data_5B6Z # _model_server_result.job_id 93HTtB68xuKiWduLA671sQ _model_server_result.datetime_utc '2024-11-23 02:11:30' _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 5b6z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":602}' # _entry.id 5B6Z # _exptl.entry_id 5B6Z _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 142.282 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description DECANE _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 120 _cell.entry_id 5B6Z _cell.length_a 62.5 _cell.length_b 62.5 _cell.length_c 112 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5B6Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 63' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,N,O,P,Q,R _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 2_455 -y-1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -62.5 0 0 3 'crystal symmetry operation' 3_445 -x+y-1,-x-1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -31.25 -54.126588 0 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id E _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 covale ? covale1 A NZ LYS 216 A LYS 216 1_555 B C15 RET . A RET 300 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.311 ? covale ? covale2 A NZ LYS 216 A LYS 216 1_555 B C15 RET . A RET 300 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.31 ? # _chem_comp.formula 'C10 H22' _chem_comp.formula_weight 142.282 _chem_comp.id D10 _chem_comp.mon_nstd_flag . _chem_comp.name DECANE _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 D10 sing 113 n n C1 H11 D10 sing 114 n n C1 H12 D10 sing 115 n n C1 H13 D10 sing 116 n n C2 C3 D10 sing 117 n n C2 H21 D10 sing 118 n n C2 H22 D10 sing 119 n n C3 C4 D10 sing 120 n n C3 H31 D10 sing 121 n n C3 H32 D10 sing 122 n n C4 C5 D10 sing 123 n n C4 H41 D10 sing 124 n n C4 H42 D10 sing 125 n n C5 C6 D10 sing 126 n n C5 H51 D10 sing 127 n n C5 H52 D10 sing 128 n n C6 C7 D10 sing 129 n n C6 H61 D10 sing 130 n n C6 H62 D10 sing 131 n n C7 C8 D10 sing 132 n n C7 H71 D10 sing 133 n n C7 H72 D10 sing 134 n n C8 C9 D10 sing 135 n n C8 H81 D10 sing 136 n n C8 H82 D10 sing 137 n n C9 C10 D10 sing 138 n n C9 H91 D10 sing 139 n n C9 H92 D10 sing 140 n n C10 H101 D10 sing 141 n n C10 H102 D10 sing 142 n n C10 H103 D10 sing 143 n n # _atom_sites.entry_id 5B6Z _atom_sites.fract_transf_matrix[1][1] 0.016 _atom_sites.fract_transf_matrix[1][2] 0.009238 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018475 _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] 0.008929 _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 RET A 1 300 300 RET RET . C 3 L2P A 1 600 600 L2P L2P . D 4 TRD A 1 601 601 TRD TRD . E 5 D10 A 1 602 602 D10 D10 . F 6 HP6 A 1 603 603 HP6 HP6 . G 7 OCT A 1 604 604 OCT OCT . H 7 OCT A 1 605 605 OCT OCT . I 8 MYS A 1 606 606 MYS MYS . J 9 UND A 1 607 607 UND UND . K 3 L2P A 1 608 608 L2P L2P . L 3 L2P A 1 609 609 L2P L2P . M 8 MYS A 1 610 610 MYS MYS . N 10 DD9 A 1 611 611 DD9 DD9 . O 11 C14 A 1 612 612 C14 C14 . P 7 OCT A 1 613 613 OCT OCT . Q 9 UND A 1 614 614 UND UND . R 12 HOH A 1 400 400 HOH HOH . R 12 HOH A 2 401 401 HOH HOH . R 12 HOH A 3 402 402 HOH HOH . R 12 HOH A 4 403 403 HOH HOH . R 12 HOH A 5 404 404 HOH HOH . R 12 HOH A 6 405 405 HOH HOH . R 12 HOH A 7 406 406 HOH HOH . R 12 HOH A 8 407 407 HOH HOH . R 12 HOH A 9 408 408 HOH HOH . R 12 HOH A 10 414 414 HOH HOH . R 12 HOH A 11 425 425 HOH HOH . R 12 HOH A 12 424 424 HOH HOH . R 12 HOH A 13 433 433 HOH HOH . R 12 HOH A 14 438 438 HOH HOH . R 12 HOH A 15 441 441 HOH HOH . R 12 HOH A 16 442 442 HOH HOH . R 12 HOH A 17 443 443 HOH HOH . R 12 HOH A 18 451 451 HOH HOH . R 12 HOH A 19 453 453 HOH HOH . R 12 HOH A 20 454 454 HOH HOH . R 12 HOH A 21 455 455 HOH HOH . R 12 HOH A 22 456 456 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 D10 . . . E 5 -8.11 -34.799 -2.216 1 84.86 ? C1 D10 602 A 1 HETATM 2 C C2 D10 . . . E 5 -7.449 -34.371 -3.526 1 91.48 ? C2 D10 602 A 1 HETATM 3 C C3 D10 . . . E 5 -8.466 -33.636 -4.395 1 77.52 ? C3 D10 602 A 1 HETATM 4 C C4 D10 . . . E 5 -7.838 -33.342 -5.757 1 85.5 ? C4 D10 602 A 1 HETATM 5 C C5 D10 . . . E 5 -8.875 -33.459 -6.875 1 86.23 ? C5 D10 602 A 1 HETATM 6 C C6 D10 . . . E 5 -9.054 -32.109 -7.564 1 85.12 ? C6 D10 602 A 1 HETATM 7 C C7 D10 . . . E 5 -7.796 -31.766 -8.363 1 82.99 ? C7 D10 602 A 1 HETATM 8 C C8 D10 . . . E 5 -8.074 -31.716 -9.865 1 69.6 ? C8 D10 602 A 1 HETATM 9 C C9 D10 . . . E 5 -7.069 -32.612 -10.586 1 75.58 ? C9 D10 602 A 1 HETATM 10 C C10 D10 . . . E 5 -7.339 -32.574 -12.088 1 77.25 ? C10 D10 602 A 1 HETATM 11 H H11 D10 . . . E 5 -8.43 -34.014 -1.744 1 101.83 ? H11 D10 602 A 1 HETATM 12 H H12 D10 . . . E 5 -8.857 -35.388 -2.408 1 101.83 ? H12 D10 602 A 1 HETATM 13 H H13 D10 . . . E 5 -7.463 -35.266 -1.665 1 101.83 ? H13 D10 602 A 1 HETATM 14 H H21 D10 . . . E 5 -7.128 -35.156 -3.998 1 109.78 ? H21 D10 602 A 1 HETATM 15 H H22 D10 . . . E 5 -6.703 -33.782 -3.334 1 109.78 ? H22 D10 602 A 1 HETATM 16 H H31 D10 . . . E 5 -9.253 -34.191 -4.513 1 93.03 ? H31 D10 602 A 1 HETATM 17 H H32 D10 . . . E 5 -8.717 -32.803 -3.967 1 93.03 ? H32 D10 602 A 1 HETATM 18 H H41 D10 . . . E 5 -7.121 -33.975 -5.92 1 102.61 ? H41 D10 602 A 1 HETATM 19 H H42 D10 . . . E 5 -7.475 -32.443 -5.753 1 102.61 ? H42 D10 602 A 1 HETATM 20 H H51 D10 . . . E 5 -9.723 -33.743 -6.499 1 103.48 ? H51 D10 602 A 1 HETATM 21 H H52 D10 . . . E 5 -8.575 -34.114 -7.524 1 103.48 ? H52 D10 602 A 1 HETATM 22 H H61 D10 . . . E 5 -9.815 -32.151 -8.164 1 102.14 ? H61 D10 602 A 1 HETATM 23 H H62 D10 . . . E 5 -9.208 -31.424 -6.895 1 102.14 ? H62 D10 602 A 1 HETATM 24 H H71 D10 . . . E 5 -7.119 -32.438 -8.189 1 99.59 ? H71 D10 602 A 1 HETATM 25 H H72 D10 . . . E 5 -7.464 -30.901 -8.074 1 99.59 ? H72 D10 602 A 1 HETATM 26 H H81 D10 . . . E 5 -8.974 -32.032 -10.039 1 83.52 ? H81 D10 602 A 1 HETATM 27 H H82 D10 . . . E 5 -7.982 -30.804 -10.182 1 83.52 ? H82 D10 602 A 1 HETATM 28 H H91 D10 . . . E 5 -7.159 -33.523 -10.264 1 90.7 ? H91 D10 602 A 1 HETATM 29 H H92 D10 . . . E 5 -6.169 -32.295 -10.411 1 90.7 ? H92 D10 602 A 1 HETATM 30 H H101 D10 . . . E 5 -7.25 -31.663 -12.41 1 92.71 ? H101 D10 602 A 1 HETATM 31 H H102 D10 . . . E 5 -8.239 -32.892 -12.263 1 92.71 ? H102 D10 602 A 1 HETATM 32 H H103 D10 . . . E 5 -6.7 -33.143 -12.546 1 92.71 ? H103 D10 602 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 233 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #