data_6BPL # _model_server_result.job_id CEoBoLUNzPfPxyHwmqxaAQ _model_server_result.datetime_utc '2025-01-09 07:56:52' _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 6bpl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"T","auth_seq_id":609}' # _entry.id 6BPL # _exptl.entry_id 6BPL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 173.943 _entity.id 11 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description DIPHOSPHATE _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 89.39 _cell.angle_gamma 90 _cell.entry_id 6BPL _cell.length_a 74.747 _cell.length_b 91.606 _cell.length_c 111.013 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6BPL _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 ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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,S,T _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 11 _struct_asym.id T _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 GLC GMH C1 O1 . O3 HO3 . sing 2 ? 2 3 2 GLC GLC C1 O1 . O3 HO3 . sing 3 ? 2 4 2 GLC GLC C1 O1 . O6 HO6 . sing 4 ? 2 5 1 GMH GMH C1 O1 . O7 HO7 . sing 5 ? 3 2 1 KDO GCS C2 O2 . O6 HO6 . sing 6 ? 3 3 2 KDO KDO C2 O2 . O4 HO4 . sing 7 ? 3 4 2 GMH KDO C1 O1 . O5 HO5 . 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 GMH 1 C 1 GMH L 2015 GMH 2 n C GLC 2 C 2 GLC L 2016 GLC 2 n C GLC 3 C 3 GLC L 2018 GLC 2 n C GLC 4 C 4 GLC L 2019 GLC 2 n C GMH 5 C 5 GMH L 2017 GMH 3 n D GCS 1 D 1 GCS L 2005 GCS 3 n D KDO 2 D 2 KDO L 2011 KDO 3 n D KDO 3 D 3 KDO L 2012 KDO 3 n D GMH 4 D 4 GMH L 2013 GMH # 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 G C1 FTT . A FTT 603 1_555 P N2 PA1 . B PA1 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale2 H O3 FTT . A FTT 604 1_555 S C1 DAO . B DAO 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? covale ? covale3 H C1 FTT . A FTT 604 1_555 D N2 GCS . D GCS 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale4 I O3 FTT . A FTT 605 1_555 J C1 MYR . A MYR 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.375 ? covale ? covale5 I C1 FTT . A FTT 605 1_555 D O3 GCS . D GCS 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.373 ? covale ? covale6 K P PO4 . A PO4 607 1_555 D O4 GCS . D GCS 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.558 ? covale ? covale7 P O1 PA1 . B PA1 605 1_555 Q P PO4 . B PO4 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.56 ? covale ? covale8 P O3 PA1 . B PA1 605 1_555 R C1 FTT . B FTT 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.375 ? covale ? covale9 T P1 DPO . B DPO 609 1_555 D O4 GMH . D GMH 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.557 ? covale ? covale10 C O3 GMH . C GMH 1 1_555 C C1 GLC . C GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale11 C O7 GMH . C GMH 1 1_555 C C1 GMH . C GMH 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale12 C O3 GLC . C GLC 2 1_555 C C1 GLC . C GLC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? covale ? covale13 C O6 GLC . C GLC 2 1_555 C C1 GLC . C GLC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale14 D O6 GCS . D GCS 1 1_555 D C2 KDO . D KDO 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale15 D O4 KDO . D KDO 2 1_555 D C2 KDO . D KDO 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? covale ? covale16 D O5 KDO . D KDO 2 1_555 D C1 GMH . D GMH 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? # _chem_comp.formula 'O7 P2 -4' _chem_comp.formula_weight 173.943 _chem_comp.id DPO _chem_comp.mon_nstd_flag . _chem_comp.name DIPHOSPHATE _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 P1 O1 DPO doub 311 n n P1 O2 DPO sing 312 n n P1 O3 DPO sing 313 n n P1 O4 DPO sing 314 n n O4 P2 DPO sing 315 n n P2 O5 DPO doub 316 n n P2 O6 DPO sing 317 n n P2 O7 DPO sing 318 n n # _atom_sites.entry_id 6BPL _atom_sites.fract_transf_matrix[1][1] 0.013378 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] -0.000143 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010916 _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] 0.009008 _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 3PE A 1 601 2 3PE 3PE . F 5 AU7 A 1 602 1 AU7 DRG . G 6 FTT A 1 603 2003 FTT FTT . H 6 FTT A 1 604 2006 FTT FTT . I 6 FTT A 1 605 2008 FTT FTT . J 7 MYR A 1 606 2009 MYR MYR . K 8 PO4 A 1 607 2010 PO4 PO4 . L 4 3PE B 1 601 1 3PE 3PE . M 4 3PE B 1 602 3 3PE 3PE . N 4 3PE B 1 603 4 3PE 3PE . O 5 AU7 B 1 604 2 AU7 DRG . P 9 PA1 B 1 605 2001 PA1 PA1 . Q 8 PO4 B 1 606 2002 PO4 PO4 . R 6 FTT B 1 607 2004 FTT FTT . S 10 DAO B 1 608 2007 DAO DAO . T 11 DPO B 1 609 2014 DPO DPO . # 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 P P1 DPO . . . T 11 -54.889 20.775 20.315 1 177.33 ? P1 DPO 609 B 1 HETATM 2 O O1 DPO . . . T 11 -53.902 20.132 19.37 1 171.64 ? O1 DPO 609 B 1 HETATM 3 O O3 DPO . . . T 11 -56.357 20.423 20.238 1 166.61 ? O3 DPO 609 B 1 HETATM 4 O O4 DPO . . . T 11 -54.78 22.382 20.25 1 170.37 ? O4 DPO 609 B 1 HETATM 5 P P2 DPO . . . T 11 -54.08 23.166 19.026 1 169.04 ? P2 DPO 609 B 1 HETATM 6 O O5 DPO . . . T 11 -53.942 22.144 17.92 1 159.38 ? O5 DPO 609 B 1 HETATM 7 O O6 DPO . . . T 11 -55.078 24.258 18.725 1 165.14 ? O6 DPO 609 B 1 HETATM 8 O O7 DPO . . . T 11 -52.76 23.654 19.574 1 167.9 ? O7 DPO 609 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 8 #