,C,D 2 1 # 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' 4_365 -x-2,-y+1,z -1 0 0 0 -1 0 0 0 1 -217.0975 75.20478 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 4MV8 _atom_sites.fract_transf_matrix[1][1] 0.011516 _atom_sites.fract_transf_matrix[1][2] 0.006649 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013297 _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] 0.009688 _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 PO4 A 1 501 1 PO4 PO4 . C 3 ACP A 1 502 1 ACP ACP . D 4 HOH A 1 601 1 HOH HOH . D 4 HOH A 2 602 2 HOH HOH . D 4 HOH A 3 603 3 HOH HOH . D 4 HOH A 4 604 4 HOH HOH . D 4 HOH A 5 605 5 HOH HOH . D 4 HOH A 6 606 6 HOH HOH . D 4 HOH A 7 607 7 HOH HOH . D 4 HOH A 8 608 8 HOH HOH . D 4 HOH A 9 609 9 HOH HOH . D 4 HOH A 10 610 10 HOH HOH . D 4 HOH A 11 611 11 HOH HOH . D 4 HOH A 12 612 12 HOH HOH . D 4 HOH A 13 613 13 HOH HOH . D 4 HOH A 14 614 14 HOH HOH . D 4 HOH A 15 615 15 HOH HOH . D 4 HOH A 16 616 16 HOH HOH . D 4 HOH A 17 617 17 HOH HOH . D 4 HOH A 18 618 18 HOH HOH . D 4 HOH A 19 619 19 HOH HOH . D 4 HOH A 20 620 20 HOH HOH . D 4 HOH A 21 621 21 HOH HOH . D 4 HOH A 22 622 22 HOH HOH . D 4 HOH A 23 623 23 HOH HOH . D 4 HOH A 24 624 24 HOH HOH . D 4 HOH A 25 625 25 HOH HOH . D 4 HOH A 26 626 26 HOH HOH . D 4 HOH A 27 627 27 HOH HOH . D 4 HOH A 28 628 28 HOH HOH . D 4 HOH A 29 629 29 HOH HOH . D 4 HOH A 30 630 30 HOH HOH . D 4 HOH A 31 631 31 HOH HOH . D 4 HOH A 32 632 32 HOH HOH . D 4 HOH A 33 633 33 HOH HOH . D 4 HOH A 34 634 34 HOH HOH . D 4 HOH A 35 635 35 HOH HOH . D 4 HOH A 36 636 36 HOH HOH . D 4 HOH A 37 637 37 HOH HOH . D 4 HOH A 38 638 38 HOH HOH . D 4 HOH A 39 639 39 HOH HOH . D 4 HOH A 40 640 40 HOH HOH . D 4 HOH A 41 641 41 HOH HOH . D 4 HOH A 42 642 42 HOH HOH . D 4 HOH A 43 643 43 HOH HOH . D 4 HOH A 44 644 44 HOH HOH . D 4 HOH A 45 645 45 HOH HOH . D 4 HOH A 46 646 46 HOH HOH . D 4 HOH A 47 647 47 HOH HOH . D 4 HOH A 48 648 48 HOH HOH . D 4 HOH A 49 649 49 HOH HOH . D 4 HOH A 50 650 50 HOH HOH . D 4 HOH A 51 651 51 HOH HOH . D 4 HOH A 52 652 52 HOH HOH . D 4 HOH A 53 653 53 HOH HOH . D 4 HOH A 54 654 54 HOH HOH . D 4 HOH A 55 655 55 HOH HOH . D 4 HOH A 56 656 56 HOH HOH . D 4 HOH A 57 657 57 HOH HOH . D 4 HOH A 58 658 58 HOH HOH . D 4 HOH A 59 659 59 HOH HOH . D 4 HOH A 60 660 60 HOH HOH . D 4 HOH A 61 661 61 HOH HOH . D 4 HOH A 62 662 62 HOH HOH . D 4 HOH A 63 663 63 HOH HOH . D 4 HOH A 64 664 64 HOH HOH . D 4 HOH A 65 665 65 HOH HOH . D 4 HOH A 66 666 66 HOH HOH . D 4 HOH A 67 667 67 HOH HOH . D 4 HOH A 68 668 68 HOH HOH . D 4 HOH A 69 669 69 HOH HOH . D 4 HOH A 70 670 70 HOH HOH . D 4 HOH A 71 671 71 HOH HOH . D 4 HOH A 72 672 72 HOH HOH . D 4 HOH A 73 673 73 HOH HOH . D 4 HOH A 74 674 74 HOH HOH . D 4 HOH A 75 675 75 HOH HOH . D 4 HOH A 76 676 76 HOH HOH . D 4 HOH A 77 677 77 HOH HOH . D 4 HOH A 78 678 78 HOH HOH . D 4 HOH A 79 679 79 HOH HOH . D 4 HOH A 80 680 80 HOH HOH . D 4 HOH A 81 681 81 HOH HOH . D 4 HOH A 82 682 82 HOH HOH . D 4 HOH A 83 683 83 HOH HOH . D 4 HOH A 84 684 84 HOH HOH . D 4 HOH A 85 685 85 HOH HOH . D 4 HOH A 86 686 86 HOH HOH . D 4 HOH A 87 687 87 HOH HOH . D 4 HOH A 88 688 88 HOH HOH . D 4 HOH A 89 689 89 HOH HOH . D 4 HOH A 90 690 90 HOH HOH . D 4 HOH A 91 691 91 HOH HOH . D 4 HOH A 92 692 92 HOH HOH . D 4 HOH A 93 693 93 HOH HOH . D 4 HOH A 94 694 94 HOH HOH . D 4 HOH A 95 695 95 HOH HOH . D 4 HOH A 96 696 96 HOH HOH . D 4 HOH A 97 697 97 HOH HOH . D 4 HOH A 98 698 98 HOH HOH . D 4 HOH A 99 699 99 HOH HOH . D 4 HOH A 100 700 100 HOH HOH . D 4 HOH A 101 701 101 HOH HOH . D 4 HOH A 102 702 102 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 . . . C 3 -83.625 24.636 -6.892 1 158.08 ? PG ACP 502 A 1 HETATM 2 O O1G ACP . . . C 3 -83.171 23.265 -6.459 1 157.11 ? O1G ACP 502 A 1 HETATM 3 O O2G ACP . . . C 3 -84.39 25.322 -5.713 1 103.51 ? O2G ACP 502 A 1 HETATM 4 O O3G ACP . . . C 3 -84.587 24.496 -8.128 1 89.42 ? O3G ACP 502 A 1 HETATM 5 P PB ACP . . . C 3 -80.606 24.948 -6.735 1 142.11 ? PB ACP 502 A 1 HETATM 6 O O1B ACP . . . C 3 -80.869 23.788 -5.822 1 141.43 ? O1B ACP 502 A 1 HETATM 7 O O2B ACP . . . C 3 -79.841 26.034 -5.939 1 142.48 ? O2B ACP 502 A 1 HETATM 8 C C3B ACP . . . C 3 -82.193 25.66 -7.359 1 115.85 ? C3B ACP 502 A 1 HETATM 9 P PA ACP . . . C 3 -78.174 24.62 -7.848 1 142.42 ? PA ACP 502 A 1 HETATM 10 O O1A ACP . . . C 3 -77.521 23.715 -8.882 1 141.79 ? O1A ACP 502 A 1 HETATM 11 O O2A ACP . . . C 3 -77.701 24.202 -6.473 1 142.69 ? O2A ACP 502 A 1 HETATM 12 O O3A ACP . . . C 3 -79.728 24.479 -7.929 1 148.57 ? O3A ACP 502 A 1 HETATM 13 O O5' ACP . . . C 3 -77.777 26.115 -8.135 1 90.08 ? O5' ACP 502 A 1 HETATM 14 C C5' ACP . . . C 3 -78.577 26.894 -8.974 1 89.45 ? C5' ACP 502 A 1 HETATM 15 C C4' ACP . . . C 3 -78.047 28.276 -9.056 1 88.55 ? C4' ACP 502 A 1 HETATM 16 O O4' ACP . . . C 3 -76.596 28.281 -9.301 1 87.7 ? O4' ACP 502 A 1 HETATM 17 C C3' ACP . . . C 3 -78.646 28.982 -10.161 1 87.94 ? C3' ACP 502 A 1 HETATM 18 O O3' ACP . . . C 3 -79.879 29.616 -9.762 1 86.2 ? O3' ACP 502 A 1 HETATM 19 C C2' ACP . . . C 3 -77.689 29.961 -10.548 1 89.41 ? C2' ACP 502 A 1 HETATM 20 O O2' ACP . . . C 3 -77.901 31.178 -9.797 1 93.17 ? O2' ACP 502 A 1 HETATM 21 C C1' ACP . . . C 3 -76.399 29.416 -10.242 1 85.01 ? C1' ACP 502 A 1 HETATM 22 N N9 ACP . . . C 3 -75.796 28.971 -11.437 1 76.25 ? N9 ACP 502 A 1 HETATM 23 C C8 ACP . . . C 3 -75.672 27.699 -11.841 1 71.82 ? C8 ACP 502 A 1 HETATM 24 N N7 ACP . . . C 3 -75.061 27.661 -13.01 1 69.11 ? N7 ACP 502 A 1 HETATM 25 C C5 ACP . . . C 3 -74.77 28.902 -13.406 1 68.55 ? C5 ACP 502 A 1 HETATM 26 C C6 ACP . . . C 3 -74.142 29.456 -14.529 1 66.14 ? C6 ACP 502 A 1 HETATM 27 N N6 ACP . . . C 3 -73.662 28.6 -15.562 1 66.19 ? N6 ACP 502 A 1 HETATM 28 N N1 ACP . . . C 3 -74.005 30.771 -14.629 1 64.81 ? N1 ACP 502 A 1 HETATM 29 C C2 ACP . . . C 3 -74.454 31.604 -13.662 1 65.73 ? C2 ACP 502 A 1 HETATM 30 N N3 ACP . . . C 3 -75.064 31.106 -12.563 1 68.48 ? N3 ACP 502 A 1 HETATM 31 C C4 ACP . . . C 3 -75.235 29.773 -12.407 1 71.32 ? C4 ACP 502 A 1 HETATM 32 H HOG2 ACP . . . C 3 -85.05 25.832 -6.042 1 124.21 ? HOG2 ACP 502 A 1 HETATM 33 H HOG3 ACP . . . C 3 -85.33 24.065 -7.879 1 107.3 ? HOG3 ACP 502 A 1 HETATM 34 H HOB2 ACP . . . C 3 -79.287 25.646 -5.369 1 170.98 ? HOB2 ACP 502 A 1 HETATM 35 H H3B1 ACP . . . C 3 -82.308 26.545 -6.967 1 139.02 ? H3B1 ACP 502 A 1 HETATM 36 H H3B2 ACP . . . C 3 -82.155 25.745 -8.329 1 139.02 ? H3B2 ACP 502 A 1 HETATM 37 H "H5'1" ACP . . . C 3 -78.583 26.497 -9.873 1 107.34 ? "H5'1" ACP 502 A 1 HETATM 38 H "H5'2" ACP . . . C 3 -79.487 26.915 -8.626 1 107.34 ? "H5'2" ACP 502 A 1 HETATM 39 H H4' ACP . . . C 3 -78.241 28.752 -8.217 1 106.26 ? H4' ACP 502 A 1 HETATM 40 H H3' ACP . . . C 3 -78.809 28.375 -10.892 1 105.52 ? H3' ACP 502 A 1 HETATM 41 H HO3' ACP . . . C 3 -79.703 30.376 -9.371 1 103.45 ? HO3' ACP 502 A 1 HETATM 42 H H2' ACP . . . C 3 -77.758 30.138 -11.5 1 107.29 ? H2' ACP 502 A 1 HETATM 43 H HO2' ACP . . . C 3 -77.636 31.058 -8.956 1 111.8 ? HO2' ACP 502 A 1 HETATM 44 H H1' ACP . . . C 3 -75.84 30.103 -9.823 1 102.01 ? H1' ACP 502 A 1 HETATM 45 H H8 ACP . . . C 3 -75.988 26.911 -11.341 1 86.18 ? H8 ACP 502 A 1 HETATM 46 H HN61 ACP . . . C 3 -72.785 28.406 -15.615 1 79.42 ? HN61 ACP 502 A 1 HETATM 47 H HN62 ACP . . . C 3 -74.246 28.247 -16.174 1 79.42 ? HN62 ACP 502 A 1 HETATM 48 H H2 ACP . . . C 3 -74.341 32.555 -13.757 1 78.88 ? H2 ACP 502 A 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 287 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 48 #