data_4GI2 # _model_server_result.job_id dxMhYzNbZzWvoKZAl7yPHA _model_server_result.datetime_utc '2024-11-22 06:56:54' _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 4gi2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":501}' # _entry.id 4GI2 # _exptl.entry_id 4GI2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 120 _cell.entry_id 4GI2 _cell.length_a 91.4 _cell.length_b 91.4 _cell.length_c 206.1 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4GI2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 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,C,D 1 1,2 B,E 2 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' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 E 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 O VAL 76 A VAL 76 1_555 C MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.774 ? metalc ? metalc2 A OD1 ASN 77 A ASN 77 1_555 C MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.597 ? # _chem_comp.formula 'C21 H28 N7 O17 P3' _chem_comp.formula_weight 743.405 _chem_comp.id NAP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE" # 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 PA O1A NAP doub 235 n n PA O2A NAP sing 236 n n PA O5B NAP sing 237 n n PA O3 NAP sing 238 n n O2A HOA2 NAP sing 239 n n O5B C5B NAP sing 240 n n C5B C4B NAP sing 241 n n C5B H51A NAP sing 242 n n C5B H52A NAP sing 243 n n C4B O4B NAP sing 244 n n C4B C3B NAP sing 245 n n C4B H4B NAP sing 246 n n O4B C1B NAP sing 247 n n C3B O3B NAP sing 248 n n C3B C2B NAP sing 249 n n C3B H3B NAP sing 250 n n O3B HO3A NAP sing 251 n n C2B O2B NAP sing 252 n n C2B C1B NAP sing 253 n n C2B H2B NAP sing 254 n n O2B P2B NAP sing 255 n n C1B N9A NAP sing 256 n n C1B H1B NAP sing 257 n n N9A C8A NAP sing 258 n y N9A C4A NAP sing 259 n y C8A N7A NAP doub 260 n y C8A H8A NAP sing 261 n n N7A C5A NAP sing 262 n y C5A C6A NAP sing 263 n y C5A C4A NAP doub 264 n y C6A N6A NAP sing 265 n n C6A N1A NAP doub 266 n y N6A H61A NAP sing 267 n n N6A H62A NAP sing 268 n n N1A C2A NAP sing 269 n y C2A N3A NAP doub 270 n y C2A H2A NAP sing 271 n n N3A C4A NAP sing 272 n y O3 PN NAP sing 273 n n PN O1N NAP doub 274 n n PN O2N NAP sing 275 n n PN O5D NAP sing 276 n n O5D C5D NAP sing 277 n n C5D C4D NAP sing 278 n n C5D H51N NAP sing 279 n n C5D H52N NAP sing 280 n n C4D O4D NAP sing 281 n n C4D C3D NAP sing 282 n n C4D H4D NAP sing 283 n n O4D C1D NAP sing 284 n n C3D O3D NAP sing 285 n n C3D C2D NAP sing 286 n n C3D H3D NAP sing 287 n n O3D HO3N NAP sing 288 n n C2D O2D NAP sing 289 n n C2D C1D NAP sing 290 n n C2D H2D NAP sing 291 n n O2D HO2N NAP sing 292 n n C1D N1N NAP sing 293 n n C1D H1D NAP sing 294 n n N1N C2N NAP sing 295 n y N1N C6N NAP doub 296 n y C2N C3N NAP doub 297 n y C2N H2N NAP sing 298 n n C3N C7N NAP sing 299 n n C3N C4N NAP sing 300 n y C7N O7N NAP doub 301 n n C7N N7N NAP sing 302 n n N7N H71N NAP sing 303 n n N7N H72N NAP sing 304 n n C4N C5N NAP doub 305 n y C4N H4N NAP sing 306 n n C5N C6N NAP sing 307 n y C5N H5N NAP sing 308 n n C6N H6N NAP sing 309 n n P2B O1X NAP doub 310 n n P2B O2X NAP sing 311 n n P2B O3X NAP sing 312 n n O2X HOP2 NAP sing 313 n n O3X HOP3 NAP sing 314 n n # _atom_sites.entry_id 4GI2 _atom_sites.fract_transf_matrix[1][1] 0.010941 _atom_sites.fract_transf_matrix[1][2] 0.006317 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012633 _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] 0.004852 _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 1 501 1 MG MG . D 3 NAP A 1 502 1 NAP NAP . E 3 NAP B 1 501 1 NAP NAP . # 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 PA NAP . . . E 3 22.701 79.036 11.835 1 100.94 ? PA NAP 501 B 1 HETATM 2 O O1A NAP . . . E 3 23.049 80.364 11.248 1 92.94 ? O1A NAP 501 B 1 HETATM 3 O O2A NAP . . . E 3 21.85 79.177 13.071 1 108.8 ? O2A NAP 501 B 1 HETATM 4 O O5B NAP . . . E 3 24.087 78.337 12.147 1 77.85 ? O5B NAP 501 B 1 HETATM 5 C C5B NAP . . . E 3 25.22 79.132 12.318 1 87.58 ? C5B NAP 501 B 1 HETATM 6 C C4B NAP . . . E 3 26.198 78.561 13.31 1 104.37 ? C4B NAP 501 B 1 HETATM 7 O O4B NAP . . . E 3 27.511 78.634 12.777 1 105.87 ? O4B NAP 501 B 1 HETATM 8 C C3B NAP . . . E 3 26.195 79.232 14.661 1 107.9 ? C3B NAP 501 B 1 HETATM 9 O O3B NAP . . . E 3 25.617 78.395 15.591 1 107.61 ? O3B NAP 501 B 1 HETATM 10 C C2B NAP . . . E 3 27.586 79.458 15.05 1 109.96 ? C2B NAP 501 B 1 HETATM 11 O O2B NAP . . . E 3 27.836 78.768 16.208 1 123.75 ? O2B NAP 501 B 1 HETATM 12 C C1B NAP . . . E 3 28.269 78.826 13.933 1 107.14 ? C1B NAP 501 B 1 HETATM 13 N N9A NAP . . . E 3 29.576 79.573 13.501 1 108.73 ? N9A NAP 501 B 1 HETATM 14 C C8A NAP . . . E 3 29.65 80.875 12.892 1 102.86 ? C8A NAP 501 B 1 HETATM 15 N N7A NAP . . . E 3 30.975 81.154 12.642 1 101 ? N7A NAP 501 B 1 HETATM 16 C C5A NAP . . . E 3 31.678 80.143 13.033 1 114.37 ? C5A NAP 501 B 1 HETATM 17 C C6A NAP . . . E 3 33.12 80.015 12.957 1 115.22 ? C6A NAP 501 B 1 HETATM 18 N N6A NAP . . . E 3 33.898 81.062 12.407 1 102.58 ? N6A NAP 501 B 1 HETATM 19 N N1A NAP . . . E 3 33.723 78.83 13.436 1 130.36 ? N1A NAP 501 B 1 HETATM 20 C C2A NAP . . . E 3 32.763 78.021 13.892 1 139.54 ? C2A NAP 501 B 1 HETATM 21 N N3A NAP . . . E 3 31.439 77.973 14.04 1 139.39 ? N3A NAP 501 B 1 HETATM 22 C C4A NAP . . . E 3 30.908 79.144 13.557 1 124.51 ? C4A NAP 501 B 1 HETATM 23 O O3 NAP . . . E 3 21.825 78.283 10.753 1 187.74 ? O3 NAP 501 B 1 HETATM 24 P PN NAP . . . E 3 22.409 77.041 9.998 1 89.22 ? PN NAP 501 B 1 HETATM 25 O O1N NAP . . . E 3 21.233 76.459 9.251 1 87.12 ? O1N NAP 501 B 1 HETATM 26 O O2N NAP . . . E 3 22.955 76.058 11.017 1 100.92 ? O2N NAP 501 B 1 HETATM 27 O O5D NAP . . . E 3 23.578 77.487 9.02 1 75.91 ? O5D NAP 501 B 1 HETATM 28 C C5D NAP . . . E 3 24.066 76.551 8.086 1 85.37 ? C5D NAP 501 B 1 HETATM 29 C C4D NAP . . . E 3 24.789 77.137 6.883 1 94.9 ? C4D NAP 501 B 1 HETATM 30 O O4D NAP . . . E 3 24.732 76.155 5.854 1 96.58 ? O4D NAP 501 B 1 HETATM 31 C C3D NAP . . . E 3 24.24 78.381 6.316 1 97.39 ? C3D NAP 501 B 1 HETATM 32 O O3D NAP . . . E 3 25.247 79 5.59 1 83.34 ? O3D NAP 501 B 1 HETATM 33 C C2D NAP . . . E 3 23.168 77.921 5.437 1 103.08 ? C2D NAP 501 B 1 HETATM 34 O O2D NAP . . . E 3 22.935 78.767 4.378 1 94.53 ? O2D NAP 501 B 1 HETATM 35 C C1D NAP . . . E 3 23.749 76.645 4.97 1 103.92 ? C1D NAP 501 B 1 HETATM 36 N N1N NAP . . . E 3 22.762 75.579 4.747 1 99.79 ? N1N NAP 501 B 1 HETATM 37 C C2N NAP . . . E 3 22.913 74.732 3.698 1 93.25 ? C2N NAP 501 B 1 HETATM 38 C C3N NAP . . . E 3 22.293 73.638 3.119 1 86.56 ? C3N NAP 501 B 1 HETATM 39 C C7N NAP . . . E 3 22.831 72.963 1.859 1 89.93 ? C7N NAP 501 B 1 HETATM 40 O O7N NAP . . . E 3 22.516 71.825 1.561 1 90.62 ? O7N NAP 501 B 1 HETATM 41 N N7N NAP . . . E 3 23.726 73.7 1.004 1 92.59 ? N7N NAP 501 B 1 HETATM 42 C C4N NAP . . . E 3 21.127 73.346 3.921 1 85.54 ? C4N NAP 501 B 1 HETATM 43 C C5N NAP . . . E 3 20.822 74.169 5.1 1 94.01 ? C5N NAP 501 B 1 HETATM 44 C C6N NAP . . . E 3 21.656 75.282 5.493 1 94.96 ? C6N NAP 501 B 1 HETATM 45 P P2B NAP . . . E 3 28.829 79.18 17.341 1 114.8 ? P2B NAP 501 B 1 HETATM 46 O O1X NAP . . . E 3 28.888 80.694 17.456 1 117.09 ? O1X NAP 501 B 1 HETATM 47 O O2X NAP . . . E 3 30.204 78.614 17.054 1 103.69 ? O2X NAP 501 B 1 HETATM 48 O O3X NAP . . . E 3 28.296 78.59 18.637 1 102.77 ? O3X NAP 501 B 1 HETATM 49 H H1B NAP . . . E 3 29.045 79.24 13.749 1 128.56 ? H1B NAP 501 B 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 49 #