data_6B3V # _model_server_result.job_id CoPPly5Kgr3yU4bTclKKqw _model_server_result.datetime_utc '2025-02-24 12:35:14' _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 6b3v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 6B3V # _exptl.entry_id 6B3V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC 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 6B3V _cell.length_a 98.874 _cell.length_b 98.874 _cell.length_c 69.117 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6B3V _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 5_554 x-y,-y,-z-1/3 1 0 0 0 -1 0 0 0 -1 0 0 -23.039 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 metalc ? metalc1 B O3G ANP . A ANP 501 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? metalc ? metalc2 B O2B ANP . A ANP 501 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc3 C MG MG . A MG 502 1_555 G O HOH . A HOH 632 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? metalc ? metalc4 C MG MG . A MG 502 1_555 G O HOH . A HOH 646 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? metalc ? metalc5 C MG MG . A MG 502 1_555 G O HOH . A HOH 653 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc6 C MG MG . A MG 502 1_555 G O HOH . A HOH 663 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id ANP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 PG O1G ANP doub 64 n n PG O2G ANP sing 65 n n PG O3G ANP sing 66 n n PG N3B ANP sing 67 n n O2G HOG2 ANP sing 68 n n O3G HOG3 ANP sing 69 n n PB O1B ANP doub 70 n n PB O2B ANP sing 71 n n PB N3B ANP sing 72 n n PB O3A ANP sing 73 n n O2B HOB2 ANP sing 74 n n N3B HNB1 ANP sing 75 n n PA O1A ANP doub 76 n n PA O2A ANP sing 77 n n PA O3A ANP sing 78 n n PA O5' ANP sing 79 n n O2A HOA2 ANP sing 80 n n O5' C5' ANP sing 81 n n C5' C4' ANP sing 82 n n C5' "H5'1" ANP sing 83 n n C5' "H5'2" ANP sing 84 n n C4' O4' ANP sing 85 n n C4' C3' ANP sing 86 n n C4' H4' ANP sing 87 n n O4' C1' ANP sing 88 n n C3' O3' ANP sing 89 n n C3' C2' ANP sing 90 n n C3' H3' ANP sing 91 n n O3' HO3' ANP sing 92 n n C2' O2' ANP sing 93 n n C2' C1' ANP sing 94 n n C2' H2' ANP sing 95 n n O2' HO2' ANP sing 96 n n C1' N9 ANP sing 97 n n C1' H1' ANP sing 98 n n N9 C8 ANP sing 99 n y N9 C4 ANP sing 100 n y C8 N7 ANP doub 101 n y C8 H8 ANP sing 102 n n N7 C5 ANP sing 103 n y C5 C6 ANP sing 104 n y C5 C4 ANP doub 105 n y C6 N6 ANP sing 106 n n C6 N1 ANP doub 107 n y N6 HN61 ANP sing 108 n n N6 HN62 ANP sing 109 n n N1 C2 ANP sing 110 n y C2 N3 ANP doub 111 n y C2 H2 ANP sing 112 n n N3 C4 ANP sing 113 n y # _atom_sites.entry_id 6B3V _atom_sites.fract_transf_matrix[1][1] 0.010114 _atom_sites.fract_transf_matrix[1][2] 0.005839 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011679 _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] 0.014468 _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 ANP A 1 501 501 ANP ANP . C 3 MG A 1 502 1 MG MG . D 4 EDO A 1 503 1 EDO EDO . E 4 EDO A 1 504 2 EDO EDO . F 5 7DQ A 1 505 1 7DQ LIG . G 6 HOH A 1 601 166 HOH HOH . G 6 HOH A 2 602 72 HOH HOH . G 6 HOH A 3 603 98 HOH HOH . G 6 HOH A 4 604 54 HOH HOH . G 6 HOH A 5 605 46 HOH HOH . G 6 HOH A 6 606 115 HOH HOH . G 6 HOH A 7 607 80 HOH HOH . G 6 HOH A 8 608 110 HOH HOH . G 6 HOH A 9 609 19 HOH HOH . G 6 HOH A 10 610 70 HOH HOH . G 6 HOH A 11 611 136 HOH HOH . G 6 HOH A 12 612 176 HOH HOH . G 6 HOH A 13 613 173 HOH HOH . G 6 HOH A 14 614 113 HOH HOH . G 6 HOH A 15 615 15 HOH HOH . G 6 HOH A 16 616 55 HOH HOH . G 6 HOH A 17 617 159 HOH HOH . G 6 HOH A 18 618 34 HOH HOH . G 6 HOH A 19 619 1 HOH HOH . G 6 HOH A 20 620 14 HOH HOH . G 6 HOH A 21 621 57 HOH HOH . G 6 HOH A 22 622 89 HOH HOH . G 6 HOH A 23 623 134 HOH HOH . G 6 HOH A 24 624 132 HOH HOH . G 6 HOH A 25 625 43 HOH HOH . G 6 HOH A 26 626 44 HOH HOH . G 6 HOH A 27 627 50 HOH HOH . G 6 HOH A 28 628 112 HOH HOH . G 6 HOH A 29 629 39 HOH HOH . G 6 HOH A 30 630 106 HOH HOH . G 6 HOH A 31 631 8 HOH HOH . G 6 HOH A 32 632 4 HOH HOH . G 6 HOH A 33 633 171 HOH HOH . G 6 HOH A 34 634 123 HOH HOH . G 6 HOH A 35 635 150 HOH HOH . G 6 HOH A 36 636 127 HOH HOH . G 6 HOH A 37 637 85 HOH HOH . G 6 HOH A 38 638 129 HOH HOH . G 6 HOH A 39 639 62 HOH HOH . G 6 HOH A 40 640 154 HOH HOH . G 6 HOH A 41 641 74 HOH HOH . G 6 HOH A 42 642 10 HOH HOH . G 6 HOH A 43 643 126 HOH HOH . G 6 HOH A 44 644 13 HOH HOH . G 6 HOH A 45 645 11 HOH HOH . G 6 HOH A 46 646 5 HOH HOH . G 6 HOH A 47 647 31 HOH HOH . G 6 HOH A 48 648 78 HOH HOH . G 6 HOH A 49 649 59 HOH HOH . G 6 HOH A 50 650 23 HOH HOH . G 6 HOH A 51 651 93 HOH HOH . G 6 HOH A 52 652 102 HOH HOH . G 6 HOH A 53 653 7 HOH HOH . G 6 HOH A 54 654 111 HOH HOH . G 6 HOH A 55 655 26 HOH HOH . G 6 HOH A 56 656 163 HOH HOH . G 6 HOH A 57 657 104 HOH HOH . G 6 HOH A 58 658 84 HOH HOH . G 6 HOH A 59 659 152 HOH HOH . G 6 HOH A 60 660 97 HOH HOH . G 6 HOH A 61 661 63 HOH HOH . G 6 HOH A 62 662 69 HOH HOH . G 6 HOH A 63 663 6 HOH HOH . G 6 HOH A 64 664 41 HOH HOH . G 6 HOH A 65 665 141 HOH HOH . G 6 HOH A 66 666 42 HOH HOH . G 6 HOH A 67 667 130 HOH HOH . G 6 HOH A 68 668 40 HOH HOH . G 6 HOH A 69 669 20 HOH HOH . G 6 HOH A 70 670 32 HOH HOH . G 6 HOH A 71 671 160 HOH HOH . G 6 HOH A 72 672 146 HOH HOH . G 6 HOH A 73 673 18 HOH HOH . G 6 HOH A 74 674 73 HOH HOH . G 6 HOH A 75 675 88 HOH HOH . G 6 HOH A 76 676 92 HOH HOH . G 6 HOH A 77 677 27 HOH HOH . G 6 HOH A 78 678 52 HOH HOH . G 6 HOH A 79 679 149 HOH HOH . G 6 HOH A 80 680 148 HOH HOH . G 6 HOH A 81 681 36 HOH HOH . G 6 HOH A 82 682 71 HOH HOH . G 6 HOH A 83 683 139 HOH HOH . G 6 HOH A 84 684 94 HOH HOH . G 6 HOH A 85 685 48 HOH HOH . G 6 HOH A 86 686 12 HOH HOH . G 6 HOH A 87 687 140 HOH HOH . G 6 HOH A 88 688 2 HOH HOH . G 6 HOH A 89 689 66 HOH HOH . G 6 HOH A 90 690 67 HOH HOH . G 6 HOH A 91 691 125 HOH HOH . G 6 HOH A 92 692 75 HOH HOH . G 6 HOH A 93 693 3 HOH HOH . G 6 HOH A 94 694 155 HOH HOH . G 6 HOH A 95 695 16 HOH HOH . G 6 HOH A 96 696 49 HOH HOH . G 6 HOH A 97 697 79 HOH HOH . G 6 HOH A 98 698 145 HOH HOH . G 6 HOH A 99 699 37 HOH HOH . G 6 HOH A 100 700 100 HOH HOH . G 6 HOH A 101 701 28 HOH HOH . G 6 HOH A 102 702 77 HOH HOH . G 6 HOH A 103 703 168 HOH HOH . G 6 HOH A 104 704 25 HOH HOH . G 6 HOH A 105 705 21 HOH HOH . G 6 HOH A 106 706 29 HOH HOH . G 6 HOH A 107 707 56 HOH HOH . G 6 HOH A 108 708 135 HOH HOH . G 6 HOH A 109 709 9 HOH HOH . G 6 HOH A 110 710 82 HOH HOH . G 6 HOH A 111 711 51 HOH HOH . G 6 HOH A 112 712 101 HOH HOH . G 6 HOH A 113 713 64 HOH HOH . G 6 HOH A 114 714 47 HOH HOH . G 6 HOH A 115 715 35 HOH HOH . G 6 HOH A 116 716 151 HOH HOH . G 6 HOH A 117 717 65 HOH HOH . G 6 HOH A 118 718 162 HOH HOH . G 6 HOH A 119 719 76 HOH HOH . G 6 HOH A 120 720 45 HOH HOH . G 6 HOH A 121 721 119 HOH HOH . G 6 HOH A 122 722 86 HOH HOH . G 6 HOH A 123 723 161 HOH HOH . G 6 HOH A 124 724 17 HOH HOH . G 6 HOH A 125 725 147 HOH HOH . G 6 HOH A 126 726 38 HOH HOH . G 6 HOH A 127 727 167 HOH HOH . G 6 HOH A 128 728 60 HOH HOH . G 6 HOH A 129 729 172 HOH HOH . G 6 HOH A 130 730 124 HOH HOH . G 6 HOH A 131 731 22 HOH HOH . G 6 HOH A 132 732 61 HOH HOH . G 6 HOH A 133 733 33 HOH HOH . G 6 HOH A 134 734 118 HOH HOH . G 6 HOH A 135 735 95 HOH HOH . G 6 HOH A 136 736 157 HOH HOH . G 6 HOH A 137 737 107 HOH HOH . G 6 HOH A 138 738 170 HOH HOH . G 6 HOH A 139 739 53 HOH HOH . G 6 HOH A 140 740 153 HOH HOH . G 6 HOH A 141 741 122 HOH HOH . G 6 HOH A 142 742 138 HOH HOH . G 6 HOH A 143 743 103 HOH HOH . G 6 HOH A 144 744 137 HOH HOH . G 6 HOH A 145 745 105 HOH HOH . G 6 HOH A 146 746 58 HOH HOH . G 6 HOH A 147 747 156 HOH HOH . G 6 HOH A 148 748 169 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 ANP . . . B 2 -28.636 -14.196 -1.802 1 20.9 ? PG ANP 501 A 1 HETATM 2 O O1G ANP . . . B 2 -28.776 -13.294 -3.024 1 24.7 ? O1G ANP 501 A 1 HETATM 3 O O2G ANP . . . B 2 -28.379 -15.626 -2.282 1 21.35 ? O2G ANP 501 A 1 HETATM 4 O O3G ANP . . . B 2 -29.916 -14.101 -0.921 1 19.85 ? O3G ANP 501 A 1 HETATM 5 P PB ANP . . . B 2 -27.098 -13.691 0.672 1 17.96 ? PB ANP 501 A 1 HETATM 6 O O1B ANP . . . B 2 -25.739 -14.285 0.991 1 17.91 ? O1B ANP 501 A 1 HETATM 7 O O2B ANP . . . B 2 -28.282 -14.422 1.335 1 19.56 ? O2B ANP 501 A 1 HETATM 8 N N3B ANP . . . B 2 -27.291 -13.643 -0.975 1 18.61 ? N3B ANP 501 A 1 HETATM 9 P PA ANP . . . B 2 -27.166 -11.453 2.51 1 17.59 ? PA ANP 501 A 1 HETATM 10 O O1A ANP . . . B 2 -28.568 -11.002 2.883 1 17.64 ? O1A ANP 501 A 1 HETATM 11 O O2A ANP . . . B 2 -26.48 -12.333 3.557 1 18.18 ? O2A ANP 501 A 1 HETATM 12 O O3A ANP . . . B 2 -27.16 -12.173 1.085 1 16.78 ? O3A ANP 501 A 1 HETATM 13 O O5' ANP . . . B 2 -26.356 -10.142 2.199 1 16.82 ? O5' ANP 501 A 1 HETATM 14 C C5' ANP . . . B 2 -25.094 -10.155 1.568 1 18.59 ? C5' ANP 501 A 1 HETATM 15 C C4' ANP . . . B 2 -24.499 -8.772 1.449 1 17.84 ? C4' ANP 501 A 1 HETATM 16 O O4' ANP . . . B 2 -24.3 -8.231 2.74 1 19.32 ? O4' ANP 501 A 1 HETATM 17 C C3' ANP . . . B 2 -23.208 -8.647 0.721 1 17.46 ? C3' ANP 501 A 1 HETATM 18 O O3' ANP . . . B 2 -23.477 -8.566 -0.659 1 18.37 ? O3' ANP 501 A 1 HETATM 19 C C2' ANP . . . B 2 -22.631 -7.399 1.305 1 18.09 ? C2' ANP 501 A 1 HETATM 20 O O2' ANP . . . B 2 -23.051 -6.255 0.61 1 18.9 ? O2' ANP 501 A 1 HETATM 21 C C1' ANP . . . B 2 -23.192 -7.372 2.696 1 17.88 ? C1' ANP 501 A 1 HETATM 22 N N9 ANP . . . B 2 -22.313 -7.764 3.784 1 19.3 ? N9 ANP 501 A 1 HETATM 23 C C8 ANP . . . B 2 -22.462 -7.349 5.056 1 20.76 ? C8 ANP 501 A 1 HETATM 24 N N7 ANP . . . B 2 -21.55 -7.902 5.84 1 22.19 ? N7 ANP 501 A 1 HETATM 25 C C5 ANP . . . B 2 -20.793 -8.717 5.101 1 19.54 ? C5 ANP 501 A 1 HETATM 26 C C6 ANP . . . B 2 -19.706 -9.541 5.346 1 24.08 ? C6 ANP 501 A 1 HETATM 27 N N6 ANP . . . B 2 -19.161 -9.648 6.672 1 28.11 ? N6 ANP 501 A 1 HETATM 28 N N1 ANP . . . B 2 -19.148 -10.238 4.334 1 25.62 ? N1 ANP 501 A 1 HETATM 29 C C2 ANP . . . B 2 -19.63 -10.164 3.081 1 25.72 ? C2 ANP 501 A 1 HETATM 30 N N3 ANP . . . B 2 -20.677 -9.366 2.798 1 21.26 ? N3 ANP 501 A 1 HETATM 31 C C4 ANP . . . B 2 -21.273 -8.64 3.773 1 18.41 ? C4 ANP 501 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 432 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 31 #