data_7XTJ # _model_server_result.job_id yz5QbpPjehcFEj25w5c7eQ _model_server_result.datetime_utc '2024-11-28 16:33:51' _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 7xtj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":805}' # _entry.id 7XTJ # _exptl.entry_id 7XTJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 6 _entity.src_method man _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 90 _cell.angle_gamma 90 _cell.entry_id 7XTJ _cell.length_a 120.881 _cell.length_b 120.881 _cell.length_c 266.443 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7XTJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall 'P 4abw 2nw' _symmetry.space_group_name_H-M 'P 41 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_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,H,I,J,K,R 1 1 B,E,F,L,M,N,O,P,Q,S 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 ? 6 K N N ? 6 Q N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide 4 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 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 2 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 2 5 4 MAN MAN C1 O1 . O2 HO2 . sing 5 ? 2 6 3 MAN BMA C1 O1 . O6 HO6 . sing 6 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 7 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 8 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . 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 2 n C NAG 1 C 1 NAG A 801 NAG 2 n C NAG 2 C 2 NAG A 802 NAG 2 n C BMA 3 C 3 BMA A 803 BMA 2 n C MAN 4 C 4 MAN A 804 MAN 2 n C MAN 5 C 5 MAN A 806 MAN 2 n C MAN 6 C 6 MAN A 805 MAN 3 n D NAG 1 D 1 NAG A 807 NAG 3 n D NAG 2 D 2 NAG A 808 NAG 2 n E NAG 1 E 1 NAG B 801 NAG 2 n E NAG 2 E 2 NAG B 802 NAG 2 n E BMA 3 E 3 BMA B 803 BMA 2 n E MAN 4 E 4 MAN B 804 MAN 2 n E MAN 5 E 5 MAN B 806 MAN 2 n E MAN 6 E 6 MAN B 805 MAN 4 n F NAG 1 F 1 NAG B 807 NAG 4 n F NAG 2 F 2 NAG B 808 NAG 4 n F BMA 3 F 3 BMA B 809 BMA # 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 42 A CYS 31 1_555 A SG CYS 53 A CYS 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 A SG CYS 263 A CYS 252 1_555 A SG CYS 274 A CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 A SG CYS 300 A CYS 289 1_555 A SG CYS 332 A CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf4 B SG CYS 42 B CYS 31 1_555 B SG CYS 53 B CYS 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 B SG CYS 263 B CYS 252 1_555 B SG CYS 274 B CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf6 B SG CYS 300 B CYS 289 1_555 B SG CYS 332 B CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 108 A ASN 97 1_555 G C1 NAG . A NAG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale2 A ND2 ASN 132 A ASN 121 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale3 A ND2 ASN 341 A ASN 330 1_555 J C1 NAG . A NAG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 A ND2 ASN 397 A ASN 386 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale5 A ND2 ASN 439 A ASN 428 1_555 H C1 NAG . A NAG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale6 A ND2 ASN 680 A ASN 669 1_555 I C1 NAG . A NAG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale7 B ND2 ASN 108 B ASN 97 1_555 L C1 NAG . B NAG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale8 B ND2 ASN 132 B ASN 121 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale9 B ND2 ASN 341 B ASN 330 1_555 P C1 NAG . B NAG 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale10 B ND2 ASN 397 B ASN 386 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale11 B ND2 ASN 439 B ASN 428 1_555 M C1 NAG . B NAG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale12 B ND2 ASN 680 B ASN 669 1_555 N C1 NAG . B NAG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale13 B ND2 ASN 702 B ASN 691 1_555 O C1 NAG . B NAG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale14 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale15 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale16 C O3 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale17 C O6 BMA . C BMA 3 1_555 C C1 MAN . C MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale18 C O2 MAN . C MAN 4 1_555 C C1 MAN . C MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale19 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale20 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale21 E O4 NAG . E NAG 2 1_555 E C1 BMA . E BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale22 E O3 BMA . E BMA 3 1_555 E C1 MAN . E MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale23 E O6 BMA . E BMA 3 1_555 E C1 MAN . E MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale24 E O2 MAN . E MAN 4 1_555 E C1 MAN . E MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale25 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale26 F O4 NAG . F NAG 2 1_555 F C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? # _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 153 n n C1 C2 GOL sing 154 n n C1 H11 GOL sing 155 n n C1 H12 GOL sing 156 n n O1 HO1 GOL sing 157 n n C2 O2 GOL sing 158 n n C2 C3 GOL sing 159 n n C2 H2 GOL sing 160 n n O2 HO2 GOL sing 161 n n C3 O3 GOL sing 162 n n C3 H31 GOL sing 163 n n C3 H32 GOL sing 164 n n O3 HO3 GOL sing 165 n n # _atom_sites.entry_id 7XTJ _atom_sites.fract_transf_matrix[1][1] 0.008273 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008273 _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] 0.003753 _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 G 5 NAG A 1 801 800 NAG NAG . H 5 NAG A 1 802 809 NAG NAG . I 5 NAG A 1 803 810 NAG NAG . J 5 NAG A 1 804 812 NAG NAG . K 6 GOL A 1 805 813 GOL GOL . L 5 NAG B 1 801 800 NAG NAG . M 5 NAG B 1 802 810 NAG NAG . N 5 NAG B 1 803 811 NAG NAG . O 5 NAG B 1 804 812 NAG NAG . P 5 NAG B 1 805 813 NAG NAG . Q 6 GOL B 1 806 814 GOL GOL . R 7 HOH A 1 901 16 HOH HOH . R 7 HOH A 2 902 24 HOH HOH . R 7 HOH A 3 903 33 HOH HOH . R 7 HOH A 4 904 22 HOH HOH . R 7 HOH A 5 905 8 HOH HOH . R 7 HOH A 6 906 13 HOH HOH . R 7 HOH A 7 907 32 HOH HOH . R 7 HOH A 8 908 12 HOH HOH . R 7 HOH A 9 909 11 HOH HOH . R 7 HOH A 10 910 3 HOH HOH . R 7 HOH A 11 911 7 HOH HOH . R 7 HOH A 12 912 27 HOH HOH . R 7 HOH A 13 913 31 HOH HOH . R 7 HOH A 14 914 2 HOH HOH . R 7 HOH A 15 915 9 HOH HOH . R 7 HOH A 16 916 4 HOH HOH . R 7 HOH A 17 917 29 HOH HOH . R 7 HOH A 18 918 1 HOH HOH . R 7 HOH A 19 919 14 HOH HOH . R 7 HOH A 20 920 25 HOH HOH . R 7 HOH A 21 921 20 HOH HOH . R 7 HOH A 22 922 30 HOH HOH . R 7 HOH A 23 923 19 HOH HOH . S 7 HOH B 1 901 10 HOH HOH . S 7 HOH B 2 902 17 HOH HOH . S 7 HOH B 3 903 23 HOH HOH . S 7 HOH B 4 904 21 HOH HOH . S 7 HOH B 5 905 15 HOH HOH . S 7 HOH B 6 906 26 HOH HOH . S 7 HOH B 7 907 28 HOH HOH . S 7 HOH B 8 908 18 HOH HOH . S 7 HOH B 9 909 5 HOH HOH . S 7 HOH B 10 910 6 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 6 77.893 64.775 123.376 1 55.01 ? C1 GOL 805 A 1 HETATM 2 O O1 GOL . . . K 6 78.64 63.569 123.195 1 47.55 ? O1 GOL 805 A 1 HETATM 3 C C2 GOL . . . K 6 76.79 64.831 122.268 1 60.95 ? C2 GOL 805 A 1 HETATM 4 O O2 GOL . . . K 6 77.315 65.418 121.077 1 57.86 ? O2 GOL 805 A 1 HETATM 5 C C3 GOL . . . K 6 75.613 65.671 122.845 1 54.92 ? C3 GOL 805 A 1 HETATM 6 O O3 GOL . . . K 6 74.868 64.885 123.765 1 52.54 ? O3 GOL 805 A 1 HETATM 7 H H11 GOL . . . K 6 78.449 65.568 123.309 1 66.36 ? H11 GOL 805 A 1 HETATM 8 H H12 GOL . . . K 6 77.469 64.821 124.247 1 66.36 ? H12 GOL 805 A 1 HETATM 9 H HO1 GOL . . . K 6 79.342 63.641 123.667 1 57.42 ? HO1 GOL 805 A 1 HETATM 10 H H2 GOL . . . K 6 76.481 63.936 122.058 1 73.49 ? H2 GOL 805 A 1 HETATM 11 H HO2 GOL . . . K 6 78.088 65.772 121.271 1 69.78 ? HO2 GOL 805 A 1 HETATM 12 H H31 GOL . . . K 6 75.077 65.986 122.1 1 66.25 ? H31 GOL 805 A 1 HETATM 13 H H32 GOL . . . K 6 75.985 66.47 123.249 1 66.25 ? H32 GOL 805 A 1 HETATM 14 H HO3 GOL . . . K 6 74.099 65.233 123.812 1 63.4 ? HO3 GOL 805 A 1 # _model_server_stats.io_time_ms 77 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #