data_2Y3I # _model_server_result.job_id qWfwffh8uKsVmcep9EwYaA _model_server_result.datetime_utc '2024-12-26 15:42:57' _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 2y3i # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":1420}' # _entry.id 2Y3I # _exptl.entry_id 2Y3I _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 186.057 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '3-PHOSPHOGLYCERIC ACID' _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 2Y3I _cell.length_a 38.419 _cell.length_b 103.877 _cell.length_c 203.094 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2Y3I _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # 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,E,F,G,M 1 1 B,H,I,J,K,L,N 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 G N N ? 6 L 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 metalc ? metalc1 A OD1 ASP 375 A ASP 374 1_555 C MG MG . A MG 1416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc2 C MG MG . A MG 1416 1_555 E O3B LA8 . A LA8 1418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc3 B OD1 ASP 375 D ASP 374 1_555 J MG MG . D MG 1418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc4 H O1A LA8 . D LA8 1416 1_555 J MG MG . D MG 1418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? metalc ? metalc5 H O3B LA8 . D LA8 1416 1_555 J MG MG . D MG 1418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? # _chem_comp.formula 'C3 H7 O7 P' _chem_comp.formula_weight 186.057 _chem_comp.id 3PG _chem_comp.mon_nstd_flag . _chem_comp.name '3-PHOSPHOGLYCERIC ACID' _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 O1 3PG doub 1 n n C1 O2 3PG sing 2 n n C1 C2 3PG sing 3 n n O2 HO2 3PG sing 4 n n C2 O3 3PG sing 5 n n C2 C3 3PG sing 6 n n C2 H2 3PG sing 7 n n O3 HO3 3PG sing 8 n n C3 O1P 3PG sing 9 n n C3 H31 3PG sing 10 n n C3 H32 3PG sing 11 n n O1P P 3PG sing 12 n n P O2P 3PG doub 13 n n P O3P 3PG sing 14 n n P O4P 3PG sing 15 n n O3P HOP3 3PG sing 16 n n O4P HOP4 3PG sing 17 n n # _atom_sites.entry_id 2Y3I _atom_sites.fract_transf_matrix[1][1] 0.026029 _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] 0.009627 _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] 0.004924 _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 C 2 MG A 1 1416 1416 MG MG . D 3 CL A 1 1417 1417 CL CL . E 4 LA8 A 1 1418 1418 LA8 LA8 . F 5 ALF A 1 1419 1419 ALF ALF . G 6 3PG A 1 1420 1420 3PG 3PG . H 4 LA8 D 1 1416 1416 LA8 LA8 . I 5 ALF D 1 1417 1417 ALF ALF . J 2 MG D 1 1418 1418 MG MG . K 3 CL D 1 1419 1419 CL CL . L 6 3PG D 1 1420 1420 3PG 3PG . M 7 HOH A 1 2001 2001 HOH HOH . M 7 HOH A 2 2002 2002 HOH HOH . M 7 HOH A 3 2003 2003 HOH HOH . M 7 HOH A 4 2004 2004 HOH HOH . M 7 HOH A 5 2005 2005 HOH HOH . M 7 HOH A 6 2006 2006 HOH HOH . M 7 HOH A 7 2007 2007 HOH HOH . M 7 HOH A 8 2008 2008 HOH HOH . N 7 HOH D 1 2001 2001 HOH HOH . N 7 HOH D 2 2002 2002 HOH HOH . N 7 HOH D 3 2003 2003 HOH HOH . N 7 HOH D 4 2004 2004 HOH HOH . N 7 HOH D 5 2005 2005 HOH HOH . N 7 HOH D 6 2006 2006 HOH HOH . N 7 HOH D 7 2007 2007 HOH HOH . N 7 HOH D 8 2008 2008 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 3PG . . . L 6 -9.726 12.211 -56.734 1 32.5 ? C1 3PG 1420 D 1 HETATM 2 O O1 3PG . . . L 6 -10.892 12.589 -56.973 1 32.95 ? O1 3PG 1420 D 1 HETATM 3 O O2 3PG . . . L 6 -9.291 11.136 -57.189 1 32.78 ? O2 3PG 1420 D 1 HETATM 4 C C2 3PG . . . L 6 -8.831 13.059 -55.866 1 32.16 ? C2 3PG 1420 D 1 HETATM 5 O O3 3PG . . . L 6 -9.531 14.215 -55.395 1 32.61 ? O3 3PG 1420 D 1 HETATM 6 C C3 3PG . . . L 6 -7.586 13.508 -56.634 1 31.91 ? C3 3PG 1420 D 1 HETATM 7 O O1P 3PG . . . L 6 -7.878 14.557 -57.559 1 30.92 ? O1P 3PG 1420 D 1 HETATM 8 P P 3PG . . . L 6 -6.831 14.888 -58.723 1 30.76 ? P 3PG 1420 D 1 HETATM 9 O O2P 3PG . . . L 6 -7.385 16.112 -59.4 1 30.38 ? O2P 3PG 1420 D 1 HETATM 10 O O3P 3PG . . . L 6 -5.548 15.088 -57.964 1 30.54 ? O3P 3PG 1420 D 1 HETATM 11 O O4P 3PG . . . L 6 -6.838 13.666 -59.596 1 31 ? O4P 3PG 1420 D 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 11 #