data_6G2A # _model_server_result.job_id gywe2sGQKtZATfOhPnkEww _model_server_result.datetime_utc '2024-11-21 23:31:28' _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 6g2a # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 6G2A # _exptl.entry_id 6G2A _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 526.332 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'Adenosine Diphosphate (Hydroxymethyl)pyrrolidine monoalcohol' _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 118.93 _cell.angle_gamma 90 _cell.entry_id 6G2A _cell.length_a 98.526 _cell.length_b 42.94 _cell.length_c 89.231 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6G2A _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,H,I _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _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 A OG SER 64 A SER 54 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? metalc ? metalc2 A OD1 ASP 65 A ASP 55 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc3 A OD1 ASP 66 A ASP 56 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc4 A OD2 ASP 314 A ASP 304 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc5 B O2N A3R . A A3R 401 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? metalc ? metalc6 C MG MG . A MG 402 1_555 I O HOH . A HOH 545 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? metalc ? metalc7 D MG MG . A MG 403 1_555 I O HOH . A HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? metalc ? metalc8 D MG MG . A MG 403 1_555 I O HOH . A HOH 512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.123 ? metalc ? metalc9 D MG MG . A MG 403 1_555 I O HOH . A HOH 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? metalc ? metalc10 D MG MG . A MG 403 1_555 I O HOH . A HOH 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? metalc ? metalc11 D MG MG . A MG 403 1_555 I O HOH . A HOH 628 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc12 D MG MG . A MG 403 1_555 I O HOH . A HOH 638 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? # _chem_comp.formula 'C15 H24 N6 O11 P2' _chem_comp.formula_weight 526.332 _chem_comp.id A3R _chem_comp.mon_nstd_flag . _chem_comp.name 'Adenosine Diphosphate (Hydroxymethyl)pyrrolidine monoalcohol' _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 N1 C2 A3R doub 1 n y N1 C6 A3R sing 2 n y C2 N3 A3R sing 3 n y N6 C6 A3R sing 4 n n C6 C5 A3R doub 5 n y N3 C4 A3R doub 6 n y C5 C4 A3R sing 7 n y C5 N7 A3R sing 8 n y C4 N9 A3R sing 9 n y N7 C8 A3R doub 10 n y N9 C1' A3R sing 11 n n N9 C8 A3R sing 12 n y O2' C2' A3R sing 13 n n C1' C2' A3R sing 14 n n C1' O4' A3R sing 15 n n C2' C3' A3R sing 16 n n O4' C4' A3R sing 17 n n C4' C3' A3R sing 18 n n C4' C5' A3R sing 19 n n C3' O3' A3R sing 20 n n C5' O5' A3R sing 21 n n O5' PA A3R sing 22 n n O1B PB A3R doub 23 n n PA O1A A3R doub 24 n n PA O2A A3R sing 25 n n PA O3A A3R sing 26 n n N4N C1N A3R sing 27 n n N4N C4N A3R sing 28 n n C5N C4N A3R sing 29 n n C5N O5N A3R sing 30 n n O3A PB A3R sing 31 n n PB O5N A3R sing 32 n n PB O2B A3R sing 33 n n C1N C2N A3R sing 34 n n C4N C3N A3R sing 35 n n C3N C2N A3R sing 36 n n C2N O2N A3R sing 37 n n C3N H1 A3R sing 38 n n C3N H2 A3R sing 39 n n C2N H3 A3R sing 40 n n O2N H4 A3R sing 41 n n C1N H5 A3R sing 42 n n C1N H6 A3R sing 43 n n N4N H7 A3R sing 44 n n C4N H9 A3R sing 45 n n C5N H10 A3R sing 46 n n C5N H11 A3R sing 47 n n O2B H12 A3R sing 48 n n O2A H13 A3R sing 49 n n C5' H14 A3R sing 50 n n C5' H15 A3R sing 51 n n C4' H16 A3R sing 52 n n C3' H17 A3R sing 53 n n O3' H18 A3R sing 54 n n C2' H19 A3R sing 55 n n O2' H20 A3R sing 56 n n C1' H21 A3R sing 57 n n C8 H22 A3R sing 58 n n C2 H23 A3R sing 59 n n N6 H24 A3R sing 60 n n N6 H25 A3R sing 61 n n # _atom_sites.entry_id 6G2A _atom_sites.fract_transf_matrix[1][1] 0.01015 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00561 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023288 _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] 0.012805 _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 A3R A 1 401 401 A3R A3R . C 3 MG A 1 402 402 MG MG . D 3 MG A 1 403 403 MG MG . E 4 CL A 1 404 404 CL CL . F 5 ACT A 1 405 405 ACT ACT . G 5 ACT A 1 406 406 ACT ACT . H 5 ACT A 1 407 407 ACT ACT . I 6 HOH A 1 501 501 HOH HOH . I 6 HOH A 2 502 502 HOH HOH . I 6 HOH A 3 503 503 HOH HOH . I 6 HOH A 4 504 504 HOH HOH . I 6 HOH A 5 505 505 HOH HOH . I 6 HOH A 6 506 506 HOH HOH . I 6 HOH A 7 507 507 HOH HOH . I 6 HOH A 8 508 508 HOH HOH . I 6 HOH A 9 509 509 HOH HOH . I 6 HOH A 10 510 510 HOH HOH . I 6 HOH A 11 511 511 HOH HOH . I 6 HOH A 12 512 512 HOH HOH . I 6 HOH A 13 513 513 HOH HOH . I 6 HOH A 14 514 514 HOH HOH . I 6 HOH A 15 515 515 HOH HOH . I 6 HOH A 16 516 516 HOH HOH . I 6 HOH A 17 517 517 HOH HOH . I 6 HOH A 18 518 518 HOH HOH . I 6 HOH A 19 519 519 HOH HOH . I 6 HOH A 20 520 520 HOH HOH . I 6 HOH A 21 521 521 HOH HOH . I 6 HOH A 22 522 522 HOH HOH . I 6 HOH A 23 523 523 HOH HOH . I 6 HOH A 24 524 524 HOH HOH . I 6 HOH A 25 525 525 HOH HOH . I 6 HOH A 26 526 526 HOH HOH . I 6 HOH A 27 527 527 HOH HOH . I 6 HOH A 28 528 528 HOH HOH . I 6 HOH A 29 529 529 HOH HOH . I 6 HOH A 30 530 530 HOH HOH . I 6 HOH A 31 531 531 HOH HOH . I 6 HOH A 32 532 532 HOH HOH . I 6 HOH A 33 533 533 HOH HOH . I 6 HOH A 34 534 534 HOH HOH . I 6 HOH A 35 535 535 HOH HOH . I 6 HOH A 36 536 536 HOH HOH . I 6 HOH A 37 537 537 HOH HOH . I 6 HOH A 38 538 538 HOH HOH . I 6 HOH A 39 539 539 HOH HOH . I 6 HOH A 40 540 540 HOH HOH . I 6 HOH A 41 542 542 HOH HOH . I 6 HOH A 42 543 543 HOH HOH . I 6 HOH A 43 544 544 HOH HOH . I 6 HOH A 44 545 545 HOH HOH . I 6 HOH A 45 546 546 HOH HOH . I 6 HOH A 46 547 547 HOH HOH . I 6 HOH A 47 548 548 HOH HOH . I 6 HOH A 48 549 549 HOH HOH . I 6 HOH A 49 550 550 HOH HOH . I 6 HOH A 50 551 551 HOH HOH . I 6 HOH A 51 553 553 HOH HOH . I 6 HOH A 52 554 554 HOH HOH . I 6 HOH A 53 555 555 HOH HOH . I 6 HOH A 54 556 556 HOH HOH . I 6 HOH A 55 557 557 HOH HOH . I 6 HOH A 56 558 558 HOH HOH . I 6 HOH A 57 559 559 HOH HOH . I 6 HOH A 58 560 560 HOH HOH . I 6 HOH A 59 561 561 HOH HOH . I 6 HOH A 60 562 562 HOH HOH . I 6 HOH A 61 563 563 HOH HOH . I 6 HOH A 62 564 564 HOH HOH . I 6 HOH A 63 565 565 HOH HOH . I 6 HOH A 64 566 566 HOH HOH . I 6 HOH A 65 567 567 HOH HOH . I 6 HOH A 66 568 568 HOH HOH . I 6 HOH A 67 569 569 HOH HOH . I 6 HOH A 68 570 570 HOH HOH . I 6 HOH A 69 571 571 HOH HOH . I 6 HOH A 70 572 572 HOH HOH . I 6 HOH A 71 573 573 HOH HOH . I 6 HOH A 72 574 574 HOH HOH . I 6 HOH A 73 575 575 HOH HOH . I 6 HOH A 74 576 576 HOH HOH . I 6 HOH A 75 577 577 HOH HOH . I 6 HOH A 76 578 578 HOH HOH . I 6 HOH A 77 579 579 HOH HOH . I 6 HOH A 78 580 580 HOH HOH . I 6 HOH A 79 581 581 HOH HOH . I 6 HOH A 80 582 582 HOH HOH . I 6 HOH A 81 584 584 HOH HOH . I 6 HOH A 82 585 585 HOH HOH . I 6 HOH A 83 586 586 HOH HOH . I 6 HOH A 84 587 587 HOH HOH . I 6 HOH A 85 588 588 HOH HOH . I 6 HOH A 86 589 589 HOH HOH . I 6 HOH A 87 590 590 HOH HOH . I 6 HOH A 88 591 591 HOH HOH . I 6 HOH A 89 592 592 HOH HOH . I 6 HOH A 90 593 593 HOH HOH . I 6 HOH A 91 594 594 HOH HOH . I 6 HOH A 92 595 595 HOH HOH . I 6 HOH A 93 596 596 HOH HOH . I 6 HOH A 94 597 597 HOH HOH . I 6 HOH A 95 598 598 HOH HOH . I 6 HOH A 96 599 599 HOH HOH . I 6 HOH A 97 600 600 HOH HOH . I 6 HOH A 98 601 601 HOH HOH . I 6 HOH A 99 602 602 HOH HOH . I 6 HOH A 100 603 603 HOH HOH . I 6 HOH A 101 604 604 HOH HOH . I 6 HOH A 102 605 605 HOH HOH . I 6 HOH A 103 606 606 HOH HOH . I 6 HOH A 104 607 607 HOH HOH . I 6 HOH A 105 608 608 HOH HOH . I 6 HOH A 106 610 610 HOH HOH . I 6 HOH A 107 611 611 HOH HOH . I 6 HOH A 108 612 612 HOH HOH . I 6 HOH A 109 613 613 HOH HOH . I 6 HOH A 110 614 614 HOH HOH . I 6 HOH A 111 615 615 HOH HOH . I 6 HOH A 112 616 616 HOH HOH . I 6 HOH A 113 617 617 HOH HOH . I 6 HOH A 114 618 618 HOH HOH . I 6 HOH A 115 620 620 HOH HOH . I 6 HOH A 116 621 621 HOH HOH . I 6 HOH A 117 622 622 HOH HOH . I 6 HOH A 118 623 623 HOH HOH . I 6 HOH A 119 624 624 HOH HOH . I 6 HOH A 120 625 625 HOH HOH . I 6 HOH A 121 626 626 HOH HOH . I 6 HOH A 122 627 627 HOH HOH . I 6 HOH A 123 628 628 HOH HOH . I 6 HOH A 124 629 629 HOH HOH . I 6 HOH A 125 631 631 HOH HOH . I 6 HOH A 126 632 632 HOH HOH . I 6 HOH A 127 633 633 HOH HOH . I 6 HOH A 128 634 634 HOH HOH . I 6 HOH A 129 635 635 HOH HOH . I 6 HOH A 130 636 636 HOH HOH . I 6 HOH A 131 637 637 HOH HOH . I 6 HOH A 132 638 638 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 C C3N A3R . . . B 2 -17.133 4.215 24.652 1 18.04 ? C3N A3R 401 A 1 HETATM 2 C C2N A3R . . . B 2 -18.432 4.999 24.751 1 17.64 ? C2N A3R 401 A 1 HETATM 3 O O2N A3R . . . B 2 -18.219 6.432 25.225 1 16.16 ? O2N A3R 401 A 1 HETATM 4 C C1N A3R . . . B 2 -18.874 5.06 23.31 1 18.53 ? C1N A3R 401 A 1 HETATM 5 N N4N A3R . . . B 2 -17.601 5.336 22.574 1 18.44 ? N4N A3R 401 A 1 HETATM 6 C C4N A3R . . . B 2 -16.482 4.883 23.462 1 18.26 ? C4N A3R 401 A 1 HETATM 7 C C5N A3R . . . B 2 -15.533 3.911 22.757 1 19.11 ? C5N A3R 401 A 1 HETATM 8 O O5N A3R . . . B 2 -14.438 3.582 23.644 1 19.02 ? O5N A3R 401 A 1 HETATM 9 P PB A3R . . . B 2 -13.415 2.517 23.171 1 19.52 ? PB A3R 401 A 1 HETATM 10 O O2B A3R . . . B 2 -12.448 2.397 24.273 1 20.04 ? O2B A3R 401 A 1 HETATM 11 O O1B A3R . . . B 2 -12.863 2.862 21.808 1 20.34 ? O1B A3R 401 A 1 HETATM 12 O O3A A3R . . . B 2 -14.359 1.271 23.116 1 21.42 ? O3A A3R 401 A 1 HETATM 13 P PA A3R . . . B 2 -14.074 -0.222 22.537 1 23 ? PA A3R 401 A 1 HETATM 14 O O1A A3R . . . B 2 -12.61 -0.577 22.676 1 24.15 ? O1A A3R 401 A 1 HETATM 15 O O2A A3R . . . B 2 -15.108 -1.038 23.086 1 24.66 ? O2A A3R 401 A 1 HETATM 16 O O5' A3R . . . B 2 -14.329 -0.017 20.981 1 24.82 ? O5' A3R 401 A 1 HETATM 17 C C5' A3R . . . B 2 -15.546 0.483 20.443 1 25.24 ? C5' A3R 401 A 1 HETATM 18 C C4' A3R . . . B 2 -15.789 -0.191 19.072 1 26.62 ? C4' A3R 401 A 1 HETATM 19 O O4' A3R . . . B 2 -14.596 -0.037 18.283 1 26.42 ? O4' A3R 401 A 1 HETATM 20 C C3' A3R . . . B 2 -15.958 -1.692 19.251 1 29.52 ? C3' A3R 401 A 1 HETATM 21 O O3' A3R . . . B 2 -17.334 -2.059 19.338 1 31.34 ? O3' A3R 401 A 1 HETATM 22 C C2' A3R . . . B 2 -15.44 -2.228 17.978 1 30.52 ? C2' A3R 401 A 1 HETATM 23 O O2' A3R . . . B 2 -16.568 -2.621 17.207 1 33.19 ? O2' A3R 401 A 1 HETATM 24 C C1' A3R . . . B 2 -14.641 -1.046 17.32 1 28.65 ? C1' A3R 401 A 1 HETATM 25 N N9 A3R . . . B 2 -13.286 -1.53 16.889 1 29.61 ? N9 A3R 401 A 1 HETATM 26 C C8 A3R . . . B 2 -12.399 -2.34 17.487 1 29.93 ? C8 A3R 401 A 1 HETATM 27 N N7 A3R . . . B 2 -11.37 -2.537 16.683 1 29.98 ? N7 A3R 401 A 1 HETATM 28 C C5 A3R . . . B 2 -11.585 -1.847 15.563 1 30.34 ? C5 A3R 401 A 1 HETATM 29 C C4 A3R . . . B 2 -12.787 -1.239 15.688 1 29.49 ? C4 A3R 401 A 1 HETATM 30 N N3 A3R . . . B 2 -13.312 -0.464 14.723 1 29.22 ? N3 A3R 401 A 1 HETATM 31 C C2 A3R . . . B 2 -12.575 -0.325 13.544 1 29.29 ? C2 A3R 401 A 1 HETATM 32 N N1 A3R . . . B 2 -11.316 -0.969 13.412 1 30.18 ? N1 A3R 401 A 1 HETATM 33 C C6 A3R . . . B 2 -10.852 -1.719 14.425 1 30.61 ? C6 A3R 401 A 1 HETATM 34 N N6 A3R . . . B 2 -9.663 -2.355 14.346 1 31.47 ? N6 A3R 401 A 1 # _model_server_stats.io_time_ms 49 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 34 #