data_8ZCM # _model_server_result.job_id et9UDmivCtVksBL4cUHHQA _model_server_result.datetime_utc '2024-12-26 03:38:22' _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 8zcm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":501}' # _entry.id 8ZCM # _exptl.entry_id 8ZCM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 1 _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 8ZCM _cell.length_a 49.45 _cell.length_b 79.62 _cell.length_c 125.54 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8ZCM _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 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 . O6 HO6 . sing 4 ? 2 5 4 NAG MAN C1 O1 . O3 HO3 . sing 5 ? 2 6 5 GAL NAG C1 O1 . O4 HO4 . sing 6 ? 2 7 3 MAN BMA C1 O1 . O3 HO3 . sing 7 ? 2 8 7 NAG MAN C1 O1 . O2 HO2 . sing 8 ? 2 9 1 FUL NAG C1 O1 . O6 HO6 . sing 9 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 10 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 11 ? 3 4 3 MAN BMA C1 O1 . O6 HO6 . sing 12 ? 3 5 4 NAG MAN C1 O1 . O2 HO2 . sing 13 ? 3 6 3 MAN BMA C1 O1 . O3 HO3 . sing 14 ? 3 7 1 FUC NAG 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 2 n C NAG 1 C 1 NAG C 1 NAG 2 n C NAG 2 C 2 NAG C 2 NAG 2 n C BMA 3 C 3 BMA C 3 BMA 2 n C MAN 4 C 4 MAN C 4 MAN 2 n C NAG 5 C 5 NAG C 5 NAG 2 n C GAL 6 C 6 GAL C 6 GAL 2 n C MAN 7 C 7 MAN C 7 MAN 2 n C NAG 8 C 8 NAG C 8 NAG 2 n C FUL 9 C 9 FUL C 9 FUL 3 n D NAG 1 D 1 NAG D 1 NAG 3 n D NAG 2 D 2 NAG D 2 NAG 3 n D BMA 3 D 3 BMA D 3 BMA 3 n D MAN 4 D 4 MAN D 4 MAN 3 n D NAG 5 D 5 NAG D 5 NAG 3 n D MAN 6 D 6 MAN D 6 MAN 3 n D FUC 7 D 7 FUC D 7 FUC # 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 25 A CYS 246 1_555 A SG CYS 85 A CYS 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 131 A CYS 352 1_555 A SG CYS 189 A CYS 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 B SG CYS 25 B CYS 246 1_555 B SG CYS 85 B CYS 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 B SG CYS 131 B CYS 352 1_555 B SG CYS 189 B CYS 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 61 A ASN 282 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale2 B ND2 ASN 61 B ASN 282 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale4 C O6 NAG . C NAG 1 1_555 C C1 FUL . C FUL 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale5 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale6 C O6 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale7 C O3 BMA . C BMA 3 1_555 C C1 MAN . C MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale8 C O3 MAN . C MAN 4 1_555 C C1 NAG . C NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale9 C O4 NAG . C NAG 5 1_555 C C1 GAL . C GAL 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale10 C O2 MAN . C MAN 7 1_555 C C1 NAG . C NAG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale11 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale12 D O6 NAG . D NAG 1 1_555 D C1 FUC . D FUC 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale13 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale14 D O6 BMA . D BMA 3 1_555 D C1 MAN . D MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale15 D O3 BMA . D BMA 3 1_555 D C1 MAN . D MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale16 D O2 MAN . D MAN 4 1_555 D C1 NAG . D NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? # _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 223 n n C1 C2 GOL sing 224 n n C1 H11 GOL sing 225 n n C1 H12 GOL sing 226 n n O1 HO1 GOL sing 227 n n C2 O2 GOL sing 228 n n C2 C3 GOL sing 229 n n C2 H2 GOL sing 230 n n O2 HO2 GOL sing 231 n n C3 O3 GOL sing 232 n n C3 H31 GOL sing 233 n n C3 H32 GOL sing 234 n n O3 HO3 GOL sing 235 n n # _atom_sites.entry_id 8ZCM _atom_sites.fract_transf_matrix[1][1] 0.020222 _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] 0.01256 _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] 0.007966 _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 E 4 GOL B 1 501 429 GOL GOL . F 5 HOH A 1 501 24 HOH HOH . F 5 HOH A 2 502 16 HOH HOH . F 5 HOH A 3 503 12 HOH HOH . F 5 HOH A 4 504 5 HOH HOH . F 5 HOH A 5 505 25 HOH HOH . F 5 HOH A 6 506 33 HOH HOH . F 5 HOH A 7 507 32 HOH HOH . F 5 HOH A 8 508 10 HOH HOH . F 5 HOH A 9 509 26 HOH HOH . F 5 HOH A 10 510 20 HOH HOH . F 5 HOH A 11 511 17 HOH HOH . F 5 HOH A 12 512 27 HOH HOH . F 5 HOH A 13 513 31 HOH HOH . G 5 HOH B 1 601 1 HOH HOH . G 5 HOH B 2 602 2 HOH HOH . G 5 HOH B 3 603 4 HOH HOH . G 5 HOH B 4 604 14 HOH HOH . G 5 HOH B 5 605 15 HOH HOH . G 5 HOH B 6 606 3 HOH HOH . G 5 HOH B 7 607 9 HOH HOH . G 5 HOH B 8 608 13 HOH HOH . G 5 HOH B 9 609 11 HOH HOH . G 5 HOH B 10 610 22 HOH HOH . G 5 HOH B 11 611 23 HOH HOH . G 5 HOH B 12 612 30 HOH HOH . G 5 HOH B 13 613 28 HOH HOH . G 5 HOH B 14 614 21 HOH HOH . G 5 HOH B 15 615 19 HOH HOH . G 5 HOH B 16 616 29 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 . . . E 4 10.423 13.955 35.278 1 66.21 ? C1 GOL 501 B 1 HETATM 2 O O1 GOL . . . E 4 11.273 14.938 35.778 1 64.03 ? O1 GOL 501 B 1 HETATM 3 C C2 GOL . . . E 4 11.252 12.655 35.175 1 66.67 ? C2 GOL 501 B 1 HETATM 4 O O2 GOL . . . E 4 10.517 11.619 34.619 1 59.95 ? O2 GOL 501 B 1 HETATM 5 C C3 GOL . . . E 4 11.692 12.346 36.625 1 58.17 ? C3 GOL 501 B 1 HETATM 6 O O3 GOL . . . E 4 10.537 12.02 37.334 1 58.9 ? O3 GOL 501 B 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 443 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #