data_1GC4 # _model_server_result.job_id uE1iFVc2NBnJ6-EMONAOsQ _model_server_result.datetime_utc '2024-12-01 06:57:01' _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 1gc4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":913}' # _entry.id 1GC4 # _exptl.entry_id 1GC4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-5'-PHOSPHATE" _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 112.14 _cell.angle_gamma 90 _cell.entry_id 1GC4 _cell.length_a 82.67 _cell.length_b 102.34 _cell.length_c 100.41 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1GC4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,B,E,F,G,H 1 1 C,D,I,J,K,L 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 ? 3 F N N ? 3 H N N ? 3 J N N ? 3 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 covale ? covale1 F C4A PLP . A PLP 413 1_555 E N ASP . A ASP 414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.592 ? covale ? covale2 H C4A PLP . B PLP 913 1_555 G N ASP . B ASP 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.522 ? covale ? covale3 J C4A PLP . C PLP 1413 1_555 I N ASP . C ASP 1414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale4 L C4A PLP . D PLP 1913 1_555 K N ASP . D ASP 1914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.624 ? # _chem_comp.formula 'C8 H10 N O6 P' _chem_comp.formula_weight 247.142 _chem_comp.id PLP _chem_comp.mon_nstd_flag . _chem_comp.name "PYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'VITAMIN B6 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 PLP doub 258 n y N1 C6 PLP sing 259 n y C2 C2A PLP sing 260 n n C2 C3 PLP sing 261 n y C2A H2A1 PLP sing 262 n n C2A H2A2 PLP sing 263 n n C2A H2A3 PLP sing 264 n n C3 O3 PLP sing 265 n n C3 C4 PLP doub 266 n y O3 HO3 PLP sing 267 n n C4 C4A PLP sing 268 n n C4 C5 PLP sing 269 n y C4A O4A PLP doub 270 n n C4A H4A PLP sing 271 n n C5 C6 PLP doub 272 n y C5 C5A PLP sing 273 n n C6 H6 PLP sing 274 n n C5A O4P PLP sing 275 n n C5A H5A1 PLP sing 276 n n C5A H5A2 PLP sing 277 n n O4P P PLP sing 278 n n P O1P PLP doub 279 n n P O2P PLP sing 280 n n P O3P PLP sing 281 n n O2P HOP2 PLP sing 282 n n O3P HOP3 PLP sing 283 n n # _atom_sites.entry_id 1GC4 _atom_sites.fract_transf_matrix[1][1] 0.012096 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004922 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009771 _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] 0.010752 _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 2 ASP A 1 414 414 ASP ASP . F 3 PLP A 1 413 413 PLP PLP . G 2 ASP B 1 914 914 ASP ASP . H 3 PLP B 1 913 913 PLP PLP . I 2 ASP C 1 1414 1414 ASP ASP . J 3 PLP C 1 1413 1413 PLP PLP . K 2 ASP D 1 1914 1914 ASP ASP . L 3 PLP D 1 1913 1913 PLP PLP . # 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 PLP . . . H 3 -16.781 3.323 29.061 1 7.76 ? N1 PLP 913 B 1 HETATM 2 C C2 PLP . . . H 3 -17.956 2.723 28.748 1 5.73 ? C2 PLP 913 B 1 HETATM 3 C C2A PLP . . . H 3 -19.194 3.242 29.381 1 3.49 ? C2A PLP 913 B 1 HETATM 4 C C3 PLP . . . H 3 -17.963 1.568 27.948 1 7.14 ? C3 PLP 913 B 1 HETATM 5 O O3 PLP . . . H 3 -19.066 0.956 27.768 1 2 ? O3 PLP 913 B 1 HETATM 6 C C4 PLP . . . H 3 -16.881 0.973 27.365 1 11.33 ? C4 PLP 913 B 1 HETATM 7 C C4A PLP . . . H 3 -17.12 0.016 26.179 1 14.33 ? C4A PLP 913 B 1 HETATM 8 C C5 PLP . . . H 3 -15.612 1.625 27.701 1 7.16 ? C5 PLP 913 B 1 HETATM 9 C C6 PLP . . . H 3 -15.601 2.764 28.57 1 8.73 ? C6 PLP 913 B 1 HETATM 10 C C5A PLP . . . H 3 -14.324 1.06 27.25 1 2 ? C5A PLP 913 B 1 HETATM 11 O O4P PLP . . . H 3 -13.434 2.021 26.704 1 2 ? O4P PLP 913 B 1 HETATM 12 P P PLP . . . H 3 -12.31 1.57 25.661 1 5.65 ? P PLP 913 B 1 HETATM 13 O O1P PLP . . . H 3 -12.383 2.476 24.495 1 4.41 ? O1P PLP 913 B 1 HETATM 14 O O2P PLP . . . H 3 -12.652 -0.02 25.294 1 3.83 ? O2P PLP 913 B 1 HETATM 15 O O3P PLP . . . H 3 -11.086 1.55 26.452 1 8.64 ? O3P PLP 913 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 15 #