data_5JDL # _model_server_result.job_id 81YvxdBqWfWbyRaRNHYtLg _model_server_result.datetime_utc '2024-11-15 03:35:53' _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 5jdl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":409}' # _entry.id 5JDL # _exptl.entry_id 5JDL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 212.415 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description PENTADECANE _entity.pdbx_number_of_molecules 3 _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 5JDL _cell.length_a 49.764 _cell.length_b 72.622 _cell.length_c 95.616 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JDL _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 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,F,G,H,I,J,K,L,M _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 ? 5 I N N ? 5 J N N ? 5 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 O THR 50 A THR 50 1_555 C SR SR . A SR 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? metalc ? metalc2 A OE1 GLU 54 A GLU 54 1_555 C SR SR . A SR 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? metalc ? metalc3 A OE2 GLU 54 A GLU 54 1_555 C SR SR . A SR 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc4 A O ILE 118 A ILE 118 1_555 B SR SR . A SR 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.519 ? metalc ? metalc5 A O GLY 122 A GLY 122 1_555 B SR SR . A SR 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.585 ? metalc ? metalc6 A OD2 ASP 127 A ASP 127 1_555 B SR SR . A SR 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.564 ? metalc ? metalc7 A O THR 209 A THR 209 1_555 C SR SR . A SR 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.655 ? metalc ? metalc8 A OE1 GLU 213 A GLU 213 1_555 C SR SR . A SR 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.502 ? metalc ? metalc9 A OE2 GLU 213 A GLU 213 1_555 C SR SR . A SR 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.569 ? metalc ? metalc10 B SR SR . A SR 401 1_555 E O23 OLC . A OLC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.475 ? metalc ? metalc11 B SR SR . A SR 401 1_555 M O HOH . A HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.517 ? # _chem_comp.formula 'C15 H32' _chem_comp.formula_weight 212.415 _chem_comp.id MYS _chem_comp.mon_nstd_flag . _chem_comp.name PENTADECANE _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 MYS sing 274 n n C1 H11 MYS sing 275 n n C1 H12 MYS sing 276 n n C1 H13 MYS sing 277 n n C2 C3 MYS sing 278 n n C2 H21 MYS sing 279 n n C2 H22 MYS sing 280 n n C3 C4 MYS sing 281 n n C3 H31 MYS sing 282 n n C3 H32 MYS sing 283 n n C4 C5 MYS sing 284 n n C4 H41 MYS sing 285 n n C4 H42 MYS sing 286 n n C5 C6 MYS sing 287 n n C5 H51 MYS sing 288 n n C5 H52 MYS sing 289 n n C6 C7 MYS sing 290 n n C6 H61 MYS sing 291 n n C6 H62 MYS sing 292 n n C7 C8 MYS sing 293 n n C7 H71 MYS sing 294 n n C7 H72 MYS sing 295 n n C8 C9 MYS sing 296 n n C8 H81 MYS sing 297 n n C8 H82 MYS sing 298 n n C9 C10 MYS sing 299 n n C9 H91 MYS sing 300 n n C9 H92 MYS sing 301 n n C10 C11 MYS sing 302 n n C10 H101 MYS sing 303 n n C10 H102 MYS sing 304 n n C11 C12 MYS sing 305 n n C11 H111 MYS sing 306 n n C11 H112 MYS sing 307 n n C12 C13 MYS sing 308 n n C12 H121 MYS sing 309 n n C12 H122 MYS sing 310 n n C13 C14 MYS sing 311 n n C13 H131 MYS sing 312 n n C13 H132 MYS sing 313 n n C14 C15 MYS sing 314 n n C14 H141 MYS sing 315 n n C14 H142 MYS sing 316 n n C15 H151 MYS sing 317 n n C15 H152 MYS sing 318 n n C15 H153 MYS sing 319 n n # _atom_sites.entry_id 5JDL _atom_sites.fract_transf_matrix[1][1] 0.020095 _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] 0.01377 _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] 0.010459 _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 SR A 1 401 2 SR SR . C 2 SR A 1 402 3 SR SR . D 3 CL A 1 403 1 CL CL . E 4 OLC A 1 404 1 OLC MON . F 4 OLC A 1 405 2 OLC MON . G 4 OLC A 1 406 3 OLC MON . H 4 OLC A 1 407 4 OLC MON . I 5 MYS A 1 408 5 MYS FAT . J 5 MYS A 1 409 7 MYS FAT . K 5 MYS A 1 410 8 MYS FAT . L 6 1PE A 1 411 1 1PE PEG . M 7 HOH A 1 501 2 HOH HOH . M 7 HOH A 2 502 1 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 C2 MYS . . . J 5 14.404 1.216 11.51 1 76.11 ? C2 MYS 409 A 1 HETATM 2 C C3 MYS . . . J 5 13.797 2.326 10.633 1 75.81 ? C3 MYS 409 A 1 HETATM 3 C C4 MYS . . . J 5 12.401 1.929 10.14 1 87.04 ? C4 MYS 409 A 1 HETATM 4 C C5 MYS . . . J 5 11.555 1.72 11.394 1 92.69 ? C5 MYS 409 A 1 HETATM 5 C C6 MYS . . . J 5 10.119 1.336 11.054 1 93.18 ? C6 MYS 409 A 1 HETATM 6 C C7 MYS . . . J 5 9.329 1.155 12.36 1 99.45 ? C7 MYS 409 A 1 HETATM 7 C C8 MYS . . . J 5 7.862 0.818 12.06 1 93.49 ? C8 MYS 409 A 1 HETATM 8 C C9 MYS . . . J 5 7.795 -0.429 11.171 1 99.94 ? C9 MYS 409 A 1 HETATM 9 C C10 MYS . . . J 5 8.47 -1.648 11.803 1 93.33 ? C10 MYS 409 A 1 HETATM 10 C C11 MYS . . . J 5 8.375 -2.809 10.805 1 95.76 ? C11 MYS 409 A 1 HETATM 11 C C12 MYS . . . J 5 9.071 -2.424 9.49 1 95.06 ? C12 MYS 409 A 1 HETATM 12 C C13 MYS . . . J 5 10.54 -2.109 9.779 1 87.06 ? C13 MYS 409 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 30 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 12 #