data_1GC3 # _model_server_result.job_id sTH2imunx6_Vk6G_ahmVxw _model_server_result.datetime_utc '2024-11-28 16:56:47' _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 1gc3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":413}' # _entry.id 1GC3 # _exptl.entry_id 1GC3 _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 8 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 91.53 _cell.angle_gamma 90 _cell.entry_id 1GC3 _cell.length_a 81.5 _cell.length_b 98.4 _cell.length_c 187 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1GC3 _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 PISA dimeric 2 author_and_software_defined_assembly 3 PISA dimeric 2 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,I,J,K,L 1 1 C,D,M,N,O,P 2 1 E,F,Q,R,S,T 3 1 G,H,U,V,W,X 4 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 K N N ? 3 L N N ? 3 N N N ? 3 P N N ? 3 S N N ? 3 T N N ? 3 V N N ? 3 X 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 K C4A PLP . A PLP 413 1_555 I N TRP . A TRP 414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.485 ? covale ? covale2 J N TRP . A TRP 914 1_555 L C4A PLP . B PLP 913 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.503 ? covale ? covale3 N C4A PLP . C PLP 1413 1_555 M N TRP . C TRP 1414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale4 P C4A PLP . D PLP 1913 1_555 O N TRP . D TRP 1914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.581 ? covale ? covale5 S C4A PLP . E PLP 2413 1_555 Q N TRP . E TRP 2414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.418 ? covale ? covale6 R N TRP . E TRP 2914 1_555 T C4A PLP . F PLP 2913 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.496 ? covale ? covale7 V C4A PLP . G PLP 3413 1_555 U N TRP . G TRP 3414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.575 ? covale ? covale8 X C4A PLP . H PLP 3913 1_555 W N TRP . H TRP 3914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.538 ? # _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 1GC3 _atom_sites.fract_transf_matrix[1][1] 0.01227 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000328 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010163 _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] 0.00535 _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 I 2 TRP A 1 414 414 TRP TRP . J 2 TRP A 1 914 914 TRP TRP . K 3 PLP A 1 413 413 PLP PLP . L 3 PLP B 1 913 913 PLP PLP . M 2 TRP C 1 1414 1414 TRP TRP . N 3 PLP C 1 1413 1413 PLP PLP . O 2 TRP D 1 1914 1914 TRP TRP . P 3 PLP D 1 1913 1913 PLP PLP . Q 2 TRP E 1 2414 2414 TRP TRP . R 2 TRP E 1 2914 2914 TRP TRP . S 3 PLP E 1 2413 2413 PLP PLP . T 3 PLP F 1 2913 2913 PLP PLP . U 2 TRP G 1 3414 3414 TRP TRP . V 3 PLP G 1 3413 3413 PLP PLP . W 2 TRP H 1 3914 3914 TRP TRP . X 3 PLP H 1 3913 3913 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 . . . K 3 -9.008 2.963 83.179 1 17.14 ? N1 PLP 413 A 1 HETATM 2 C C2 PLP . . . K 3 -10.161 2.246 83.06 1 16.76 ? C2 PLP 413 A 1 HETATM 3 C C2A PLP . . . K 3 -11.356 2.808 83.835 1 8.28 ? C2A PLP 413 A 1 HETATM 4 C C3 PLP . . . K 3 -10.223 1.065 82.231 1 21.18 ? C3 PLP 413 A 1 HETATM 5 O O3 PLP . . . K 3 -11.401 0.417 82.01 1 24.88 ? O3 PLP 413 A 1 HETATM 6 C C4 PLP . . . K 3 -9.082 0.631 81.539 1 26.4 ? C4 PLP 413 A 1 HETATM 7 C C4A PLP . . . K 3 -8.908 -0.753 80.666 1 31.99 ? C4A PLP 413 A 1 HETATM 8 C C5 PLP . . . K 3 -7.911 1.442 81.715 1 24.51 ? C5 PLP 413 A 1 HETATM 9 C C6 PLP . . . K 3 -7.895 2.576 82.503 1 18.37 ? C6 PLP 413 A 1 HETATM 10 C C5A PLP . . . K 3 -6.645 1.127 80.985 1 26 ? C5A PLP 413 A 1 HETATM 11 O O4P PLP . . . K 3 -6.372 2.135 80.026 1 25.32 ? O4P PLP 413 A 1 HETATM 12 P P PLP . . . K 3 -4.934 2.108 79.236 1 32.32 ? P PLP 413 A 1 HETATM 13 O O1P PLP . . . K 3 -4.896 3.366 78.472 1 40.39 ? O1P PLP 413 A 1 HETATM 14 O O2P PLP . . . K 3 -4.846 0.903 78.2 1 29.48 ? O2P PLP 413 A 1 HETATM 15 O O3P PLP . . . K 3 -3.847 1.826 80.162 1 34.28 ? O3P PLP 413 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 53 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 15 #