data_6XMM # _model_server_result.job_id 1-dxqUCkctyyhFx_Rd79BQ _model_server_result.datetime_utc '2025-01-11 07:50:41' _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 6xmm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":404}' # _entry.id 6XMM # _exptl.entry_id 6XMM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 6 _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 6XMM _cell.length_a 162.213 _cell.length_b 162.213 _cell.length_c 167.852 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6XMM _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall 'P 64 2 (x,y,z+1/6)' _symmetry.space_group_name_H-M 'P 64 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 4_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 81.1065 -140.480579 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 H N N ? 3 I N N ? 3 J N N ? 3 K N N ? 3 L N N # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 O1 GOL sing 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 6XMM _atom_sites.fract_transf_matrix[1][1] 0.006165 _atom_sites.fract_transf_matrix[1][2] 0.003559 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007118 _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] 0.005958 _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 PO4 A 1 401 371 PO4 PO4 . D 2 PO4 A 1 402 372 PO4 PO4 . E 2 PO4 A 1 403 372 PO4 PO4 . F 3 GOL A 1 404 385 GOL GOL . G 2 PO4 B 1 401 371 PO4 PO4 . H 3 GOL B 1 402 381 GOL GOL . I 3 GOL B 1 403 382 GOL GOL . J 3 GOL B 1 404 383 GOL GOL . K 3 GOL B 1 405 384 GOL GOL . L 3 GOL B 1 406 386 GOL GOL . M 4 HOH A 1 501 53 HOH HOH . M 4 HOH A 2 502 56 HOH HOH . M 4 HOH A 3 503 18 HOH HOH . M 4 HOH A 4 504 48 HOH HOH . M 4 HOH A 5 505 29 HOH HOH . M 4 HOH A 6 506 9 HOH HOH . M 4 HOH A 7 507 19 HOH HOH . M 4 HOH A 8 508 50 HOH HOH . M 4 HOH A 9 509 1 HOH HOH . M 4 HOH A 10 510 54 HOH HOH . M 4 HOH A 11 511 3 HOH HOH . M 4 HOH A 12 512 4 HOH HOH . M 4 HOH A 13 513 35 HOH HOH . M 4 HOH A 14 514 23 HOH HOH . M 4 HOH A 15 515 13 HOH HOH . M 4 HOH A 16 516 5 HOH HOH . M 4 HOH A 17 517 42 HOH HOH . M 4 HOH A 18 518 41 HOH HOH . M 4 HOH A 19 519 2 HOH HOH . M 4 HOH A 20 520 26 HOH HOH . M 4 HOH A 21 521 25 HOH HOH . M 4 HOH A 22 522 40 HOH HOH . M 4 HOH A 23 523 16 HOH HOH . M 4 HOH A 24 524 10 HOH HOH . M 4 HOH A 25 525 49 HOH HOH . M 4 HOH A 26 526 22 HOH HOH . M 4 HOH A 27 527 38 HOH HOH . M 4 HOH A 28 528 24 HOH HOH . M 4 HOH A 29 529 63 HOH HOH . M 4 HOH A 30 530 55 HOH HOH . M 4 HOH A 31 531 11 HOH HOH . M 4 HOH A 32 532 45 HOH HOH . N 4 HOH B 1 501 60 HOH HOH . N 4 HOH B 2 502 30 HOH HOH . N 4 HOH B 3 503 58 HOH HOH . N 4 HOH B 4 504 31 HOH HOH . N 4 HOH B 5 505 21 HOH HOH . N 4 HOH B 6 506 17 HOH HOH . N 4 HOH B 7 507 59 HOH HOH . N 4 HOH B 8 508 44 HOH HOH . N 4 HOH B 9 509 34 HOH HOH . N 4 HOH B 10 510 6 HOH HOH . N 4 HOH B 11 511 43 HOH HOH . N 4 HOH B 12 512 32 HOH HOH . N 4 HOH B 13 513 15 HOH HOH . N 4 HOH B 14 514 28 HOH HOH . N 4 HOH B 15 515 39 HOH HOH . N 4 HOH B 16 516 52 HOH HOH . N 4 HOH B 17 517 7 HOH HOH . N 4 HOH B 18 518 27 HOH HOH . N 4 HOH B 19 519 36 HOH HOH . N 4 HOH B 20 520 12 HOH HOH . N 4 HOH B 21 521 33 HOH HOH . N 4 HOH B 22 522 14 HOH HOH . N 4 HOH B 23 523 37 HOH HOH . N 4 HOH B 24 524 8 HOH HOH . N 4 HOH B 25 525 47 HOH HOH . N 4 HOH B 26 526 46 HOH HOH . N 4 HOH B 27 527 57 HOH HOH . N 4 HOH B 28 528 61 HOH HOH . N 4 HOH B 29 529 51 HOH HOH . N 4 HOH B 30 530 20 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 GOL . . . F 3 38.52 -56.895 28.552 1 69.04 ? C1 GOL 404 A 1 HETATM 2 O O1 GOL . . . F 3 39.875 -56.608 28.314 1 63.22 ? O1 GOL 404 A 1 HETATM 3 C C2 GOL . . . F 3 38.315 -58.46 28.471 1 61.51 ? C2 GOL 404 A 1 HETATM 4 O O2 GOL . . . F 3 36.92 -58.774 28.712 1 59.19 ? O2 GOL 404 A 1 HETATM 5 C C3 GOL . . . F 3 38.866 -58.959 27.113 1 46.84 ? C3 GOL 404 A 1 HETATM 6 O O3 GOL . . . F 3 38.272 -60.225 26.985 1 50 ? O3 GOL 404 A 1 HETATM 7 H H11 GOL . . . F 3 37.93 -56.462 27.915 1 83.12 ? H11 GOL 404 A 1 HETATM 8 H H12 GOL . . . F 3 38.24 -56.574 29.424 1 83.12 ? H12 GOL 404 A 1 HETATM 9 H HO1 GOL . . . F 3 39.945 -55.761 28.305 1 76.13 ? HO1 GOL 404 A 1 HETATM 10 H H2 GOL . . . F 3 38.794 -58.883 29.183 1 74.09 ? H2 GOL 404 A 1 HETATM 11 H HO2 GOL . . . F 3 36.809 -59.603 28.562 1 71.3 ? HO2 GOL 404 A 1 HETATM 12 H H31 GOL . . . F 3 39.811 -58.955 27.109 1 56.48 ? H31 GOL 404 A 1 HETATM 13 H H32 GOL . . . F 3 38.597 -58.353 26.405 1 56.48 ? H32 GOL 404 A 1 HETATM 14 H HO3 GOL . . . F 3 38.47 -60.51 26.209 1 60.27 ? HO3 GOL 404 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #