data_6NYC # _model_server_result.job_id yvXI3XjVxkAxoRjzmR2suw _model_server_result.datetime_utc '2025-03-27 10:06:48' _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 6nyc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":903}' # _entry.id 6NYC # _exptl.entry_id 6NYC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 282.334 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL _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 6NYC _cell.length_a 42.572 _cell.length_b 101.141 _cell.length_c 68.038 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6NYC _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _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 _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 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C11 H26 N2 O6' _chem_comp.formula_weight 282.334 _chem_comp.id B3P _chem_comp.mon_nstd_flag . _chem_comp.name 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL _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 C2 B3P sing 70 n n C1 C3 B3P sing 71 n n C1 H11 B3P sing 72 n n C1 H12 B3P sing 73 n n C2 N2 B3P sing 74 n n C2 H21 B3P sing 75 n n C2 H22 B3P sing 76 n n C3 N1 B3P sing 77 n n C3 H31 B3P sing 78 n n C3 H32 B3P sing 79 n n N1 C4 B3P sing 80 n n N1 HN1 B3P sing 81 n n C4 C5 B3P sing 82 n n C4 C6 B3P sing 83 n n C4 C7 B3P sing 84 n n C5 O4 B3P sing 85 n n C5 H51 B3P sing 86 n n C5 H52 B3P sing 87 n n C6 O5 B3P sing 88 n n C6 H61 B3P sing 89 n n C6 H62 B3P sing 90 n n C7 O6 B3P sing 91 n n C7 H71 B3P sing 92 n n C7 H72 B3P sing 93 n n N2 C8 B3P sing 94 n n N2 HN2 B3P sing 95 n n C8 C9 B3P sing 96 n n C8 C10 B3P sing 97 n n C8 C11 B3P sing 98 n n C9 O1 B3P sing 99 n n C9 H91 B3P sing 100 n n C9 H92 B3P sing 101 n n C10 O2 B3P sing 102 n n C10 H101 B3P sing 103 n n C10 H102 B3P sing 104 n n C11 O3 B3P sing 105 n n C11 H111 B3P sing 106 n n C11 H112 B3P sing 107 n n O1 HO1 B3P sing 108 n n O2 HO2 B3P sing 109 n n O3 HO3 B3P sing 110 n n O4 HO4 B3P sing 111 n n O5 HO5 B3P sing 112 n n O6 HO6 B3P sing 113 n n # _atom_sites.entry_id 6NYC _atom_sites.fract_transf_matrix[1][1] 0.02349 _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] 0.009887 _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] 0.014698 _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 CL A 1 901 911 CL CL . C 2 CL A 1 902 912 CL CL . D 3 B3P A 1 903 1001 B3P B3P . E 4 HOH A 1 1001 14 HOH HOH . E 4 HOH A 2 1002 11 HOH HOH . E 4 HOH A 3 1003 12 HOH HOH . E 4 HOH A 4 1004 3 HOH HOH . E 4 HOH A 5 1005 10 HOH HOH . E 4 HOH A 6 1006 8 HOH HOH . E 4 HOH A 7 1007 1 HOH HOH . E 4 HOH A 8 1008 4 HOH HOH . E 4 HOH A 9 1009 15 HOH HOH . E 4 HOH A 10 1010 18 HOH HOH . E 4 HOH A 11 1011 9 HOH HOH . E 4 HOH A 12 1012 17 HOH HOH . E 4 HOH A 13 1013 20 HOH HOH . E 4 HOH A 14 1014 19 HOH HOH . E 4 HOH A 15 1015 5 HOH HOH . E 4 HOH A 16 1016 7 HOH HOH . E 4 HOH A 17 1017 16 HOH HOH . E 4 HOH A 18 1018 2 HOH HOH . E 4 HOH A 19 1019 13 HOH HOH . E 4 HOH A 20 1020 6 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 B3P . . . D 3 15.108 21.65 26.683 1 55.21 ? C1 B3P 903 A 1 HETATM 2 C C2 B3P . . . D 3 16.578 21.326 26.404 1 68.35 ? C2 B3P 903 A 1 HETATM 3 C C3 B3P . . . D 3 14.969 22.825 27.657 1 46.28 ? C3 B3P 903 A 1 HETATM 4 N N1 B3P . . . D 3 13.573 23.229 27.767 1 34.3 ? N1 B3P 903 A 1 HETATM 5 C C4 B3P . . . D 3 13.374 24.273 28.763 1 36.68 ? C4 B3P 903 A 1 HETATM 6 C C5 B3P . . . D 3 11.887 24.607 28.846 1 38.38 ? C5 B3P 903 A 1 HETATM 7 C C6 B3P . . . D 3 13.796 23.775 30.142 1 37.2 ? C6 B3P 903 A 1 HETATM 8 C C7 B3P . . . D 3 14.169 25.542 28.451 1 33.41 ? C7 B3P 903 A 1 HETATM 9 N N2 B3P . . . D 3 17.095 20.458 27.453 1 81.32 ? N2 B3P 903 A 1 HETATM 10 C C8 B3P . . . D 3 18.45 20 27.173 1 67.98 ? C8 B3P 903 A 1 HETATM 11 C C9 B3P . . . D 3 18.382 18.918 26.104 1 77.2 ? C9 B3P 903 A 1 HETATM 12 C C10 B3P . . . D 3 19.086 19.412 28.43 1 58.87 ? C10 B3P 903 A 1 HETATM 13 C C11 B3P . . . D 3 19.351 21.139 26.696 1 53.84 ? C11 B3P 903 A 1 HETATM 14 O O1 B3P . . . D 3 17.375 18.002 26.441 1 83.3 ? O1 B3P 903 A 1 HETATM 15 O O2 B3P . . . D 3 18.135 18.742 29.211 1 52.97 ? O2 B3P 903 A 1 HETATM 16 O O3 B3P . . . D 3 19.225 22.224 27.577 1 39.3 ? O3 B3P 903 A 1 HETATM 17 O O4 B3P . . . D 3 11.381 24.929 27.579 1 41.37 ? O4 B3P 903 A 1 HETATM 18 O O5 B3P . . . D 3 13.336 22.469 30.337 1 40.53 ? O5 B3P 903 A 1 HETATM 19 O O6 B3P . . . D 3 13.934 25.973 27.138 1 34.18 ? O6 B3P 903 A 1 HETATM 20 H H11 B3P . . . D 3 14.68 20.869 27.068 1 66.49 ? H11 B3P 903 A 1 HETATM 21 H H12 B3P . . . D 3 14.671 21.879 25.848 1 66.49 ? H12 B3P 903 A 1 HETATM 22 H H21 B3P . . . D 3 17.092 22.149 26.383 1 82.26 ? H21 B3P 903 A 1 HETATM 23 H H22 B3P . . . D 3 16.653 20.877 25.547 1 82.26 ? H22 B3P 903 A 1 HETATM 24 H H31 B3P . . . D 3 15.494 23.573 27.333 1 55.78 ? H31 B3P 903 A 1 HETATM 25 H H32 B3P . . . D 3 15.294 22.557 28.531 1 55.78 ? H32 B3P 903 A 1 HETATM 26 H HN1 B3P . . . D 3 13.095 22.519 28.009 1 41.4 ? HN1 B3P 903 A 1 HETATM 27 H H51 B3P . . . D 3 11.407 23.839 29.196 1 46.3 ? H51 B3P 903 A 1 HETATM 28 H H52 B3P . . . D 3 11.763 25.363 29.441 1 46.3 ? H52 B3P 903 A 1 HETATM 29 H H61 B3P . . . D 3 13.418 24.354 30.823 1 44.88 ? H61 B3P 903 A 1 HETATM 30 H H62 B3P . . . D 3 14.763 23.788 30.207 1 44.88 ? H62 B3P 903 A 1 HETATM 31 H H71 B3P . . . D 3 15.115 25.357 28.559 1 40.33 ? H71 B3P 903 A 1 HETATM 32 H H72 B3P . . . D 3 13.903 26.242 29.067 1 40.33 ? H72 B3P 903 A 1 HETATM 33 H HN2 B3P . . . D 3 16.566 19.745 27.511 1 97.83 ? HN2 B3P 903 A 1 HETATM 34 H H91 B3P . . . D 3 18.179 19.322 25.246 1 92.87 ? H91 B3P 903 A 1 HETATM 35 H H92 B3P . . . D 3 19.235 18.459 26.052 1 92.87 ? H92 B3P 903 A 1 HETATM 36 H H101 B3P . . . D 3 19.477 20.129 28.954 1 70.88 ? H101 B3P 903 A 1 HETATM 37 H H102 B3P . . . D 3 19.781 18.786 28.171 1 70.88 ? H102 B3P 903 A 1 HETATM 38 H H111 B3P . . . D 3 19.084 21.412 25.804 1 64.85 ? H111 B3P 903 A 1 HETATM 39 H H112 B3P . . . D 3 20.273 20.839 26.68 1 64.85 ? H112 B3P 903 A 1 HETATM 40 H HO1 B3P . . . D 3 17.489 17.282 26.004 1 100.2 ? HO1 B3P 903 A 1 HETATM 41 H HO2 B3P . . . D 3 18.49 18.5 29.944 1 63.8 ? HO2 B3P 903 A 1 HETATM 42 H HO3 B3P . . . D 3 19.875 22.759 27.462 1 47.4 ? HO3 B3P 903 A 1 HETATM 43 H HO4 B3P . . . D 3 10.601 25.257 27.661 1 49.88 ? HO4 B3P 903 A 1 HETATM 44 H HO5 B3P . . . D 3 12.599 22.489 30.761 1 48.88 ? HO5 B3P 903 A 1 HETATM 45 H HO6 B3P . . . D 3 14.539 26.524 26.908 1 41.26 ? HO6 B3P 903 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 464 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 45 #