data_6F5U # _model_server_result.job_id DGQaY69lmtsbffsoPSvROg _model_server_result.datetime_utc '2024-11-24 07:38:04' _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 6f5u # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":608}' # _entry.id 6F5U # _exptl.entry_id 6F5U _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 90 _cell.angle_gamma 120 _cell.entry_id 6F5U _cell.length_a 114.05 _cell.length_b 114.05 _cell.length_c 307.18 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6F5U _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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_565 -y,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -57.025 98.770197 0 3 'crystal symmetry operation' 3_455 -x+y-1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -114.05 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 H N N ? 5 I N N ? 5 J N N ? 5 K N N ? 5 N N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 4 3 MAN BMA C1 O1 . O6 HO6 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C NAG 1 C 1 NAG D 621 NAG 3 n C NAG 2 C 2 NAG D 622 NAG 3 n C BMA 3 C 3 BMA D 623 BMA 3 n C MAN 4 C 4 MAN D 624 MAN # 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 disulf ? disulf1 A SG CYS 26 A CYS 53 1_555 B SG CYS 108 B CYS 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 81 A CYS 108 1_555 A SG CYS 108 A CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 94 A CYS 121 1_555 A SG CYS 120 A CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 B SG CYS 10 B CYS 511 1_555 B SG CYS 55 B CYS 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 B SG CYS 100 B CYS 601 1_555 B SG CYS 107 B CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 201 A ASN 228 1_555 G C1 NAG . A NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 A ND2 ASN 211 A ASN 238 1_555 E C1 NAG . A NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 A ND2 ASN 230 A ASN 257 1_555 D C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 A ND2 ASN 241 A ASN 268 1_555 F C1 NAG . A NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale5 B ND2 ASN 62 B ASN 563 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale7 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale8 C O6 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.466 ? # _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 225 n n C1 C2 GOL sing 226 n n C1 H11 GOL sing 227 n n C1 H12 GOL sing 228 n n O1 HO1 GOL sing 229 n n C2 O2 GOL sing 230 n n C2 C3 GOL sing 231 n n C2 H2 GOL sing 232 n n O2 HO2 GOL sing 233 n n C3 O3 GOL sing 234 n n C3 H31 GOL sing 235 n n C3 H32 GOL sing 236 n n O3 HO3 GOL sing 237 n n # _atom_sites.entry_id 6F5U _atom_sites.fract_transf_matrix[1][1] 0.008768 _atom_sites.fract_transf_matrix[1][2] 0.005062 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010125 _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] 0.003255 _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 D 4 NAG A 1 601 2 NAG NAG . E 4 NAG A 1 602 11 NAG NAG . F 4 NAG A 1 603 12 NAG NAG . G 4 NAG A 1 604 13 NAG NAG . H 5 GOL A 1 605 1 GOL GOL . I 5 GOL A 1 606 6 GOL GOL . J 5 GOL A 1 607 8 GOL GOL . K 5 GOL A 1 608 9 GOL GOL . L 6 DMS A 1 609 1 DMS DMS . M 7 CQN A 1 610 1 CQN SBP . N 5 GOL B 1 705 4 GOL GOL . O 6 DMS B 1 706 2 DMS DMS . P 6 DMS B 1 707 3 DMS DMS . Q 8 HOH A 1 701 215 HOH HOH . Q 8 HOH A 2 702 153 HOH HOH . Q 8 HOH A 3 703 138 HOH HOH . Q 8 HOH A 4 704 207 HOH HOH . Q 8 HOH A 5 705 263 HOH HOH . Q 8 HOH A 6 706 243 HOH HOH . Q 8 HOH A 7 707 140 HOH HOH . Q 8 HOH A 8 708 256 HOH HOH . Q 8 HOH A 9 709 145 HOH HOH . Q 8 HOH A 10 710 268 HOH HOH . Q 8 HOH A 11 711 26 HOH HOH . Q 8 HOH A 12 712 266 HOH HOH . Q 8 HOH A 13 713 151 HOH HOH . Q 8 HOH A 14 714 174 HOH HOH . Q 8 HOH A 15 715 23 HOH HOH . Q 8 HOH A 16 716 205 HOH HOH . Q 8 HOH A 17 717 257 HOH HOH . Q 8 HOH A 18 718 188 HOH HOH . Q 8 HOH A 19 719 71 HOH HOH . Q 8 HOH A 20 720 76 HOH HOH . Q 8 HOH A 21 721 42 HOH HOH . Q 8 HOH A 22 722 2 HOH HOH . Q 8 HOH A 23 723 222 HOH HOH . Q 8 HOH A 24 724 225 HOH HOH . Q 8 HOH A 25 725 45 HOH HOH . Q 8 HOH A 26 726 251 HOH HOH . Q 8 HOH A 27 727 198 HOH HOH . Q 8 HOH A 28 728 173 HOH HOH . Q 8 HOH A 29 729 169 HOH HOH . Q 8 HOH A 30 730 146 HOH HOH . Q 8 HOH A 31 731 216 HOH HOH . Q 8 HOH A 32 732 144 HOH HOH . Q 8 HOH A 33 733 147 HOH HOH . Q 8 HOH A 34 734 177 HOH HOH . Q 8 HOH A 35 735 148 HOH HOH . Q 8 HOH A 36 736 235 HOH HOH . Q 8 HOH A 37 737 142 HOH HOH . Q 8 HOH A 38 738 246 HOH HOH . Q 8 HOH A 39 739 248 HOH HOH . Q 8 HOH A 40 740 245 HOH HOH . Q 8 HOH A 41 741 168 HOH HOH . Q 8 HOH A 42 742 166 HOH HOH . Q 8 HOH A 43 743 133 HOH HOH . Q 8 HOH A 44 744 6 HOH HOH . Q 8 HOH A 45 745 163 HOH HOH . Q 8 HOH A 46 746 152 HOH HOH . Q 8 HOH A 47 747 141 HOH HOH . Q 8 HOH A 48 748 1 HOH HOH . Q 8 HOH A 49 749 27 HOH HOH . Q 8 HOH A 50 750 242 HOH HOH . Q 8 HOH A 51 751 220 HOH HOH . Q 8 HOH A 52 752 236 HOH HOH . Q 8 HOH A 53 753 13 HOH HOH . Q 8 HOH A 54 754 135 HOH HOH . Q 8 HOH A 55 755 247 HOH HOH . Q 8 HOH A 56 756 172 HOH HOH . Q 8 HOH A 57 757 260 HOH HOH . Q 8 HOH A 58 758 136 HOH HOH . Q 8 HOH A 59 759 85 HOH HOH . Q 8 HOH A 60 760 261 HOH HOH . Q 8 HOH A 61 761 259 HOH HOH . Q 8 HOH A 62 762 239 HOH HOH . Q 8 HOH A 63 763 12 HOH HOH . Q 8 HOH A 64 764 165 HOH HOH . Q 8 HOH A 65 765 170 HOH HOH . Q 8 HOH A 66 766 82 HOH HOH . Q 8 HOH A 67 767 221 HOH HOH . Q 8 HOH A 68 768 131 HOH HOH . Q 8 HOH A 69 769 208 HOH HOH . Q 8 HOH A 70 770 143 HOH HOH . Q 8 HOH A 71 771 241 HOH HOH . Q 8 HOH A 72 772 262 HOH HOH . Q 8 HOH A 73 773 258 HOH HOH . Q 8 HOH A 74 774 171 HOH HOH . Q 8 HOH A 75 775 30 HOH HOH . Q 8 HOH A 76 776 132 HOH HOH . Q 8 HOH A 77 777 194 HOH HOH . Q 8 HOH A 78 778 179 HOH HOH . Q 8 HOH A 79 779 193 HOH HOH . Q 8 HOH A 80 780 276 HOH HOH . Q 8 HOH A 81 781 255 HOH HOH . Q 8 HOH A 82 782 218 HOH HOH . Q 8 HOH A 83 783 164 HOH HOH . Q 8 HOH A 84 784 154 HOH HOH . R 8 HOH B 1 801 250 HOH HOH . R 8 HOH B 2 802 217 HOH HOH . R 8 HOH B 3 803 249 HOH HOH . R 8 HOH B 4 804 209 HOH HOH . R 8 HOH B 5 805 201 HOH HOH . R 8 HOH B 6 806 199 HOH HOH . R 8 HOH B 7 807 183 HOH HOH . R 8 HOH B 8 808 270 HOH HOH . R 8 HOH B 9 809 139 HOH HOH . R 8 HOH B 10 810 159 HOH HOH . R 8 HOH B 11 811 274 HOH HOH . R 8 HOH B 12 812 210 HOH HOH . R 8 HOH B 13 813 224 HOH HOH . R 8 HOH B 14 814 167 HOH HOH . R 8 HOH B 15 815 22 HOH HOH . R 8 HOH B 16 816 190 HOH HOH . R 8 HOH B 17 817 191 HOH HOH . R 8 HOH B 18 818 129 HOH HOH . R 8 HOH B 19 819 264 HOH HOH . R 8 HOH B 20 820 137 HOH HOH . R 8 HOH B 21 821 160 HOH HOH . R 8 HOH B 22 822 16 HOH HOH . R 8 HOH B 23 823 233 HOH HOH . R 8 HOH B 24 824 269 HOH HOH . R 8 HOH B 25 825 203 HOH HOH . R 8 HOH B 26 826 252 HOH HOH . R 8 HOH B 27 827 240 HOH HOH . R 8 HOH B 28 828 181 HOH HOH . R 8 HOH B 29 829 211 HOH HOH . R 8 HOH B 30 830 8 HOH HOH . R 8 HOH B 31 831 178 HOH HOH . R 8 HOH B 32 832 227 HOH HOH . R 8 HOH B 33 833 234 HOH HOH . R 8 HOH B 34 834 130 HOH HOH . R 8 HOH B 35 835 182 HOH HOH . R 8 HOH B 36 836 223 HOH HOH . R 8 HOH B 37 837 275 HOH HOH . R 8 HOH B 38 838 267 HOH HOH . R 8 HOH B 39 839 158 HOH HOH . R 8 HOH B 40 840 226 HOH HOH . R 8 HOH B 41 841 197 HOH HOH . R 8 HOH B 42 842 156 HOH HOH . R 8 HOH B 43 843 3 HOH HOH . R 8 HOH B 44 844 128 HOH HOH . R 8 HOH B 45 845 17 HOH HOH . R 8 HOH B 46 846 200 HOH HOH . R 8 HOH B 47 847 176 HOH HOH . R 8 HOH B 48 848 238 HOH HOH . R 8 HOH B 49 849 206 HOH HOH . R 8 HOH B 50 850 175 HOH HOH . R 8 HOH B 51 851 192 HOH HOH . R 8 HOH B 52 852 253 HOH HOH . R 8 HOH B 53 853 32 HOH HOH . R 8 HOH B 54 854 34 HOH HOH . R 8 HOH B 55 855 232 HOH HOH . R 8 HOH B 56 856 254 HOH HOH . R 8 HOH B 57 857 272 HOH HOH . R 8 HOH B 58 858 228 HOH HOH . R 8 HOH B 59 859 212 HOH HOH . R 8 HOH B 60 860 237 HOH HOH . R 8 HOH B 61 861 230 HOH HOH . R 8 HOH B 62 862 231 HOH HOH . R 8 HOH B 63 863 265 HOH HOH . R 8 HOH B 64 864 271 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 . . . K 5 -45.126 12.51 -36.436 1 109.84 ? C1 GOL 608 A 1 HETATM 2 O O1 GOL . . . K 5 -44.982 11.644 -35.35 1 102.91 ? O1 GOL 608 A 1 HETATM 3 C C2 GOL . . . K 5 -44.855 13.936 -35.91 1 117.17 ? C2 GOL 608 A 1 HETATM 4 O O2 GOL . . . K 5 -43.912 13.95 -34.889 1 122.78 ? O2 GOL 608 A 1 HETATM 5 C C3 GOL . . . K 5 -46.232 14.463 -35.458 1 113.19 ? C3 GOL 608 A 1 HETATM 6 O O3 GOL . . . K 5 -46.027 15.135 -34.252 1 104.59 ? O3 GOL 608 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 482 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #