data_7OOG # _model_server_result.job_id lHJhYRMi5TCzCQaS-sVP4g _model_server_result.datetime_utc '2024-11-14 20:27:53' _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 7oog # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":503}' # _entry.id 7OOG # _exptl.entry_id 7OOG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 426.216 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'AMP PHOSPHORAMIDATE' _entity.pdbx_number_of_molecules 2 _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 7OOG _cell.length_a 79.997 _cell.length_b 101.027 _cell.length_c 103.184 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7OOG _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,AA 1 1 B,R,S,T,U,V,W,X,Y,Z,BA 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 ? 4 E N N ? 4 S N 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 covale ? covale1 A C PRO 364 A PRO 390 1_555 A N CSX 365 A CSX 391 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? covale ? covale2 A C CSX 365 A CSX 391 1_555 A N LYS 366 A LYS 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.346 ? covale ? covale3 B C PRO 364 B PRO 390 1_555 B N CSX 365 B CSX 391 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale4 B C CSX 365 B CSX 391 1_555 B N LYS 366 B LYS 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? metalc ? metalc1 E O1B AN2 . A AN2 503 1_555 Q MG MG . A MG 515 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.967 ? metalc ? metalc2 Q MG MG . A MG 515 1_555 AA O HOH . A HOH 630 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.92 ? metalc ? metalc3 B OD1 ASP 13 B ASP 39 1_555 Z MG MG . B MG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.608 ? metalc ? metalc4 Y O4 PO4 . B PO4 508 1_555 Z MG MG . B MG 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.47 ? # _chem_comp.formula 'C10 H16 N6 O9 P2' _chem_comp.formula_weight 426.216 _chem_comp.id AN2 _chem_comp.mon_nstd_flag . _chem_comp.name 'AMP PHOSPHORAMIDATE' _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 N3B PB AN2 sing 13 n n N3B H3B1 AN2 sing 14 n n N3B H3B2 AN2 sing 15 n n PB O2B AN2 sing 16 n n PB O1B AN2 doub 17 n n PB O3A AN2 sing 18 n n O2B HO2B AN2 sing 19 n n O3A PA AN2 sing 20 n n PA O1A AN2 doub 21 n n PA O2A AN2 sing 22 n n PA O5' AN2 sing 23 n n O2A HO2A AN2 sing 24 n n O5' C5' AN2 sing 25 n n C5' C4' AN2 sing 26 n n C5' "H5'1" AN2 sing 27 n n C5' "H5'2" AN2 sing 28 n n C4' O4' AN2 sing 29 n n C4' C3' AN2 sing 30 n n C4' H4' AN2 sing 31 n n O4' C1' AN2 sing 32 n n C3' O3' AN2 sing 33 n n C3' C2' AN2 sing 34 n n C3' H3' AN2 sing 35 n n O3' HA AN2 sing 36 n n C2' O2' AN2 sing 37 n n C2' C1' AN2 sing 38 n n C2' H2' AN2 sing 39 n n O2' HB AN2 sing 40 n n C1' N9 AN2 sing 41 n n C1' H1' AN2 sing 42 n n N9 C8 AN2 sing 43 n y N9 C4 AN2 sing 44 n y C8 N7 AN2 doub 45 n y C8 H8 AN2 sing 46 n n N7 C5 AN2 sing 47 n y C5 C4 AN2 doub 48 n y C5 C6 AN2 sing 49 n y C4 N3 AN2 sing 50 n y N3 C2 AN2 doub 51 n y C2 N1 AN2 sing 52 n y C2 H2 AN2 sing 53 n n N1 C6 AN2 doub 54 n y C6 N6 AN2 sing 55 n n N6 H6N1 AN2 sing 56 n n N6 H6N2 AN2 sing 57 n n # _atom_sites.entry_id 7OOG _atom_sites.fract_transf_matrix[1][1] 0.0125 _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] 0.009898 _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] 0.009691 _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 GOL A 1 501 504 GOL GOL . D 3 PG4 A 1 502 1001 PG4 PG4 . E 4 AN2 A 1 503 1301 AN2 AN2 . F 2 GOL A 1 504 1401 GOL GOL . G 2 GOL A 1 505 1501 GOL GOL . H 2 GOL A 1 506 1601 GOL GOL . I 2 GOL A 1 507 1701 GOL GOL . J 2 GOL A 1 508 1801 GOL GOL . K 2 GOL A 1 509 1901 GOL GOL . L 2 GOL A 1 510 2001 GOL GOL . M 5 HEW A 1 511 2101 HEW LIG . N 6 PO4 A 1 512 1 PO4 PO4 . O 7 CL A 1 513 1 CL CL . P 7 CL A 1 514 2 CL CL . Q 8 MG A 1 515 1 MG MG . R 2 GOL B 1 501 503 GOL GOL . S 4 AN2 B 1 502 1101 AN2 AN2 . T 2 GOL B 1 503 1201 GOL GOL . U 2 GOL B 1 504 1401 GOL GOL . V 2 GOL B 1 505 1501 GOL GOL . W 2 GOL B 1 506 1701 GOL GOL . X 5 HEW B 1 511 2101 HEW LIG . Y 6 PO4 B 1 508 2 PO4 PO4 . Z 8 MG B 1 509 2 MG MG . AA 9 HOH A 1 601 76 HOH HOH . AA 9 HOH A 2 602 290 HOH HOH . AA 9 HOH A 3 603 601 HOH HOH . AA 9 HOH A 4 604 145 HOH HOH . AA 9 HOH A 5 605 272 HOH HOH . AA 9 HOH A 6 606 608 HOH HOH . AA 9 HOH A 7 607 357 HOH HOH . AA 9 HOH A 8 608 121 HOH HOH . AA 9 HOH A 9 609 341 HOH HOH . AA 9 HOH A 10 610 353 HOH HOH . AA 9 HOH A 11 611 653 HOH HOH . AA 9 HOH A 12 612 633 HOH HOH . AA 9 HOH A 13 613 355 HOH HOH . AA 9 HOH A 14 614 776 HOH HOH . AA 9 HOH A 15 615 680 HOH HOH . AA 9 HOH A 16 616 624 HOH HOH . AA 9 HOH A 17 617 108 HOH HOH . AA 9 HOH A 18 618 636 HOH HOH . AA 9 HOH A 19 619 642 HOH HOH . AA 9 HOH A 20 620 675 HOH HOH . AA 9 HOH A 21 621 663 HOH HOH . AA 9 HOH A 22 622 701 HOH HOH . AA 9 HOH A 23 623 699 HOH HOH . AA 9 HOH A 24 624 342 HOH HOH . AA 9 HOH A 25 625 337 HOH HOH . AA 9 HOH A 26 626 656 HOH HOH . AA 9 HOH A 27 627 707 HOH HOH . AA 9 HOH A 28 628 728 HOH HOH . AA 9 HOH A 29 629 788 HOH HOH . AA 9 HOH A 30 630 720 HOH HOH . AA 9 HOH A 31 631 692 HOH HOH . AA 9 HOH A 32 632 674 HOH HOH . AA 9 HOH A 33 633 687 HOH HOH . AA 9 HOH A 34 634 328 HOH HOH . AA 9 HOH A 35 635 695 HOH HOH . AA 9 HOH A 36 636 668 HOH HOH . AA 9 HOH A 37 637 135 HOH HOH . AA 9 HOH A 38 638 658 HOH HOH . AA 9 HOH A 39 639 706 HOH HOH . AA 9 HOH A 40 640 712 HOH HOH . AA 9 HOH A 41 641 351 HOH HOH . AA 9 HOH A 42 642 715 HOH HOH . AA 9 HOH A 43 643 206 HOH HOH . AA 9 HOH A 44 644 708 HOH HOH . AA 9 HOH A 45 645 218 HOH HOH . AA 9 HOH A 46 646 264 HOH HOH . AA 9 HOH A 47 647 689 HOH HOH . AA 9 HOH A 48 648 734 HOH HOH . AA 9 HOH A 49 649 686 HOH HOH . AA 9 HOH A 50 650 726 HOH HOH . AA 9 HOH A 51 651 289 HOH HOH . AA 9 HOH A 52 652 717 HOH HOH . AA 9 HOH A 53 653 265 HOH HOH . AA 9 HOH A 54 654 286 HOH HOH . AA 9 HOH A 55 655 605 HOH HOH . AA 9 HOH A 56 656 313 HOH HOH . AA 9 HOH A 57 657 344 HOH HOH . AA 9 HOH A 58 658 748 HOH HOH . AA 9 HOH A 59 659 133 HOH HOH . AA 9 HOH A 60 660 13 HOH HOH . AA 9 HOH A 61 661 759 HOH HOH . AA 9 HOH A 62 662 343 HOH HOH . AA 9 HOH A 63 663 233 HOH HOH . AA 9 HOH A 64 664 349 HOH HOH . AA 9 HOH A 65 665 321 HOH HOH . AA 9 HOH A 66 666 760 HOH HOH . AA 9 HOH A 67 667 319 HOH HOH . AA 9 HOH A 68 668 767 HOH HOH . AA 9 HOH A 69 669 114 HOH HOH . AA 9 HOH A 70 670 227 HOH HOH . AA 9 HOH A 71 671 334 HOH HOH . AA 9 HOH A 72 672 207 HOH HOH . AA 9 HOH A 73 673 768 HOH HOH . AA 9 HOH A 74 674 729 HOH HOH . AA 9 HOH A 75 675 273 HOH HOH . AA 9 HOH A 76 676 269 HOH HOH . AA 9 HOH A 77 677 255 HOH HOH . AA 9 HOH A 78 678 308 HOH HOH . AA 9 HOH A 79 679 331 HOH HOH . AA 9 HOH A 80 680 782 HOH HOH . AA 9 HOH A 81 681 775 HOH HOH . AA 9 HOH A 82 682 97 HOH HOH . AA 9 HOH A 83 683 311 HOH HOH . AA 9 HOH A 84 684 340 HOH HOH . AA 9 HOH A 85 685 651 HOH HOH . AA 9 HOH A 86 686 51 HOH HOH . AA 9 HOH A 87 687 166 HOH HOH . AA 9 HOH A 88 688 659 HOH HOH . AA 9 HOH A 89 689 324 HOH HOH . AA 9 HOH A 90 690 352 HOH HOH . AA 9 HOH A 91 691 257 HOH HOH . AA 9 HOH A 92 692 167 HOH HOH . AA 9 HOH A 93 693 326 HOH HOH . AA 9 HOH A 94 694 346 HOH HOH . AA 9 HOH A 95 695 151 HOH HOH . BA 9 HOH B 1 601 173 HOH HOH . BA 9 HOH B 2 602 356 HOH HOH . BA 9 HOH B 3 603 604 HOH HOH . BA 9 HOH B 4 604 168 HOH HOH . BA 9 HOH B 5 605 620 HOH HOH . BA 9 HOH B 6 606 159 HOH HOH . BA 9 HOH B 7 607 339 HOH HOH . BA 9 HOH B 8 608 643 HOH HOH . BA 9 HOH B 9 609 180 HOH HOH . BA 9 HOH B 10 610 335 HOH HOH . BA 9 HOH B 11 611 333 HOH HOH . BA 9 HOH B 12 612 642 HOH HOH . BA 9 HOH B 13 613 656 HOH HOH . BA 9 HOH B 14 614 639 HOH HOH . BA 9 HOH B 15 615 174 HOH HOH . BA 9 HOH B 16 616 181 HOH HOH . BA 9 HOH B 17 617 702 HOH HOH . BA 9 HOH B 18 618 336 HOH HOH . BA 9 HOH B 19 619 354 HOH HOH . BA 9 HOH B 20 620 645 HOH HOH . BA 9 HOH B 21 621 682 HOH HOH . BA 9 HOH B 22 622 330 HOH HOH . BA 9 HOH B 23 623 189 HOH HOH . BA 9 HOH B 24 624 332 HOH HOH . BA 9 HOH B 25 625 703 HOH HOH . BA 9 HOH B 26 626 345 HOH HOH . BA 9 HOH B 27 627 7 HOH HOH . BA 9 HOH B 28 628 310 HOH HOH . BA 9 HOH B 29 629 678 HOH HOH . BA 9 HOH B 30 630 329 HOH HOH . BA 9 HOH B 31 631 683 HOH HOH . BA 9 HOH B 32 632 350 HOH HOH . BA 9 HOH B 33 633 803 HOH HOH . BA 9 HOH B 34 634 348 HOH HOH . BA 9 HOH B 35 635 681 HOH HOH . BA 9 HOH B 36 636 74 HOH HOH . BA 9 HOH B 37 637 309 HOH HOH . BA 9 HOH B 38 638 623 HOH HOH . BA 9 HOH B 39 639 666 HOH HOH . BA 9 HOH B 40 640 347 HOH HOH . BA 9 HOH B 41 641 325 HOH HOH . BA 9 HOH B 42 642 660 HOH HOH . BA 9 HOH B 43 643 315 HOH HOH . BA 9 HOH B 44 644 307 HOH HOH . BA 9 HOH B 45 645 338 HOH HOH . BA 9 HOH B 46 646 1 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 N N3B AN2 . . . E 4 29.515 74.145 54.394 1 51.52 ? N3B AN2 503 A 1 HETATM 2 P PB AN2 . . . E 4 28.753 75.631 54.097 1 52.43 ? PB AN2 503 A 1 HETATM 3 O O2B AN2 . . . E 4 29.794 76.518 53.532 1 53.67 ? O2B AN2 503 A 1 HETATM 4 O O1B AN2 . . . E 4 27.634 75.329 53.004 1 53.99 ? O1B AN2 503 A 1 HETATM 5 O O3A AN2 . . . E 4 28.19 76.305 55.432 1 51.82 ? O3A AN2 503 A 1 HETATM 6 P PA AN2 . . . E 4 26.811 77.062 55.758 1 50.99 ? PA AN2 503 A 1 HETATM 7 O O1A AN2 . . . E 4 26.225 77.869 54.633 1 52.07 ? O1A AN2 503 A 1 HETATM 8 O O2A AN2 . . . E 4 25.942 76.096 56.512 1 50.44 ? O2A AN2 503 A 1 HETATM 9 O O5' AN2 . . . E 4 27.376 78.116 56.801 1 51.46 ? O5' AN2 503 A 1 HETATM 10 C C5' AN2 . . . E 4 28.095 77.702 57.954 1 51.78 ? C5' AN2 503 A 1 HETATM 11 C C4' AN2 . . . E 4 28.672 78.978 58.541 1 52.04 ? C4' AN2 503 A 1 HETATM 12 O O4' AN2 . . . E 4 27.553 79.841 58.753 1 51.69 ? O4' AN2 503 A 1 HETATM 13 C C3' AN2 . . . E 4 29.3 78.751 59.916 1 52.19 ? C3' AN2 503 A 1 HETATM 14 O O3' AN2 . . . E 4 30.519 79.48 59.928 1 51.48 ? O3' AN2 503 A 1 HETATM 15 C C2' AN2 . . . E 4 28.327 79.49 60.831 1 52.95 ? C2' AN2 503 A 1 HETATM 16 O O2' AN2 . . . E 4 28.922 80.019 62.03 1 54.42 ? O2' AN2 503 A 1 HETATM 17 C C1' AN2 . . . E 4 27.772 80.569 59.926 1 51.6 ? C1' AN2 503 A 1 HETATM 18 N N9 AN2 . . . E 4 26.482 81.06 60.423 1 51.05 ? N9 AN2 503 A 1 HETATM 19 C C8 AN2 . . . E 4 25.365 80.327 60.589 1 51.27 ? C8 AN2 503 A 1 HETATM 20 N N7 AN2 . . . E 4 24.396 81.072 61.174 1 51.13 ? N7 AN2 503 A 1 HETATM 21 C C5 AN2 . . . E 4 24.91 82.292 61.364 1 50.76 ? C5 AN2 503 A 1 HETATM 22 C C4 AN2 . . . E 4 26.29 82.267 60.919 1 50.37 ? C4 AN2 503 A 1 HETATM 23 N N3 AN2 . . . E 4 27.016 83.393 60.956 1 50.57 ? N3 AN2 503 A 1 HETATM 24 C C2 AN2 . . . E 4 26.506 84.528 61.459 1 51.02 ? C2 AN2 503 A 1 HETATM 25 N N1 AN2 . . . E 4 25.23 84.64 61.864 1 51.37 ? N1 AN2 503 A 1 HETATM 26 C C6 AN2 . . . E 4 24.409 83.564 61.87 1 51.39 ? C6 AN2 503 A 1 HETATM 27 N N6 AN2 . . . E 4 23.172 83.591 62.391 1 51.92 ? N6 AN2 503 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 32 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 27 #