data_6HE1 # _model_server_result.job_id 0vG5DiLS43VALvpob5eMiw _model_server_result.datetime_utc '2024-11-28 08:17:03' _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 6he1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":504}' # _entry.id 6HE1 # _exptl.entry_id 6HE1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 424.384 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-O-(N-(L-seryl)-sulfamoyl)N3-methyluridine" _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 113.83 _cell.angle_gamma 90 _cell.entry_id 6HE1 _cell.length_a 149.948 _cell.length_b 121.841 _cell.length_c 65.281 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6HE1 _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 F N N ? 3 K 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 metalc ? metalc1 A OE2 GLU 351 A GLU 351 1_555 G NA NA . A NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.457 ? metalc ? metalc2 A OG SER 354 A SER 354 1_555 G NA NA . A NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? metalc ? metalc3 F O2S FZT . A FZT 504 1_555 G NA NA . A NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? metalc ? metalc4 G NA NA . A NA 505 1_555 M O HOH . A HOH 696 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.466 ? metalc ? metalc5 B OE1 GLU 351 B GLU 351 1_555 L NA NA . B NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.437 ? metalc ? metalc6 B OG SER 354 B SER 354 1_555 L NA NA . B NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.056 ? metalc ? metalc7 K O2S FZT . B FZT 504 1_555 L NA NA . B NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.519 ? metalc ? metalc8 L NA NA . B NA 505 1_555 N O HOH . B HOH 651 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? # _chem_comp.formula 'C13 H20 N4 O10 S' _chem_comp.formula_weight 424.384 _chem_comp.id FZT _chem_comp.mon_nstd_flag . _chem_comp.name "5'-O-(N-(L-seryl)-sulfamoyl)N3-methyluridine" _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 OG CB FZT sing 92 n n CB CA FZT sing 93 n n N CA FZT sing 94 n n CA C FZT sing 95 n n C O FZT doub 96 n n C N3S FZT sing 97 n n C5' C4' FZT sing 98 n n C5' O5' FZT sing 99 n n N3S S FZT sing 100 n n C4' O4' FZT sing 101 n n C4' C3' FZT sing 102 n n O3' C3' FZT sing 103 n n O5' S FZT sing 104 n n O4' C1' FZT sing 105 n n O2' C2' FZT sing 106 n n C3' C2' FZT sing 107 n n S O2S FZT doub 108 n n S O1S FZT doub 109 n n C1' C2' FZT sing 110 n n C1' N1 FZT sing 111 n n O2 C2 FZT doub 112 n n N1 C2 FZT sing 113 n n N1 C6 FZT sing 114 n n C2 N3 FZT sing 115 n n C6 C5 FZT doub 116 n n N3 C3U FZT sing 117 n n N3 C4 FZT sing 118 n n C5 C4 FZT sing 119 n n C4 O4 FZT doub 120 n n C3U H1 FZT sing 121 n n C3U H2 FZT sing 122 n n C3U H3 FZT sing 123 n n C5 H4 FZT sing 124 n n C6 H5 FZT sing 125 n n C1' H6 FZT sing 126 n n C4' H7 FZT sing 127 n n C5' H8 FZT sing 128 n n C5' H9 FZT sing 129 n n N3S H10 FZT sing 130 n n CA H11 FZT sing 131 n n N H12 FZT sing 132 n n N H13 FZT sing 133 n n CB H15 FZT sing 134 n n CB H16 FZT sing 135 n n OG H17 FZT sing 136 n n C3' H18 FZT sing 137 n n O3' H19 FZT sing 138 n n C2' H20 FZT sing 139 n n O2' H21 FZT sing 140 n n # _atom_sites.entry_id 6HE1 _atom_sites.fract_transf_matrix[1][1] 0.006669 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002946 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008207 _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] 0.016746 _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 EDO A 1 501 1 EDO EDO . D 2 EDO A 1 502 3 EDO EDO . E 2 EDO A 1 503 6 EDO EDO . F 3 FZT A 1 504 2 FZT S3U . G 4 NA A 1 505 1 NA NA . H 2 EDO B 1 501 4 EDO EDO . I 2 EDO B 1 502 5 EDO EDO . J 2 EDO B 1 503 7 EDO EDO . K 3 FZT B 1 504 1 FZT S3U . L 4 NA B 1 505 3 NA NA . M 5 HOH A 1 601 79 HOH HOH . M 5 HOH A 2 602 103 HOH HOH . M 5 HOH A 3 603 9 HOH HOH . M 5 HOH A 4 604 4 HOH HOH . M 5 HOH A 5 605 16 HOH HOH . M 5 HOH A 6 606 40 HOH HOH . M 5 HOH A 7 607 75 HOH HOH . M 5 HOH A 8 608 138 HOH HOH . M 5 HOH A 9 609 24 HOH HOH . M 5 HOH A 10 610 167 HOH HOH . M 5 HOH A 11 611 5 HOH HOH . M 5 HOH A 12 612 44 HOH HOH . M 5 HOH A 13 613 27 HOH HOH . M 5 HOH A 14 614 59 HOH HOH . M 5 HOH A 15 615 46 HOH HOH . M 5 HOH A 16 616 180 HOH HOH . M 5 HOH A 17 617 22 HOH HOH . M 5 HOH A 18 618 63 HOH HOH . M 5 HOH A 19 619 89 HOH HOH . M 5 HOH A 20 620 7 HOH HOH . M 5 HOH A 21 621 86 HOH HOH . M 5 HOH A 22 622 17 HOH HOH . M 5 HOH A 23 623 104 HOH HOH . M 5 HOH A 24 624 1 HOH HOH . M 5 HOH A 25 625 74 HOH HOH . M 5 HOH A 26 626 30 HOH HOH . M 5 HOH A 27 627 29 HOH HOH . M 5 HOH A 28 628 10 HOH HOH . M 5 HOH A 29 629 26 HOH HOH . M 5 HOH A 30 630 83 HOH HOH . M 5 HOH A 31 631 119 HOH HOH . M 5 HOH A 32 632 140 HOH HOH . M 5 HOH A 33 633 91 HOH HOH . M 5 HOH A 34 634 123 HOH HOH . M 5 HOH A 35 635 58 HOH HOH . M 5 HOH A 36 636 42 HOH HOH . M 5 HOH A 37 637 19 HOH HOH . M 5 HOH A 38 638 161 HOH HOH . M 5 HOH A 39 639 175 HOH HOH . M 5 HOH A 40 640 78 HOH HOH . M 5 HOH A 41 641 41 HOH HOH . M 5 HOH A 42 642 134 HOH HOH . M 5 HOH A 43 643 126 HOH HOH . M 5 HOH A 44 644 162 HOH HOH . M 5 HOH A 45 645 157 HOH HOH . M 5 HOH A 46 646 64 HOH HOH . M 5 HOH A 47 647 47 HOH HOH . M 5 HOH A 48 648 70 HOH HOH . M 5 HOH A 49 649 99 HOH HOH . M 5 HOH A 50 650 137 HOH HOH . M 5 HOH A 51 651 39 HOH HOH . M 5 HOH A 52 652 118 HOH HOH . M 5 HOH A 53 653 25 HOH HOH . M 5 HOH A 54 654 93 HOH HOH . M 5 HOH A 55 655 32 HOH HOH . M 5 HOH A 56 656 120 HOH HOH . M 5 HOH A 57 657 80 HOH HOH . M 5 HOH A 58 658 48 HOH HOH . M 5 HOH A 59 659 172 HOH HOH . M 5 HOH A 60 660 158 HOH HOH . M 5 HOH A 61 661 107 HOH HOH . M 5 HOH A 62 662 100 HOH HOH . M 5 HOH A 63 663 121 HOH HOH . M 5 HOH A 64 664 144 HOH HOH . M 5 HOH A 65 665 72 HOH HOH . M 5 HOH A 66 666 71 HOH HOH . M 5 HOH A 67 667 160 HOH HOH . M 5 HOH A 68 668 114 HOH HOH . M 5 HOH A 69 669 12 HOH HOH . M 5 HOH A 70 670 76 HOH HOH . M 5 HOH A 71 671 14 HOH HOH . M 5 HOH A 72 672 38 HOH HOH . M 5 HOH A 73 673 159 HOH HOH . M 5 HOH A 74 674 165 HOH HOH . M 5 HOH A 75 675 132 HOH HOH . M 5 HOH A 76 676 50 HOH HOH . M 5 HOH A 77 677 170 HOH HOH . M 5 HOH A 78 678 129 HOH HOH . M 5 HOH A 79 679 37 HOH HOH . M 5 HOH A 80 680 111 HOH HOH . M 5 HOH A 81 681 166 HOH HOH . M 5 HOH A 82 682 11 HOH HOH . M 5 HOH A 83 683 148 HOH HOH . M 5 HOH A 84 684 21 HOH HOH . M 5 HOH A 85 685 151 HOH HOH . M 5 HOH A 86 686 133 HOH HOH . M 5 HOH A 87 687 87 HOH HOH . M 5 HOH A 88 688 20 HOH HOH . M 5 HOH A 89 689 149 HOH HOH . M 5 HOH A 90 690 156 HOH HOH . M 5 HOH A 91 691 131 HOH HOH . M 5 HOH A 92 692 128 HOH HOH . M 5 HOH A 93 693 98 HOH HOH . M 5 HOH A 94 694 136 HOH HOH . M 5 HOH A 95 695 105 HOH HOH . M 5 HOH A 96 696 125 HOH HOH . M 5 HOH A 97 697 177 HOH HOH . M 5 HOH A 98 698 179 HOH HOH . M 5 HOH A 99 699 171 HOH HOH . N 5 HOH B 1 601 3 HOH HOH . N 5 HOH B 2 602 57 HOH HOH . N 5 HOH B 3 603 88 HOH HOH . N 5 HOH B 4 604 45 HOH HOH . N 5 HOH B 5 605 60 HOH HOH . N 5 HOH B 6 606 23 HOH HOH . N 5 HOH B 7 607 61 HOH HOH . N 5 HOH B 8 608 62 HOH HOH . N 5 HOH B 9 609 15 HOH HOH . N 5 HOH B 10 610 49 HOH HOH . N 5 HOH B 11 611 36 HOH HOH . N 5 HOH B 12 612 146 HOH HOH . N 5 HOH B 13 613 51 HOH HOH . N 5 HOH B 14 614 169 HOH HOH . N 5 HOH B 15 615 85 HOH HOH . N 5 HOH B 16 616 8 HOH HOH . N 5 HOH B 17 617 52 HOH HOH . N 5 HOH B 18 618 68 HOH HOH . N 5 HOH B 19 619 67 HOH HOH . N 5 HOH B 20 620 31 HOH HOH . N 5 HOH B 21 621 154 HOH HOH . N 5 HOH B 22 622 142 HOH HOH . N 5 HOH B 23 623 96 HOH HOH . N 5 HOH B 24 624 116 HOH HOH . N 5 HOH B 25 625 94 HOH HOH . N 5 HOH B 26 626 18 HOH HOH . N 5 HOH B 27 627 34 HOH HOH . N 5 HOH B 28 628 115 HOH HOH . N 5 HOH B 29 629 35 HOH HOH . N 5 HOH B 30 630 102 HOH HOH . N 5 HOH B 31 631 141 HOH HOH . N 5 HOH B 32 632 2 HOH HOH . N 5 HOH B 33 633 139 HOH HOH . N 5 HOH B 34 634 43 HOH HOH . N 5 HOH B 35 635 65 HOH HOH . N 5 HOH B 36 636 56 HOH HOH . N 5 HOH B 37 637 150 HOH HOH . N 5 HOH B 38 638 13 HOH HOH . N 5 HOH B 39 639 168 HOH HOH . N 5 HOH B 40 640 122 HOH HOH . N 5 HOH B 41 641 33 HOH HOH . N 5 HOH B 42 642 69 HOH HOH . N 5 HOH B 43 643 147 HOH HOH . N 5 HOH B 44 644 181 HOH HOH . N 5 HOH B 45 645 66 HOH HOH . N 5 HOH B 46 646 106 HOH HOH . N 5 HOH B 47 647 55 HOH HOH . N 5 HOH B 48 648 73 HOH HOH . N 5 HOH B 49 649 28 HOH HOH . N 5 HOH B 50 650 117 HOH HOH . N 5 HOH B 51 651 101 HOH HOH . N 5 HOH B 52 652 6 HOH HOH . N 5 HOH B 53 653 54 HOH HOH . N 5 HOH B 54 654 112 HOH HOH . N 5 HOH B 55 655 82 HOH HOH . N 5 HOH B 56 656 95 HOH HOH . N 5 HOH B 57 657 53 HOH HOH . N 5 HOH B 58 658 127 HOH HOH . N 5 HOH B 59 659 77 HOH HOH . N 5 HOH B 60 660 163 HOH HOH . N 5 HOH B 61 661 109 HOH HOH . N 5 HOH B 62 662 92 HOH HOH . N 5 HOH B 63 663 143 HOH HOH . N 5 HOH B 64 664 90 HOH HOH . N 5 HOH B 65 665 176 HOH HOH . N 5 HOH B 66 666 164 HOH HOH . N 5 HOH B 67 667 145 HOH HOH . N 5 HOH B 68 668 174 HOH HOH . N 5 HOH B 69 669 152 HOH HOH . N 5 HOH B 70 670 173 HOH HOH . N 5 HOH B 71 671 178 HOH HOH . N 5 HOH B 72 672 130 HOH HOH . N 5 HOH B 73 673 81 HOH HOH . N 5 HOH B 74 674 135 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 C3U FZT . . . F 3 -22.323 -7.776 7.444 1 45.63 ? C3U FZT 504 A 1 HETATM 2 N N3 FZT . . . F 3 -22.865 -8.891 8.233 1 48.32 ? N3 FZT 504 A 1 HETATM 3 C C4 FZT . . . F 3 -22.141 -9.332 9.353 1 47.98 ? C4 FZT 504 A 1 HETATM 4 O O4 FZT . . . F 3 -21.036 -8.857 9.585 1 49.71 ? O4 FZT 504 A 1 HETATM 5 C C5 FZT . . . F 3 -22.745 -10.397 10.109 1 46.14 ? C5 FZT 504 A 1 HETATM 6 C C6 FZT . . . F 3 -23.904 -10.944 9.709 1 45.33 ? C6 FZT 504 A 1 HETATM 7 N N1 FZT . . . F 3 -24.56 -10.486 8.578 1 45.32 ? N1 FZT 504 A 1 HETATM 8 C C1' FZT . . . F 3 -25.828 -11.089 8.145 1 45.23 ? C1' FZT 504 A 1 HETATM 9 O O4' FZT . . . F 3 -26.783 -10.931 9.175 1 41.44 ? O4' FZT 504 A 1 HETATM 10 C C4' FZT . . . F 3 -27.682 -12.053 9.106 1 45.05 ? C4' FZT 504 A 1 HETATM 11 C C5' FZT . . . F 3 -28.471 -12.183 10.39 1 48.77 ? C5' FZT 504 A 1 HETATM 12 O O5' FZT . . . F 3 -27.533 -12.392 11.511 1 50.87 ? O5' FZT 504 A 1 HETATM 13 S S FZT . . . F 3 -27.667 -13.67 12.471 1 50.35 ? S FZT 504 A 1 HETATM 14 O O1S FZT . . . F 3 -26.86 -13.335 13.587 1 50.52 ? O1S FZT 504 A 1 HETATM 15 O O2S FZT . . . F 3 -27.364 -14.795 11.662 1 51.71 ? O2S FZT 504 A 1 HETATM 16 N N3S FZT . . . F 3 -29.204 -13.712 12.902 1 47.13 ? N3S FZT 504 A 1 HETATM 17 C C FZT . . . F 3 -29.891 -12.596 13.427 1 47.9 ? C FZT 504 A 1 HETATM 18 O O FZT . . . F 3 -29.27 -11.545 13.594 1 50.86 ? O FZT 504 A 1 HETATM 19 C CA FZT . . . F 3 -31.385 -12.735 13.729 1 47.17 ? CA FZT 504 A 1 HETATM 20 N N FZT . . . F 3 -31.912 -11.48 14.305 1 40.07 ? N FZT 504 A 1 HETATM 21 C CB FZT . . . F 3 -32.131 -13 12.421 1 46.99 ? CB FZT 504 A 1 HETATM 22 O OG FZT . . . F 3 -31.774 -12.036 11.445 1 44.25 ? OG FZT 504 A 1 HETATM 23 C C3' FZT . . . F 3 -26.779 -13.22 8.752 1 45.92 ? C3' FZT 504 A 1 HETATM 24 O O3' FZT . . . F 3 -27.551 -14.211 8.094 1 48.11 ? O3' FZT 504 A 1 HETATM 25 C C2' FZT . . . F 3 -25.749 -12.589 7.802 1 48.33 ? C2' FZT 504 A 1 HETATM 26 O O2' FZT . . . F 3 -26.101 -12.787 6.437 1 49.18 ? O2' FZT 504 A 1 HETATM 27 C C2 FZT . . . F 3 -24.081 -9.435 7.814 1 48.76 ? C2 FZT 504 A 1 HETATM 28 O O2 FZT . . . F 3 -24.687 -8.968 6.859 1 50.27 ? O2 FZT 504 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 32 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 339 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 28 #