data_4RRM # _model_server_result.job_id PGMtYZq3UFVaLAedfvdcCQ _model_server_result.datetime_utc '2024-10-18 17:23:20' _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 4rrm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 4RRM # _exptl.entry_id 4RRM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 367.36 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "3'-deoxy-3'-(L-threonylamino)adenosine" _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 4RRM _cell.length_a 47.091 _cell.length_b 47.091 _cell.length_c 112.729 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4RRM _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _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 _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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 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 OE2 GLU 29 A GLU 29 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc2 C MG MG . A MG 502 1_555 E O HOH . A HOH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc3 C MG MG . A MG 502 1_555 E O HOH . A HOH 658 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? metalc ? metalc4 C MG MG . A MG 502 1_555 E O HOH . A HOH 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc5 C MG MG . A MG 502 1_555 E O HOH . A HOH 731 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? # _chem_comp.formula 'C14 H21 N7 O5' _chem_comp.formula_weight 367.36 _chem_comp.id A3T _chem_comp.mon_nstd_flag . _chem_comp.name "3'-deoxy-3'-(L-threonylamino)adenosine" _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 C O A3T doub 1 n n C N8 A3T sing 2 n n C CA A3T sing 3 n n N CA A3T sing 4 n n N1 C2 A3T doub 5 n y N1 C6 A3T sing 6 n y C2 N3 A3T sing 7 n y N3 C4 A3T doub 8 n y C4 C5 A3T sing 9 n y C4 N9 A3T sing 10 n y C5 C6 A3T doub 11 n y C5 N7 A3T sing 12 n y C6 N6 A3T sing 13 n n N7 C8 A3T doub 14 n y C8 N9 A3T sing 15 n y N8 C3' A3T sing 16 n n N9 C1' A3T sing 17 n n CA CB A3T sing 18 n n CB OG A3T sing 19 n n CB CG2 A3T sing 20 n n C1' C2' A3T sing 21 n n C1' O4' A3T sing 22 n n C2' O2' A3T sing 23 n n C2' C3' A3T sing 24 n n C3' C4' A3T sing 25 n n C4' O4' A3T sing 26 n n C4' C5' A3T sing 27 n n C5' O5' A3T sing 28 n n N HN A3T sing 29 n n N HNA A3T sing 30 n n C2 H2 A3T sing 31 n n N6 HN6 A3T sing 32 n n N6 HN6A A3T sing 33 n n C8 H8 A3T sing 34 n n N8 HN8 A3T sing 35 n n CA HA A3T sing 36 n n CB HB A3T sing 37 n n OG HOG A3T sing 38 n n C1' H1' A3T sing 39 n n C2' H2' A3T sing 40 n n O2' HO2' A3T sing 41 n n C3' H3' A3T sing 42 n n C4' H4' A3T sing 43 n n C5' H5' A3T sing 44 n n C5' "H5'A" A3T sing 45 n n O5' HO5' A3T sing 46 n n CG2 HG2 A3T sing 47 n n CG2 HG2A A3T sing 48 n n CG2 HG2B A3T sing 49 n n # _atom_sites.entry_id 4RRM _atom_sites.fract_transf_matrix[1][1] 0.021235 _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] 0.021235 _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] 0.008871 _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 A3T A 1 501 501 A3T A3T . C 3 MG A 1 502 1 MG MG . D 4 CL A 1 503 2 CL CL . E 5 HOH A 1 601 1 HOH HOH . E 5 HOH A 2 602 2 HOH HOH . E 5 HOH A 3 603 3 HOH HOH . E 5 HOH A 4 604 4 HOH HOH . E 5 HOH A 5 605 6 HOH HOH . E 5 HOH A 6 606 7 HOH HOH . E 5 HOH A 7 607 9 HOH HOH . E 5 HOH A 8 608 10 HOH HOH . E 5 HOH A 9 609 11 HOH HOH . E 5 HOH A 10 610 12 HOH HOH . E 5 HOH A 11 611 13 HOH HOH . E 5 HOH A 12 612 14 HOH HOH . E 5 HOH A 13 613 15 HOH HOH . E 5 HOH A 14 614 16 HOH HOH . E 5 HOH A 15 615 17 HOH HOH . E 5 HOH A 16 616 18 HOH HOH . E 5 HOH A 17 617 19 HOH HOH . E 5 HOH A 18 618 20 HOH HOH . E 5 HOH A 19 619 22 HOH HOH . E 5 HOH A 20 620 23 HOH HOH . E 5 HOH A 21 621 24 HOH HOH . E 5 HOH A 22 622 25 HOH HOH . E 5 HOH A 23 623 26 HOH HOH . E 5 HOH A 24 624 27 HOH HOH . E 5 HOH A 25 625 29 HOH HOH . E 5 HOH A 26 626 30 HOH HOH . E 5 HOH A 27 627 31 HOH HOH . E 5 HOH A 28 628 32 HOH HOH . E 5 HOH A 29 629 33 HOH HOH . E 5 HOH A 30 630 34 HOH HOH . E 5 HOH A 31 631 35 HOH HOH . E 5 HOH A 32 632 36 HOH HOH . E 5 HOH A 33 633 37 HOH HOH . E 5 HOH A 34 634 38 HOH HOH . E 5 HOH A 35 635 39 HOH HOH . E 5 HOH A 36 636 40 HOH HOH . E 5 HOH A 37 637 41 HOH HOH . E 5 HOH A 38 638 42 HOH HOH . E 5 HOH A 39 639 43 HOH HOH . E 5 HOH A 40 640 44 HOH HOH . E 5 HOH A 41 641 45 HOH HOH . E 5 HOH A 42 642 46 HOH HOH . E 5 HOH A 43 643 47 HOH HOH . E 5 HOH A 44 644 48 HOH HOH . E 5 HOH A 45 645 49 HOH HOH . E 5 HOH A 46 646 50 HOH HOH . E 5 HOH A 47 647 51 HOH HOH . E 5 HOH A 48 648 53 HOH HOH . E 5 HOH A 49 649 54 HOH HOH . E 5 HOH A 50 650 55 HOH HOH . E 5 HOH A 51 651 56 HOH HOH . E 5 HOH A 52 652 59 HOH HOH . E 5 HOH A 53 653 60 HOH HOH . E 5 HOH A 54 654 62 HOH HOH . E 5 HOH A 55 655 64 HOH HOH . E 5 HOH A 56 656 65 HOH HOH . E 5 HOH A 57 657 66 HOH HOH . E 5 HOH A 58 658 67 HOH HOH . E 5 HOH A 59 659 68 HOH HOH . E 5 HOH A 60 660 69 HOH HOH . E 5 HOH A 61 661 70 HOH HOH . E 5 HOH A 62 662 72 HOH HOH . E 5 HOH A 63 663 73 HOH HOH . E 5 HOH A 64 664 75 HOH HOH . E 5 HOH A 65 665 76 HOH HOH . E 5 HOH A 66 666 78 HOH HOH . E 5 HOH A 67 667 80 HOH HOH . E 5 HOH A 68 668 81 HOH HOH . E 5 HOH A 69 669 82 HOH HOH . E 5 HOH A 70 670 83 HOH HOH . E 5 HOH A 71 671 84 HOH HOH . E 5 HOH A 72 672 85 HOH HOH . E 5 HOH A 73 673 86 HOH HOH . E 5 HOH A 74 674 87 HOH HOH . E 5 HOH A 75 675 88 HOH HOH . E 5 HOH A 76 676 89 HOH HOH . E 5 HOH A 77 677 90 HOH HOH . E 5 HOH A 78 678 96 HOH HOH . E 5 HOH A 79 679 99 HOH HOH . E 5 HOH A 80 680 100 HOH HOH . E 5 HOH A 81 681 101 HOH HOH . E 5 HOH A 82 682 102 HOH HOH . E 5 HOH A 83 683 103 HOH HOH . E 5 HOH A 84 684 104 HOH HOH . E 5 HOH A 85 685 105 HOH HOH . E 5 HOH A 86 686 108 HOH HOH . E 5 HOH A 87 687 109 HOH HOH . E 5 HOH A 88 688 111 HOH HOH . E 5 HOH A 89 689 112 HOH HOH . E 5 HOH A 90 690 113 HOH HOH . E 5 HOH A 91 691 114 HOH HOH . E 5 HOH A 92 692 116 HOH HOH . E 5 HOH A 93 693 118 HOH HOH . E 5 HOH A 94 694 119 HOH HOH . E 5 HOH A 95 695 121 HOH HOH . E 5 HOH A 96 696 122 HOH HOH . E 5 HOH A 97 697 123 HOH HOH . E 5 HOH A 98 698 124 HOH HOH . E 5 HOH A 99 699 125 HOH HOH . E 5 HOH A 100 700 126 HOH HOH . E 5 HOH A 101 701 127 HOH HOH . E 5 HOH A 102 702 128 HOH HOH . E 5 HOH A 103 703 129 HOH HOH . E 5 HOH A 104 704 130 HOH HOH . E 5 HOH A 105 705 131 HOH HOH . E 5 HOH A 106 706 132 HOH HOH . E 5 HOH A 107 707 133 HOH HOH . E 5 HOH A 108 708 134 HOH HOH . E 5 HOH A 109 709 135 HOH HOH . E 5 HOH A 110 710 136 HOH HOH . E 5 HOH A 111 711 137 HOH HOH . E 5 HOH A 112 712 141 HOH HOH . E 5 HOH A 113 713 142 HOH HOH . E 5 HOH A 114 714 143 HOH HOH . E 5 HOH A 115 715 144 HOH HOH . E 5 HOH A 116 716 151 HOH HOH . E 5 HOH A 117 717 152 HOH HOH . E 5 HOH A 118 718 153 HOH HOH . E 5 HOH A 119 719 154 HOH HOH . E 5 HOH A 120 720 155 HOH HOH . E 5 HOH A 121 721 156 HOH HOH . E 5 HOH A 122 722 157 HOH HOH . E 5 HOH A 123 723 158 HOH HOH . E 5 HOH A 124 724 159 HOH HOH . E 5 HOH A 125 725 161 HOH HOH . E 5 HOH A 126 726 162 HOH HOH . E 5 HOH A 127 727 163 HOH HOH . E 5 HOH A 128 728 164 HOH HOH . E 5 HOH A 129 729 165 HOH HOH . E 5 HOH A 130 730 166 HOH HOH . E 5 HOH A 131 731 167 HOH HOH . E 5 HOH A 132 732 168 HOH HOH . E 5 HOH A 133 733 169 HOH HOH . E 5 HOH A 134 734 170 HOH HOH . E 5 HOH A 135 735 171 HOH HOH . E 5 HOH A 136 736 172 HOH HOH . E 5 HOH A 137 737 173 HOH HOH . E 5 HOH A 138 738 174 HOH HOH . E 5 HOH A 139 739 175 HOH HOH . E 5 HOH A 140 740 176 HOH HOH . E 5 HOH A 141 741 177 HOH HOH . E 5 HOH A 142 742 178 HOH HOH . E 5 HOH A 143 743 179 HOH HOH . E 5 HOH A 144 744 180 HOH HOH . E 5 HOH A 145 745 181 HOH HOH . E 5 HOH A 146 746 182 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 C A3T . . . B 2 11.874 -3.178 -3.881 1 15.57 ? C A3T 501 A 1 HETATM 2 N N A3T . . . B 2 9.614 -3.679 -2.969 1 21.55 ? N A3T 501 A 1 HETATM 3 O O A3T . . . B 2 11.951 -1.929 -3.357 1 15.7 ? O A3T 501 A 1 HETATM 4 N N1 A3T . . . B 2 17.02 0.442 0.553 1 12.41 ? N1 A3T 501 A 1 HETATM 5 C C2 A3T . . . B 2 16.03 -0.54 0.682 1 12.79 ? C2 A3T 501 A 1 HETATM 6 N N3 A3T . . . B 2 15.929 -1.548 -0.258 1 12.76 ? N3 A3T 501 A 1 HETATM 7 C C4 A3T . . . B 2 16.802 -1.507 -1.287 1 13.37 ? C4 A3T 501 A 1 HETATM 8 C C5 A3T . . . B 2 17.74 -0.522 -1.402 1 11.51 ? C5 A3T 501 A 1 HETATM 9 C C6 A3T . . . B 2 17.842 0.443 -0.467 1 12.97 ? C6 A3T 501 A 1 HETATM 10 N N6 A3T . . . B 2 18.787 1.38 -0.526 1 12.2 ? N6 A3T 501 A 1 HETATM 11 N N7 A3T . . . B 2 18.451 -0.787 -2.504 1 14.71 ? N7 A3T 501 A 1 HETATM 12 C C8 A3T . . . B 2 17.944 -1.891 -3.079 1 16.14 ? C8 A3T 501 A 1 HETATM 13 N N8 A3T . . . B 2 12.921 -3.954 -4.135 1 18.63 ? N8 A3T 501 A 1 HETATM 14 N N9 A3T . . . B 2 16.914 -2.355 -2.341 1 16.43 ? N9 A3T 501 A 1 HETATM 15 C CA A3T . . . B 2 10.483 -3.772 -4.16 1 19.14 ? CA A3T 501 A 1 HETATM 16 C CB A3T . . . B 2 9.813 -3.163 -5.406 1 21.18 ? CB A3T 501 A 1 HETATM 17 O OG A3T . . . B 2 8.927 -4.187 -5.871 1 21.37 ? OG A3T 501 A 1 HETATM 18 C C1' A3T . . . B 2 16.162 -3.638 -2.584 1 14.69 ? C1' A3T 501 A 1 HETATM 19 C C2' A3T . . . B 2 14.679 -3.681 -2.425 1 16.5 ? C2' A3T 501 A 1 HETATM 20 O O2' A3T . . . B 2 14.355 -5.015 -2.001 1 17.47 ? O2' A3T 501 A 1 HETATM 21 C C3' A3T . . . B 2 14.267 -3.464 -3.872 1 16.37 ? C3' A3T 501 A 1 HETATM 22 C C4' A3T . . . B 2 15.324 -4.169 -4.695 1 18.72 ? C4' A3T 501 A 1 HETATM 23 O O4' A3T . . . B 2 16.531 -4.12 -3.916 1 20.29 ? O4' A3T 501 A 1 HETATM 24 C C5' A3T . . . B 2 15.546 -3.389 -5.999 1 20.72 ? C5' A3T 501 A 1 HETATM 25 O O5' A3T . . . B 2 15.749 -1.981 -5.801 1 22.06 ? O5' A3T 501 A 1 HETATM 26 C CG2 A3T . . . B 2 10.86 -2.835 -6.482 1 23.54 ? CG2 A3T 501 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 26 #