data_4GI2 # _model_server_result.job_id BX8iBqhjFPgZVfHfAH6BRQ _model_server_result.datetime_utc '2024-11-14 07:02:11' _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":"D","auth_seq_id":502}' # _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 . . . D 3 14.853 30.506 -22.739 1 116.67 ? PA NAP 502 A 1 HETATM 2 O O1A NAP . . . D 3 15.524 30.967 -24.01 1 106.63 ? O1A NAP 502 A 1 HETATM 3 O O2A NAP . . . D 3 13.753 29.513 -23.002 1 107.71 ? O2A NAP 502 A 1 HETATM 4 O O5B NAP . . . D 3 15.896 29.841 -21.767 1 126.31 ? O5B NAP 502 A 1 HETATM 5 C C5B NAP . . . D 3 15.834 28.474 -21.632 1 128.97 ? C5B NAP 502 A 1 HETATM 6 C C4B NAP . . . D 3 17.22 27.978 -21.52 1 131.35 ? C4B NAP 502 A 1 HETATM 7 O O4B NAP . . . D 3 17.37 27.527 -20.198 1 122.87 ? O4B NAP 502 A 1 HETATM 8 C C3B NAP . . . D 3 17.483 26.885 -22.505 1 145.44 ? C3B NAP 502 A 1 HETATM 9 O O3B NAP . . . D 3 18.316 27.327 -23.514 1 153.56 ? O3B NAP 502 A 1 HETATM 10 C C2B NAP . . . D 3 18.127 25.824 -21.755 1 146.73 ? C2B NAP 502 A 1 HETATM 11 O O2B NAP . . . D 3 19.433 25.695 -22.155 1 159.2 ? O2B NAP 502 A 1 HETATM 12 C C1B NAP . . . D 3 18.039 26.338 -20.395 1 131.38 ? C1B NAP 502 A 1 HETATM 13 N N9A NAP . . . D 3 17.309 25.279 -19.53 1 125.09 ? N9A NAP 502 A 1 HETATM 14 C C8A NAP . . . D 3 15.917 24.943 -19.579 1 120.86 ? C8A NAP 502 A 1 HETATM 15 N N7A NAP . . . D 3 15.731 23.955 -18.637 1 120.5 ? N7A NAP 502 A 1 HETATM 16 C C5A NAP . . . D 3 16.879 23.707 -18.063 1 122.7 ? C5A NAP 502 A 1 HETATM 17 C C6A NAP . . . D 3 17.154 22.771 -17.042 1 113.83 ? C6A NAP 502 A 1 HETATM 18 N N6A NAP . . . D 3 16.136 21.945 -16.496 1 111.66 ? N6A NAP 502 A 1 HETATM 19 N N1A NAP . . . D 3 18.458 22.71 -16.614 1 100.9 ? N1A NAP 502 A 1 HETATM 20 C C2A NAP . . . D 3 19.423 23.494 -17.131 1 99.32 ? C2A NAP 502 A 1 HETATM 21 N N3A NAP . . . D 3 19.115 24.371 -18.1 1 111.29 ? N3A NAP 502 A 1 HETATM 22 C C4A NAP . . . D 3 17.855 24.461 -18.547 1 123.19 ? C4A NAP 502 A 1 HETATM 23 O O3 NAP . . . D 3 14.207 31.708 -21.938 1 267.9 ? O3 NAP 502 A 1 HETATM 24 P PN NAP . . . D 3 15.151 32.755 -21.246 1 104.9 ? PN NAP 502 A 1 HETATM 25 O O1N NAP . . . D 3 15.154 34.017 -22.076 1 97.2 ? O1N NAP 502 A 1 HETATM 26 O O2N NAP . . . D 3 16.554 32.194 -21.069 1 113.87 ? O2N NAP 502 A 1 HETATM 27 O O5D NAP . . . D 3 14.548 32.969 -19.816 1 54.04 ? O5D NAP 502 A 1 HETATM 28 C C5D NAP . . . D 3 14.32 31.836 -19.003 1 71.8 ? C5D NAP 502 A 1 HETATM 29 C C4D NAP . . . D 3 13.49 32.098 -17.748 1 82.48 ? C4D NAP 502 A 1 HETATM 30 O O4D NAP . . . D 3 13.824 33.341 -17.132 1 94.2 ? O4D NAP 502 A 1 HETATM 31 C C3D NAP . . . D 3 12.038 32.073 -17.982 1 74.43 ? C3D NAP 502 A 1 HETATM 32 O O3D NAP . . . D 3 11.452 31.53 -16.86 1 69.88 ? O3D NAP 502 A 1 HETATM 33 C C2D NAP . . . D 3 11.68 33.474 -18.072 1 77.31 ? C2D NAP 502 A 1 HETATM 34 O O2D NAP . . . D 3 10.382 33.688 -17.71 1 80.53 ? O2D NAP 502 A 1 HETATM 35 C C1D NAP . . . D 3 12.564 33.955 -17.011 1 86.44 ? C1D NAP 502 A 1 HETATM 36 N N1N NAP . . . D 3 12.689 35.41 -16.993 1 89.25 ? N1N NAP 502 A 1 HETATM 37 C C2N NAP . . . D 3 12.32 36.027 -15.814 1 96.27 ? C2N NAP 502 A 1 HETATM 38 C C3N NAP . . . D 3 12.424 37.428 -15.681 1 91.62 ? C3N NAP 502 A 1 HETATM 39 C C7N NAP . . . D 3 11.981 38.053 -14.361 1 86.97 ? C7N NAP 502 A 1 HETATM 40 O O7N NAP . . . D 3 12.538 39.049 -13.918 1 71.79 ? O7N NAP 502 A 1 HETATM 41 N N7N NAP . . . D 3 10.87 37.466 -13.64 1 93.6 ? N7N NAP 502 A 1 HETATM 42 C C4N NAP . . . D 3 12.908 38.17 -16.795 1 76.7 ? C4N NAP 502 A 1 HETATM 43 C C5N NAP . . . D 3 13.277 37.477 -17.984 1 70.91 ? C5N NAP 502 A 1 HETATM 44 C C6N NAP . . . D 3 13.159 36.079 -18.062 1 75.2 ? C6N NAP 502 A 1 HETATM 45 P P2B NAP . . . D 3 20.219 24.346 -22.086 1 111.28 ? P2B NAP 502 A 1 HETATM 46 O O1X NAP . . . D 3 21.154 24.251 -23.284 1 103.59 ? O1X NAP 502 A 1 HETATM 47 O O2X NAP . . . D 3 19.222 23.21 -22.074 1 109.77 ? O2X NAP 502 A 1 HETATM 48 O O3X NAP . . . D 3 21.066 24.312 -20.828 1 115.54 ? O3X NAP 502 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 48 #