data_3TDL # _model_server_result.job_id mPJYCowL8VeE-fdZfJKbNQ _model_server_result.datetime_utc '2024-11-25 01:42:38' _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 3tdl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1006}' # _entry.id 3TDL # _exptl.entry_id 3TDL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 434.592 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '11-({[5-(dimethylamino)naphthalen-1-yl]sulfonyl}amino)undecanoic acid' _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 104.38 _cell.angle_gamma 90 _cell.entry_id 3TDL _cell.length_a 176.657 _cell.length_b 37.137 _cell.length_c 90.195 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3TDL _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 _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 G 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 disulf ? disulf1 A SG CYS 53 A CYS 53 1_555 A SG CYS 62 A CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf2 A SG CYS 75 A CYS 75 1_555 A SG CYS 91 A CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 90 A CYS 90 1_555 A SG CYS 101 A CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 A SG CYS 124 A CYS 124 1_555 A SG CYS 169 A CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 A SG CYS 168 A CYS 168 1_555 A SG CYS 177 A CYS 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 A SG CYS 200 A CYS 200 1_555 A SG CYS 246 A CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 A SG CYS 245 A CYS 245 1_555 A SG CYS 253 A CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 A SG CYS 265 A CYS 265 1_555 A SG CYS 279 A CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf9 A SG CYS 278 A CYS 278 1_555 A SG CYS 289 A CYS 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf10 A SG CYS 316 A CYS 316 1_555 A SG CYS 361 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf11 A SG CYS 360 A CYS 360 1_555 A SG CYS 369 A CYS 369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf12 A SG CYS 392 A CYS 392 1_555 A SG CYS 438 A CYS 438 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf13 A SG CYS 437 A CYS 437 1_555 A SG CYS 448 A CYS 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf14 A SG CYS 461 A CYS 461 1_555 A SG CYS 477 A CYS 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf15 A SG CYS 476 A CYS 476 1_555 A SG CYS 487 A CYS 487 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf16 A SG CYS 514 A CYS 514 1_555 A SG CYS 559 A CYS 559 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf17 A SG CYS 558 A CYS 558 1_555 A SG CYS 567 A CYS 567 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? # _chem_comp.formula 'C23 H34 N2 O4 S' _chem_comp.formula_weight 434.592 _chem_comp.id 11D _chem_comp.mon_nstd_flag . _chem_comp.name '11-({[5-(dimethylamino)naphthalen-1-yl]sulfonyl}amino)undecanoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '11-(Dansylamino)undecanoic acid' # 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 C2 C1 11D doub 1 n y C1 C6 11D sing 2 n y C1 H1 11D sing 3 n n C7 C2 11D sing 4 n y C3 C2 11D sing 5 n y C10 C3 11D sing 6 n y C3 C4 11D doub 7 n y S14 C4 11D sing 8 n n C4 C5 11D sing 9 n y C5 C6 11D doub 10 n y C5 H5 11D sing 11 n n C6 H6 11D sing 12 n n C8 C7 11D doub 13 n y C7 N11 11D sing 14 n n C9 C8 11D sing 15 n y C8 H8 11D sing 16 n n C9 C10 11D doub 17 n y C9 H9 11D sing 18 n n C10 H10 11D sing 19 n n C13 N11 11D sing 20 n n N11 C12 11D sing 21 n n C12 H12 11D sing 22 n n C12 H12A 11D sing 23 n n C12 H12B 11D sing 24 n n C13 H13 11D sing 25 n n C13 H13A 11D sing 26 n n C13 H13B 11D sing 27 n n N17 S14 11D sing 28 n n S14 O16 11D doub 29 n n S14 O15 11D doub 30 n n C18 N17 11D sing 31 n n N17 HN17 11D sing 32 n n C18 C19 11D sing 33 n n C18 H18 11D sing 34 n n C18 H18A 11D sing 35 n n C20 C19 11D sing 36 n n C19 H19 11D sing 37 n n C19 H19A 11D sing 38 n n C20 C21 11D sing 39 n n C20 H20 11D sing 40 n n C20 H20A 11D sing 41 n n C22 C21 11D sing 42 n n C21 H21 11D sing 43 n n C21 H21A 11D sing 44 n n C23 C22 11D sing 45 n n C22 H22 11D sing 46 n n C22 H22A 11D sing 47 n n C24 C23 11D sing 48 n n C23 H23 11D sing 49 n n C23 H23A 11D sing 50 n n C25 C24 11D sing 51 n n C24 H24 11D sing 52 n n C24 H24A 11D sing 53 n n C26 C25 11D sing 54 n n C25 H25 11D sing 55 n n C25 H25A 11D sing 56 n n C27 C26 11D sing 57 n n C26 H26 11D sing 58 n n C26 H26A 11D sing 59 n n C28 C27 11D sing 60 n n C27 H27 11D sing 61 n n C27 H27A 11D sing 62 n n O29 C28 11D doub 63 n n C28 O30 11D sing 64 n n O30 HO30 11D sing 65 n n # _atom_sites.entry_id 3TDL _atom_sites.fract_transf_matrix[1][1] 0.005661 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001451 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.026927 _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] 0.011446 _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 MYR A 1 1002 1002 MYR MYR . C 2 MYR A 1 1003 1003 MYR MYR . D 2 MYR A 1 1004 1004 MYR MYR . E 2 MYR A 1 1005 1005 MYR MYR . F 3 11D A 1 1006 1006 11D 11D . G 3 11D A 1 1007 1007 11D 11D . # 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 11D . . . F 3 27.619 -7.366 -4.79 1 66 ? C1 11D 1006 A 1 HETATM 2 C C2 11D . . . F 3 28.001 -6.355 -5.679 1 69.74 ? C2 11D 1006 A 1 HETATM 3 C C3 11D . . . F 3 27.497 -5.05 -5.493 1 67.21 ? C3 11D 1006 A 1 HETATM 4 C C4 11D . . . F 3 26.633 -4.751 -4.412 1 69.14 ? C4 11D 1006 A 1 HETATM 5 C C5 11D . . . F 3 26.278 -5.793 -3.54 1 66.72 ? C5 11D 1006 A 1 HETATM 6 C C6 11D . . . F 3 26.769 -7.084 -3.725 1 62.77 ? C6 11D 1006 A 1 HETATM 7 C C7 11D . . . F 3 28.863 -6.662 -6.753 1 68.08 ? C7 11D 1006 A 1 HETATM 8 C C8 11D . . . F 3 29.237 -5.653 -7.634 1 62.99 ? C8 11D 1006 A 1 HETATM 9 C C9 11D . . . F 3 28.746 -4.361 -7.447 1 65.43 ? C9 11D 1006 A 1 HETATM 10 C C10 11D . . . F 3 27.884 -4.055 -6.386 1 63.57 ? C10 11D 1006 A 1 HETATM 11 N N11 11D . . . F 3 29.372 -7.97 -6.957 1 74.95 ? N11 11D 1006 A 1 HETATM 12 C C12 11D . . . F 3 30.31 -8.604 -6.042 1 72.08 ? C12 11D 1006 A 1 HETATM 13 C C13 11D . . . F 3 28.968 -8.742 -8.121 1 72.18 ? C13 11D 1006 A 1 HETATM 14 S S14 11D . . . F 3 26.012 -3.28 -4.117 1 70.1 ? S14 11D 1006 A 1 HETATM 15 O O15 11D . . . F 3 25.908 -3.081 -2.702 1 63.99 ? O15 11D 1006 A 1 HETATM 16 O O16 11D . . . F 3 26.799 -2.238 -4.734 1 68.23 ? O16 11D 1006 A 1 HETATM 17 N N17 11D . . . F 3 24.54 -3.119 -4.658 1 60.28 ? N17 11D 1006 A 1 HETATM 18 C C18 11D . . . F 3 23.449 -3.124 -3.736 1 61.19 ? C18 11D 1006 A 1 HETATM 19 C C19 11D . . . F 3 23.066 -4.57 -3.452 1 62.33 ? C19 11D 1006 A 1 HETATM 20 C C20 11D . . . F 3 21.647 -4.8 -3.938 1 56.29 ? C20 11D 1006 A 1 HETATM 21 C C21 11D . . . F 3 20.849 -5.519 -2.874 1 54.73 ? C21 11D 1006 A 1 HETATM 22 C C22 11D . . . F 3 19.373 -5.22 -3.05 1 56.03 ? C22 11D 1006 A 1 HETATM 23 C C23 11D . . . F 3 18.566 -6.319 -2.386 1 58.13 ? C23 11D 1006 A 1 HETATM 24 C C24 11D . . . F 3 18.638 -6.304 -0.862 1 60.79 ? C24 11D 1006 A 1 HETATM 25 C C25 11D . . . F 3 19.258 -7.594 -0.333 1 68.45 ? C25 11D 1006 A 1 HETATM 26 C C26 11D . . . F 3 18.913 -8.813 -1.199 1 68.69 ? C26 11D 1006 A 1 HETATM 27 C C27 11D . . . F 3 17.964 -9.777 -0.482 1 74.89 ? C27 11D 1006 A 1 HETATM 28 C C28 11D . . . F 3 18.534 -10.126 0.878 1 80.08 ? C28 11D 1006 A 1 HETATM 29 O O29 11D . . . F 3 18.061 -9.464 1.954 1 72.28 ? O29 11D 1006 A 1 HETATM 30 O O30 11D . . . F 3 19.42 -10.987 0.982 1 79.66 ? O30 11D 1006 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 294 _model_server_stats.encode_time_ms 22 _model_server_stats.element_count 30 #