data_2CFB # _model_server_result.job_id Gbo6douXjMBrxQxVRfRNpw _model_server_result.datetime_utc '2024-10-19 01:40:35' _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 2cfb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1412}' # _entry.id 2CFB # _exptl.entry_id 2CFB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 233.158 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(5-HYDROXY-4,6-DIMETHYLPYRIDIN-3-YL)METHYL DIHYDROGEN PHOSPHATE' _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 2CFB _cell.length_a 108.92 _cell.length_b 108.92 _cell.length_c 93.39 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2CFB _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PQS _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 8_665 -y+1,-x+1,-z+1/2 0 -1 0 -1 0 0 0 0 -1 108.92 108.92 46.695 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NZ _struct_conn.ptnr1_label_comp_id LYS _struct_conn.ptnr1_label_seq_id 251 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 251 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C4A _struct_conn.ptnr2_label_comp_id PLR _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id PLR _struct_conn.ptnr2_auth_seq_id 1412 _struct_conn.ptnr2_symmetry 1_555 _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 1.372 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C8 H12 N O5 P' _chem_comp.formula_weight 233.158 _chem_comp.id PLR _chem_comp.mon_nstd_flag . _chem_comp.name '(5-HYDROXY-4,6-DIMETHYLPYRIDIN-3-YL)METHYL DIHYDROGEN PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "4'-DEOXYPYRIDOXINE PHOSPHATE" # 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 N1 C2 PLR doub 260 n y N1 C6 PLR sing 261 n y C2 C2A PLR sing 262 n n C2 C3 PLR sing 263 n y C2A H2A1 PLR sing 264 n n C2A H2A2 PLR sing 265 n n C2A H2A3 PLR sing 266 n n C3 O3 PLR sing 267 n n C3 C4 PLR doub 268 n y O3 HO3 PLR sing 269 n n C4 C4A PLR sing 270 n n C4 C5 PLR sing 271 n y C4A H4A1 PLR sing 272 n n C4A H4A2 PLR sing 273 n n C4A H4A3 PLR sing 274 n n C5 C6 PLR doub 275 n y C5 C5A PLR sing 276 n n C6 H6 PLR sing 277 n n C5A O4P PLR sing 278 n n C5A H5A1 PLR sing 279 n n C5A H5A2 PLR sing 280 n n O4P P PLR sing 281 n n P O1P PLR doub 282 n n P O2P PLR sing 283 n n P O3P PLR sing 284 n n O2P H2P PLR sing 285 n n O3P H3P PLR sing 286 n n # _atom_sites.entry_id 2CFB _atom_sites.fract_transf_matrix[1][1] 0.009181 _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] 0.009181 _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] 0.010708 _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 B 2 PLR A 1 1412 1412 PLR PLR . C 3 HOH A 1 2001 2001 HOH HOH . C 3 HOH A 2 2002 2002 HOH HOH . C 3 HOH A 3 2003 2003 HOH HOH . C 3 HOH A 4 2004 2004 HOH HOH . C 3 HOH A 5 2005 2005 HOH HOH . C 3 HOH A 6 2006 2006 HOH HOH . C 3 HOH A 7 2007 2007 HOH HOH . C 3 HOH A 8 2008 2008 HOH HOH . C 3 HOH A 9 2009 2009 HOH HOH . C 3 HOH A 10 2010 2010 HOH HOH . C 3 HOH A 11 2011 2011 HOH HOH . C 3 HOH A 12 2012 2012 HOH HOH . C 3 HOH A 13 2013 2013 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 N N1 PLR . . . B 2 24.528 87.63 34.814 1 26.44 ? N1 PLR 1412 A 1 HETATM 2 C C2 PLR . . . B 2 25.688 87.925 35.494 1 31.88 ? C2 PLR 1412 A 1 HETATM 3 C C2A PLR . . . B 2 25.576 88.187 36.982 1 31.63 ? C2A PLR 1412 A 1 HETATM 4 C C3 PLR . . . B 2 26.951 87.96 34.792 1 36.72 ? C3 PLR 1412 A 1 HETATM 5 O O3 PLR . . . B 2 27.996 88.208 35.407 1 36.13 ? O3 PLR 1412 A 1 HETATM 6 C C4 PLR . . . B 2 27.046 87.688 33.392 1 36.62 ? C4 PLR 1412 A 1 HETATM 7 C C4A PLR . . . B 2 28.326 87.76 32.551 1 33.33 ? C4A PLR 1412 A 1 HETATM 8 C C5 PLR . . . B 2 25.828 87.396 32.751 1 34.47 ? C5 PLR 1412 A 1 HETATM 9 C C6 PLR . . . B 2 24.605 87.358 33.457 1 31.86 ? C6 PLR 1412 A 1 HETATM 10 C C5A PLR . . . B 2 25.848 87.137 31.301 1 30.1 ? C5A PLR 1412 A 1 HETATM 11 O O4P PLR . . . B 2 26.034 85.757 31.055 1 30.46 ? O4P PLR 1412 A 1 HETATM 12 P P PLR . . . B 2 26.755 85.243 29.721 1 27.82 ? P PLR 1412 A 1 HETATM 13 O O1P PLR . . . B 2 27.082 83.843 30.035 1 26.79 ? O1P PLR 1412 A 1 HETATM 14 O O2P PLR . . . B 2 27.904 86.16 29.567 1 32.97 ? O2P PLR 1412 A 1 HETATM 15 O O3P PLR . . . B 2 25.736 85.389 28.682 1 24.92 ? O3P PLR 1412 A 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 15 #