data_6GN5 # _model_server_result.job_id rhtF3Mwzs5589phRbT6D2w _model_server_result.datetime_utc '2025-02-05 06:56:01' _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 6gn5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":603}' # _entry.id 6GN5 # _exptl.entry_id 6GN5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _entity.pdbx_number_of_molecules 5 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 99.31 _cell.angle_gamma 90 _cell.entry_id 6GN5 _cell.length_a 31.32 _cell.length_b 73.85 _cell.length_c 45.34 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GN5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 ? 2 B N N ? 2 C N N ? 2 D N N ? 2 E N N ? 2 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 ARG 29 A ARG 341 1_555 A N MSE 30 A MSE 342 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 A C MSE 30 A MSE 342 1_555 A N PHE 31 A PHE 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale3 A C PHE 40 A PHE 352 1_555 A N MSE 41 A MSE 353 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale4 A C MSE 41 A MSE 353 1_555 A N GLN 42 A GLN 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale5 A C THR 69 A THR 381 1_555 A N MSE 70 A MSE 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale6 A C MSE 70 A MSE 382 1_555 A N THR 71 A THR 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MPD _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-2-METHYL-2,4-PENTANEDIOL _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 MPD sing 218 n n C1 H11 MPD sing 219 n n C1 H12 MPD sing 220 n n C1 H13 MPD sing 221 n n C2 O2 MPD sing 222 n n C2 CM MPD sing 223 n n C2 C3 MPD sing 224 n n O2 HO2 MPD sing 225 n n CM HM1 MPD sing 226 n n CM HM2 MPD sing 227 n n CM HM3 MPD sing 228 n n C3 C4 MPD sing 229 n n C3 H31 MPD sing 230 n n C3 H32 MPD sing 231 n n C4 O4 MPD sing 232 n n C4 C5 MPD sing 233 n n C4 H4 MPD sing 234 n n O4 HO4 MPD sing 235 n n C5 H51 MPD sing 236 n n C5 H52 MPD sing 237 n n C5 H53 MPD sing 238 n n # _atom_sites.entry_id 6GN5 _atom_sites.fract_transf_matrix[1][1] 0.031928 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005237 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013541 _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] 0.02235 _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 MPD A 1 601 1 MPD MPD . C 2 MPD A 1 602 2 MPD MPD . D 2 MPD A 1 603 3 MPD MPD . E 2 MPD A 1 604 4 MPD MPD . F 2 MPD A 1 605 5 MPD MPD . G 3 HOH A 1 701 134 HOH HOH . G 3 HOH A 2 702 115 HOH HOH . G 3 HOH A 3 703 109 HOH HOH . G 3 HOH A 4 704 41 HOH HOH . G 3 HOH A 5 705 31 HOH HOH . G 3 HOH A 6 706 8 HOH HOH . G 3 HOH A 7 707 140 HOH HOH . G 3 HOH A 8 708 113 HOH HOH . G 3 HOH A 9 709 107 HOH HOH . G 3 HOH A 10 710 77 HOH HOH . G 3 HOH A 11 711 137 HOH HOH . G 3 HOH A 12 712 126 HOH HOH . G 3 HOH A 13 713 90 HOH HOH . G 3 HOH A 14 714 103 HOH HOH . G 3 HOH A 15 715 70 HOH HOH . G 3 HOH A 16 716 66 HOH HOH . G 3 HOH A 17 717 3 HOH HOH . G 3 HOH A 18 718 48 HOH HOH . G 3 HOH A 19 719 44 HOH HOH . G 3 HOH A 20 720 93 HOH HOH . G 3 HOH A 21 721 82 HOH HOH . G 3 HOH A 22 722 120 HOH HOH . G 3 HOH A 23 723 111 HOH HOH . G 3 HOH A 24 724 61 HOH HOH . G 3 HOH A 25 725 16 HOH HOH . G 3 HOH A 26 726 71 HOH HOH . G 3 HOH A 27 727 129 HOH HOH . G 3 HOH A 28 728 39 HOH HOH . G 3 HOH A 29 729 34 HOH HOH . G 3 HOH A 30 730 80 HOH HOH . G 3 HOH A 31 731 4 HOH HOH . G 3 HOH A 32 732 114 HOH HOH . G 3 HOH A 33 733 35 HOH HOH . G 3 HOH A 34 734 14 HOH HOH . G 3 HOH A 35 735 105 HOH HOH . G 3 HOH A 36 736 19 HOH HOH . G 3 HOH A 37 737 15 HOH HOH . G 3 HOH A 38 738 27 HOH HOH . G 3 HOH A 39 739 94 HOH HOH . G 3 HOH A 40 740 23 HOH HOH . G 3 HOH A 41 741 25 HOH HOH . G 3 HOH A 42 742 65 HOH HOH . G 3 HOH A 43 743 18 HOH HOH . G 3 HOH A 44 744 32 HOH HOH . G 3 HOH A 45 745 12 HOH HOH . G 3 HOH A 46 746 88 HOH HOH . G 3 HOH A 47 747 9 HOH HOH . G 3 HOH A 48 748 1 HOH HOH . G 3 HOH A 49 749 68 HOH HOH . G 3 HOH A 50 750 28 HOH HOH . G 3 HOH A 51 751 102 HOH HOH . G 3 HOH A 52 752 85 HOH HOH . G 3 HOH A 53 753 81 HOH HOH . G 3 HOH A 54 754 10 HOH HOH . G 3 HOH A 55 755 117 HOH HOH . G 3 HOH A 56 756 2 HOH HOH . G 3 HOH A 57 757 63 HOH HOH . G 3 HOH A 58 758 87 HOH HOH . G 3 HOH A 59 759 22 HOH HOH . G 3 HOH A 60 760 45 HOH HOH . G 3 HOH A 61 761 72 HOH HOH . G 3 HOH A 62 762 40 HOH HOH . G 3 HOH A 63 763 13 HOH HOH . G 3 HOH A 64 764 119 HOH HOH . G 3 HOH A 65 765 33 HOH HOH . G 3 HOH A 66 766 43 HOH HOH . G 3 HOH A 67 767 123 HOH HOH . G 3 HOH A 68 768 127 HOH HOH . G 3 HOH A 69 769 47 HOH HOH . G 3 HOH A 70 770 101 HOH HOH . G 3 HOH A 71 771 53 HOH HOH . G 3 HOH A 72 772 20 HOH HOH . G 3 HOH A 73 773 6 HOH HOH . G 3 HOH A 74 774 17 HOH HOH . G 3 HOH A 75 775 46 HOH HOH . G 3 HOH A 76 776 5 HOH HOH . G 3 HOH A 77 777 132 HOH HOH . G 3 HOH A 78 778 108 HOH HOH . G 3 HOH A 79 779 21 HOH HOH . G 3 HOH A 80 780 83 HOH HOH . G 3 HOH A 81 781 69 HOH HOH . G 3 HOH A 82 782 139 HOH HOH . G 3 HOH A 83 783 124 HOH HOH . G 3 HOH A 84 784 42 HOH HOH . G 3 HOH A 85 785 37 HOH HOH . G 3 HOH A 86 786 60 HOH HOH . G 3 HOH A 87 787 29 HOH HOH . G 3 HOH A 88 788 51 HOH HOH . G 3 HOH A 89 789 130 HOH HOH . G 3 HOH A 90 790 73 HOH HOH . G 3 HOH A 91 791 30 HOH HOH . G 3 HOH A 92 792 112 HOH HOH . G 3 HOH A 93 793 7 HOH HOH . G 3 HOH A 94 794 74 HOH HOH . G 3 HOH A 95 795 128 HOH HOH . G 3 HOH A 96 796 135 HOH HOH . G 3 HOH A 97 797 55 HOH HOH . G 3 HOH A 98 798 131 HOH HOH . G 3 HOH A 99 799 136 HOH HOH . G 3 HOH A 100 800 99 HOH HOH . G 3 HOH A 101 801 138 HOH HOH . G 3 HOH A 102 802 121 HOH HOH . G 3 HOH A 103 803 67 HOH HOH . G 3 HOH A 104 804 64 HOH HOH . G 3 HOH A 105 805 89 HOH HOH . G 3 HOH A 106 806 133 HOH HOH . G 3 HOH A 107 807 56 HOH HOH . G 3 HOH A 108 808 118 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 MPD . . . D 2 29.116 2.62 35.77 1 33.8 ? C1 MPD 603 A 1 HETATM 2 C C2 MPD . . . D 2 29.126 3.319 34.413 1 37.67 ? C2 MPD 603 A 1 HETATM 3 O O2 MPD . . . D 2 30.097 4.397 34.421 1 33.14 ? O2 MPD 603 A 1 HETATM 4 C CM MPD . . . D 2 29.534 2.348 33.318 1 37.01 ? CM MPD 603 A 1 HETATM 5 C C3 MPD . . . D 2 27.738 3.849 34.076 1 41.33 ? C3 MPD 603 A 1 HETATM 6 C C4 MPD . . . D 2 27.146 4.684 35.197 1 39.52 ? C4 MPD 603 A 1 HETATM 7 O O4 MPD . . . D 2 28.015 5.757 35.49 1 41.87 ? O4 MPD 603 A 1 HETATM 8 C C5 MPD . . . D 2 25.778 5.213 34.78 1 34.28 ? C5 MPD 603 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 441 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 8 #