data_6WPN # _model_server_result.job_id iulFCnEATfAd1lmW3cUo1Q _model_server_result.datetime_utc '2024-10-19 22:23:26' _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 6wpn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 6WPN # _exptl.entry_id 6WPN _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 94.702 _cell.angle_gamma 90 _cell.entry_id 6WPN _cell.length_a 59.947 _cell.length_b 69.525 _cell.length_c 83.721 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6WPN _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 D N N ? 3 F 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 covale ? covale1 A C TYR 44 A TYR 25 1_555 A N MSE 45 A MSE 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A C MSE 45 A MSE 26 1_555 A N ASP 46 A ASP 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale3 A C GLN 202 A GLN 183 1_555 A N MSE 203 A MSE 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale4 A C MSE 203 A MSE 184 1_555 A N GLY 204 A GLY 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale5 A C LEU 299 A LEU 280 1_555 A N MSE 300 A MSE 281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 A C MSE 300 A MSE 281 1_555 A N THR 301 A THR 282 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale7 A C ALA 402 A ALA 383 1_555 A N MSE 403 A MSE 384 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale8 A C MSE 403 A MSE 384 1_555 A N LEU 404 A LEU 385 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale9 B C TYR 44 B TYR 25 1_555 B N MSE 45 B MSE 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale10 B C MSE 45 B MSE 26 1_555 B N ASP 46 B ASP 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale11 B C GLN 202 B GLN 183 1_555 B N MSE 203 B MSE 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale12 B C MSE 203 B MSE 184 1_555 B N GLY 204 B GLY 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale13 B C LEU 299 B LEU 280 1_555 B N MSE 300 B MSE 281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale14 B C MSE 300 B MSE 281 1_555 B N THR 301 B THR 282 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale15 B C ALA 402 B ALA 383 1_555 B N MSE 403 B MSE 384 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale16 B C MSE 403 B MSE 384 1_555 B N LEU 404 B LEU 385 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? # _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 125 n n C1 C2 GOL sing 126 n n C1 H11 GOL sing 127 n n C1 H12 GOL sing 128 n n O1 HO1 GOL sing 129 n n C2 O2 GOL sing 130 n n C2 C3 GOL sing 131 n n C2 H2 GOL sing 132 n n O2 HO2 GOL sing 133 n n C3 O3 GOL sing 134 n n C3 H31 GOL sing 135 n n C3 H32 GOL sing 136 n n O3 HO3 GOL sing 137 n n # _atom_sites.entry_id 6WPN _atom_sites.fract_transf_matrix[1][1] 0.016681 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001372 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014383 _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] 0.011985 _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 EDO A 1 501 501 EDO EDO . D 3 GOL A 1 502 601 GOL GOL . E 2 EDO B 1 501 501 EDO EDO . F 3 GOL B 1 502 601 GOL GOL . G 4 HOH A 1 601 23 HOH HOH . G 4 HOH A 2 602 20 HOH HOH . G 4 HOH A 3 603 26 HOH HOH . G 4 HOH A 4 604 18 HOH HOH . G 4 HOH A 5 605 22 HOH HOH . G 4 HOH A 6 606 6 HOH HOH . G 4 HOH A 7 607 16 HOH HOH . G 4 HOH A 8 608 5 HOH HOH . G 4 HOH A 9 609 34 HOH HOH . G 4 HOH A 10 610 27 HOH HOH . G 4 HOH A 11 611 8 HOH HOH . G 4 HOH A 12 612 19 HOH HOH . G 4 HOH A 13 613 2 HOH HOH . G 4 HOH A 14 614 38 HOH HOH . G 4 HOH A 15 615 36 HOH HOH . G 4 HOH A 16 616 32 HOH HOH . G 4 HOH A 17 617 9 HOH HOH . G 4 HOH A 18 618 3 HOH HOH . G 4 HOH A 19 619 10 HOH HOH . G 4 HOH A 20 620 12 HOH HOH . H 4 HOH B 1 601 37 HOH HOH . H 4 HOH B 2 602 17 HOH HOH . H 4 HOH B 3 603 33 HOH HOH . H 4 HOH B 4 604 14 HOH HOH . H 4 HOH B 5 605 28 HOH HOH . H 4 HOH B 6 606 24 HOH HOH . H 4 HOH B 7 607 15 HOH HOH . H 4 HOH B 8 608 1 HOH HOH . H 4 HOH B 9 609 7 HOH HOH . H 4 HOH B 10 610 30 HOH HOH . H 4 HOH B 11 611 25 HOH HOH . H 4 HOH B 12 612 29 HOH HOH . H 4 HOH B 13 613 21 HOH HOH . H 4 HOH B 14 614 11 HOH HOH . H 4 HOH B 15 615 4 HOH HOH . H 4 HOH B 16 616 13 HOH HOH . H 4 HOH B 17 617 31 HOH HOH . H 4 HOH B 18 618 35 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 . . . D 3 -12.012 21.754 -7.588 1 107.58 ? C1 GOL 502 A 1 HETATM 2 O O1 GOL . . . D 3 -10.936 20.856 -7.592 1 106.64 ? O1 GOL 502 A 1 HETATM 3 C C2 GOL . . . D 3 -13.235 21.097 -6.942 1 105.71 ? C2 GOL 502 A 1 HETATM 4 O O2 GOL . . . D 3 -13.674 21.816 -5.822 1 103.75 ? O2 GOL 502 A 1 HETATM 5 C C3 GOL . . . D 3 -14.357 21.057 -7.96 1 103.85 ? C3 GOL 502 A 1 HETATM 6 O O3 GOL . . . D 3 -15.522 20.67 -7.303 1 103.64 ? O3 GOL 502 A 1 HETATM 7 H H11 GOL . . . D 3 -12.226 22.005 -8.5 1 129.19 ? H11 GOL 502 A 1 HETATM 8 H H12 GOL . . . D 3 -11.769 22.547 -7.084 1 129.19 ? H12 GOL 502 A 1 HETATM 9 H HO1 GOL . . . D 3 -10.623 20.792 -8.379 1 128.06 ? HO1 GOL 502 A 1 HETATM 10 H H2 GOL . . . D 3 -13.01 20.192 -6.675 1 126.94 ? H2 GOL 502 A 1 HETATM 11 H HO2 GOL . . . D 3 -13.026 21.926 -5.284 1 124.59 ? HO2 GOL 502 A 1 HETATM 12 H H31 GOL . . . D 3 -14.478 21.937 -8.349 1 124.72 ? H31 GOL 502 A 1 HETATM 13 H H32 GOL . . . D 3 -14.145 20.417 -8.657 1 124.72 ? H32 GOL 502 A 1 HETATM 14 H HO3 GOL . . . D 3 -15.637 19.833 -7.399 1 124.47 ? HO3 GOL 502 A 1 # _model_server_stats.io_time_ms 32 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #