data_3RAR # _model_server_result.job_id NyAIfacbYFk8XXl1sBsnvw _model_server_result.datetime_utc '2024-10-11 01:28:25' _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 3rar # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":560}' # _entry.id 3RAR # _exptl.entry_id 3RAR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 216.171 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'methyl hydrogen (R)-[(R)-methoxy(phenyl)methyl]phosphonate' _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 90 _cell.entry_id 3RAR _cell.length_a 65 _cell.length_b 97.5 _cell.length_c 176.1 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3RAR _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 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 PISA dimeric 2 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,E,F,G 1 1 A,B,C,D,E,F,G 2 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' 3_754 -x+2,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 130 0 -88.05 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 B 1 NAG A 992 NAG 2 n B NAG 2 B 2 NAG A 994 NAG # 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 disulf ? disulf1 A SG CYS 60 A CYS 60 1_555 A SG CYS 97 A CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 268 A CYS 268 1_555 A SG CYS 277 A CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? covale ? covale1 A OG SER 209 A SER 209 1_555 F P1 IAN . A IAN 560 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.645 ? covale ? covale2 A ND2 ASN 314 A ASN 314 1_555 C C1 NAG . A NAG 991 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale3 A ND2 ASN 351 A ASN 351 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale4 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.397 ? metalc ? metalc1 A OD1 ASP 260 A ASP 260 1_555 D CA CA . A CA 589 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.771 ? metalc ? metalc2 A OD2 ASP 260 A ASP 260 1_555 D CA CA . A CA 589 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.906 ? metalc ? metalc3 A O GLY 326 A GLY 326 1_555 E CA CA . A CA 590 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.718 ? metalc ? metalc4 G O HOH . A HOH 538 1_555 E CA CA . A CA 590 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.81 ? metalc ? metalc5 D CA CA . A CA 589 1_555 G O HOH . A HOH 682 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.863 ? # _chem_comp.formula 'C9 H13 O4 P' _chem_comp.formula_weight 216.171 _chem_comp.id IAN _chem_comp.mon_nstd_flag . _chem_comp.name 'methyl hydrogen (R)-[(R)-methoxy(phenyl)methyl]phosphonate' _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 C1 C6 IAN sing 152 n y C1 C8 IAN sing 153 n n O1 C7 IAN sing 154 n n P1 O1 IAN sing 155 n n P1 C8 IAN sing 156 n n C2 C1 IAN doub 157 n y C2 H2 IAN sing 158 n n C3 C2 IAN sing 159 n y C3 C4 IAN doub 160 n y C3 H3 IAN sing 161 n n O3 C9 IAN sing 162 n n C4 C5 IAN sing 163 n y C4 H4 IAN sing 164 n n O4 P1 IAN sing 165 n n O4 HO4 IAN sing 166 n n C5 C6 IAN doub 167 n y C5 H5 IAN sing 168 n n C6 H6 IAN sing 169 n n C7 H7 IAN sing 170 n n C7 H7A IAN sing 171 n n C7 H7B IAN sing 172 n n C8 O3 IAN sing 173 n n C8 H8 IAN sing 174 n n C9 H9 IAN sing 175 n n C9 H9A IAN sing 176 n n C9 H9B IAN sing 177 n n P1 O41 IAN doub 178 n n # _atom_sites.entry_id 3RAR _atom_sites.fract_transf_matrix[1][1] 0.015385 _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] 0.010256 _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] 0.005679 _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 3 NAG A 1 991 991 NAG NAG . D 4 CA A 1 589 589 CA CA . E 4 CA A 1 590 590 CA CA . F 5 IAN A 1 560 560 IAN IAN . G 6 HOH A 1 535 1 HOH HOH . G 6 HOH A 2 536 2 HOH HOH . G 6 HOH A 3 537 3 HOH HOH . G 6 HOH A 4 538 4 HOH HOH . G 6 HOH A 5 539 5 HOH HOH . G 6 HOH A 6 540 6 HOH HOH . G 6 HOH A 7 541 7 HOH HOH . G 6 HOH A 8 542 8 HOH HOH . G 6 HOH A 9 543 9 HOH HOH . G 6 HOH A 10 544 10 HOH HOH . G 6 HOH A 11 545 11 HOH HOH . G 6 HOH A 12 546 12 HOH HOH . G 6 HOH A 13 547 13 HOH HOH . G 6 HOH A 14 548 14 HOH HOH . G 6 HOH A 15 549 15 HOH HOH . G 6 HOH A 16 550 16 HOH HOH . G 6 HOH A 17 551 17 HOH HOH . G 6 HOH A 18 552 18 HOH HOH . G 6 HOH A 19 553 19 HOH HOH . G 6 HOH A 20 554 20 HOH HOH . G 6 HOH A 21 555 21 HOH HOH . G 6 HOH A 22 556 22 HOH HOH . G 6 HOH A 23 557 23 HOH HOH . G 6 HOH A 24 558 24 HOH HOH . G 6 HOH A 25 559 25 HOH HOH . G 6 HOH A 26 561 26 HOH HOH . G 6 HOH A 27 562 27 HOH HOH . G 6 HOH A 28 563 28 HOH HOH . G 6 HOH A 29 564 29 HOH HOH . G 6 HOH A 30 565 30 HOH HOH . G 6 HOH A 31 566 31 HOH HOH . G 6 HOH A 32 567 32 HOH HOH . G 6 HOH A 33 568 33 HOH HOH . G 6 HOH A 34 569 34 HOH HOH . G 6 HOH A 35 570 35 HOH HOH . G 6 HOH A 36 571 36 HOH HOH . G 6 HOH A 37 572 37 HOH HOH . G 6 HOH A 38 573 38 HOH HOH . G 6 HOH A 39 574 39 HOH HOH . G 6 HOH A 40 575 40 HOH HOH . G 6 HOH A 41 576 41 HOH HOH . G 6 HOH A 42 577 42 HOH HOH . G 6 HOH A 43 578 43 HOH HOH . G 6 HOH A 44 579 44 HOH HOH . G 6 HOH A 45 580 45 HOH HOH . G 6 HOH A 46 581 46 HOH HOH . G 6 HOH A 47 582 47 HOH HOH . G 6 HOH A 48 583 48 HOH HOH . G 6 HOH A 49 584 49 HOH HOH . G 6 HOH A 50 585 50 HOH HOH . G 6 HOH A 51 586 51 HOH HOH . G 6 HOH A 52 587 52 HOH HOH . G 6 HOH A 53 588 53 HOH HOH . G 6 HOH A 54 591 54 HOH HOH . G 6 HOH A 55 592 55 HOH HOH . G 6 HOH A 56 593 56 HOH HOH . G 6 HOH A 57 594 57 HOH HOH . G 6 HOH A 58 595 58 HOH HOH . G 6 HOH A 59 596 59 HOH HOH . G 6 HOH A 60 597 60 HOH HOH . G 6 HOH A 61 598 61 HOH HOH . G 6 HOH A 62 599 62 HOH HOH . G 6 HOH A 63 600 63 HOH HOH . G 6 HOH A 64 601 64 HOH HOH . G 6 HOH A 65 602 65 HOH HOH . G 6 HOH A 66 603 66 HOH HOH . G 6 HOH A 67 604 67 HOH HOH . G 6 HOH A 68 605 68 HOH HOH . G 6 HOH A 69 606 69 HOH HOH . G 6 HOH A 70 607 70 HOH HOH . G 6 HOH A 71 608 71 HOH HOH . G 6 HOH A 72 609 72 HOH HOH . G 6 HOH A 73 610 73 HOH HOH . G 6 HOH A 74 611 74 HOH HOH . G 6 HOH A 75 612 75 HOH HOH . G 6 HOH A 76 613 76 HOH HOH . G 6 HOH A 77 614 77 HOH HOH . G 6 HOH A 78 615 78 HOH HOH . G 6 HOH A 79 616 79 HOH HOH . G 6 HOH A 80 617 80 HOH HOH . G 6 HOH A 81 618 81 HOH HOH . G 6 HOH A 82 619 82 HOH HOH . G 6 HOH A 83 620 83 HOH HOH . G 6 HOH A 84 621 84 HOH HOH . G 6 HOH A 85 622 85 HOH HOH . G 6 HOH A 86 623 86 HOH HOH . G 6 HOH A 87 624 87 HOH HOH . G 6 HOH A 88 625 88 HOH HOH . G 6 HOH A 89 626 89 HOH HOH . G 6 HOH A 90 627 90 HOH HOH . G 6 HOH A 91 628 91 HOH HOH . G 6 HOH A 92 629 92 HOH HOH . G 6 HOH A 93 630 93 HOH HOH . G 6 HOH A 94 631 94 HOH HOH . G 6 HOH A 95 632 95 HOH HOH . G 6 HOH A 96 633 96 HOH HOH . G 6 HOH A 97 634 97 HOH HOH . G 6 HOH A 98 635 98 HOH HOH . G 6 HOH A 99 636 99 HOH HOH . G 6 HOH A 100 637 100 HOH HOH . G 6 HOH A 101 638 101 HOH HOH . G 6 HOH A 102 639 102 HOH HOH . G 6 HOH A 103 640 103 HOH HOH . G 6 HOH A 104 641 104 HOH HOH . G 6 HOH A 105 642 105 HOH HOH . G 6 HOH A 106 643 106 HOH HOH . G 6 HOH A 107 644 107 HOH HOH . G 6 HOH A 108 645 108 HOH HOH . G 6 HOH A 109 646 109 HOH HOH . G 6 HOH A 110 647 110 HOH HOH . G 6 HOH A 111 648 111 HOH HOH . G 6 HOH A 112 649 112 HOH HOH . G 6 HOH A 113 650 113 HOH HOH . G 6 HOH A 114 651 114 HOH HOH . G 6 HOH A 115 652 115 HOH HOH . G 6 HOH A 116 653 116 HOH HOH . G 6 HOH A 117 654 117 HOH HOH . G 6 HOH A 118 655 118 HOH HOH . G 6 HOH A 119 656 119 HOH HOH . G 6 HOH A 120 657 120 HOH HOH . G 6 HOH A 121 658 121 HOH HOH . G 6 HOH A 122 659 122 HOH HOH . G 6 HOH A 123 660 123 HOH HOH . G 6 HOH A 124 661 124 HOH HOH . G 6 HOH A 125 662 125 HOH HOH . G 6 HOH A 126 663 126 HOH HOH . G 6 HOH A 127 664 127 HOH HOH . G 6 HOH A 128 665 128 HOH HOH . G 6 HOH A 129 666 129 HOH HOH . G 6 HOH A 130 667 130 HOH HOH . G 6 HOH A 131 668 131 HOH HOH . G 6 HOH A 132 669 132 HOH HOH . G 6 HOH A 133 670 133 HOH HOH . G 6 HOH A 134 671 134 HOH HOH . G 6 HOH A 135 672 135 HOH HOH . G 6 HOH A 136 673 136 HOH HOH . G 6 HOH A 137 674 137 HOH HOH . G 6 HOH A 138 675 138 HOH HOH . G 6 HOH A 139 676 139 HOH HOH . G 6 HOH A 140 677 140 HOH HOH . G 6 HOH A 141 678 141 HOH HOH . G 6 HOH A 142 679 142 HOH HOH . G 6 HOH A 143 680 143 HOH HOH . G 6 HOH A 144 681 144 HOH HOH . G 6 HOH A 145 682 145 HOH HOH . G 6 HOH A 146 683 146 HOH HOH . G 6 HOH A 147 684 147 HOH HOH . G 6 HOH A 148 685 148 HOH HOH . G 6 HOH A 149 686 149 HOH HOH . G 6 HOH A 150 687 150 HOH HOH . G 6 HOH A 151 688 151 HOH HOH . G 6 HOH A 152 689 152 HOH HOH . G 6 HOH A 153 690 153 HOH HOH . G 6 HOH A 154 691 154 HOH HOH . G 6 HOH A 155 692 155 HOH HOH . G 6 HOH A 156 693 156 HOH HOH . G 6 HOH A 157 694 157 HOH HOH . G 6 HOH A 158 695 158 HOH HOH . G 6 HOH A 159 696 159 HOH HOH . G 6 HOH A 160 697 160 HOH HOH . G 6 HOH A 161 698 161 HOH HOH . G 6 HOH A 162 699 162 HOH HOH . G 6 HOH A 163 700 163 HOH HOH . G 6 HOH A 164 701 164 HOH HOH . G 6 HOH A 165 702 165 HOH HOH . G 6 HOH A 166 703 166 HOH HOH . G 6 HOH A 167 704 167 HOH HOH . G 6 HOH A 168 705 168 HOH HOH . G 6 HOH A 169 706 169 HOH HOH . G 6 HOH A 170 707 170 HOH HOH . G 6 HOH A 171 708 171 HOH HOH . G 6 HOH A 172 709 172 HOH HOH . G 6 HOH A 173 710 173 HOH HOH . G 6 HOH A 174 711 174 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 C1 IAN . . . F 5 65.34 55.752 -16.177 1 28.55 ? C1 IAN 560 A 1 HETATM 2 O O1 IAN . . . F 5 67.425 52.328 -14.897 1 23.86 ? O1 IAN 560 A 1 HETATM 3 P P1 IAN . . . F 5 66.967 53.479 -15.938 1 24.54 ? P1 IAN 560 A 1 HETATM 4 C C2 IAN . . . F 5 65.946 55.838 -17.476 1 30.3 ? C2 IAN 560 A 1 HETATM 5 C C3 IAN . . . F 5 65.526 56.809 -18.427 1 30.92 ? C3 IAN 560 A 1 HETATM 6 O O3 IAN . . . F 5 66.567 55.164 -13.984 1 28.69 ? O3 IAN 560 A 1 HETATM 7 C C4 IAN . . . F 5 64.485 57.721 -18.104 1 30.51 ? C4 IAN 560 A 1 HETATM 8 O O4 IAN . . . F 5 68.211 54.196 -16.374 1 23.81 ? O4 IAN 560 A 1 HETATM 9 C C5 IAN . . . F 5 63.867 57.658 -16.828 1 30.68 ? C5 IAN 560 A 1 HETATM 10 C C6 IAN . . . F 5 64.287 56.683 -15.873 1 31.14 ? C6 IAN 560 A 1 HETATM 11 C C7 IAN . . . F 5 68.29 52.52 -13.773 1 24.93 ? C7 IAN 560 A 1 HETATM 12 C C8 IAN . . . F 5 65.802 54.651 -15.123 1 27.52 ? C8 IAN 560 A 1 HETATM 13 C C9 IAN . . . F 5 65.897 56.093 -13.114 1 32.15 ? C9 IAN 560 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 13 #