data_7RAD # _model_server_result.job_id N0hVLWfubkndnhrP2zwUBg _model_server_result.datetime_utc '2024-10-19 05:36:36' _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 7rad # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 7RAD # _exptl.entry_id 7RAD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 663.425 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NICOTINAMIDE-ADENINE-DINUCLEOTIDE _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 7RAD _cell.length_a 101.127 _cell.length_b 101.127 _cell.length_c 185.52 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7RAD _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R _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' 5_555 x-y,-y,-z+1/3 1 0 0 0 -1 0 0 0 -1 0 0 61.84 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 J 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 OG1 THR 32 A THR 39 1_555 E NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.566 ? metalc ? metalc2 A O VAL 33 A VAL 40 1_555 E NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.715 ? metalc ? metalc3 A O ASP 102 A ASP 109 1_555 E NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.691 ? metalc ? metalc4 A OD1 ASP 102 A ASP 109 1_555 E NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.58 ? metalc ? metalc5 A O GLN 189 A GLN 196 1_555 E NA NA . A NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.51 ? metalc ? metalc6 E NA NA . A NA 603 1_555 Q O HOH . A HOH 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.879 ? metalc ? metalc7 B OG1 THR 32 B THR 39 1_555 L NA NA . B NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.642 ? metalc ? metalc8 B O VAL 33 B VAL 40 1_555 L NA NA . B NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.726 ? metalc ? metalc9 B O ASP 102 B ASP 109 1_555 L NA NA . B NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.567 ? metalc ? metalc10 B OD1 ASP 102 B ASP 109 1_555 L NA NA . B NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.625 ? metalc ? metalc11 B O GLN 189 B GLN 196 1_555 L NA NA . B NA 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.488 ? metalc ? metalc12 L NA NA . B NA 603 1_555 R O HOH . B HOH 717 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.62 ? # _chem_comp.formula 'C21 H27 N7 O14 P2' _chem_comp.formula_weight 663.425 _chem_comp.id NAD _chem_comp.mon_nstd_flag . _chem_comp.name NICOTINAMIDE-ADENINE-DINUCLEOTIDE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 NAD doub 246 n n PA O2A NAD sing 247 n n PA O5B NAD sing 248 n n PA O3 NAD sing 249 n n O2A HOA2 NAD sing 250 n n O5B C5B NAD sing 251 n n C5B C4B NAD sing 252 n n C5B H51A NAD sing 253 n n C5B H52A NAD sing 254 n n C4B O4B NAD sing 255 n n C4B C3B NAD sing 256 n n C4B H4B NAD sing 257 n n O4B C1B NAD sing 258 n n C3B O3B NAD sing 259 n n C3B C2B NAD sing 260 n n C3B H3B NAD sing 261 n n O3B HO3A NAD sing 262 n n C2B O2B NAD sing 263 n n C2B C1B NAD sing 264 n n C2B H2B NAD sing 265 n n O2B HO2A NAD sing 266 n n C1B N9A NAD sing 267 n n C1B H1B NAD sing 268 n n N9A C8A NAD sing 269 n y N9A C4A NAD sing 270 n y C8A N7A NAD doub 271 n y C8A H8A NAD sing 272 n n N7A C5A NAD sing 273 n y C5A C6A NAD sing 274 n y C5A C4A NAD doub 275 n y C6A N6A NAD sing 276 n n C6A N1A NAD doub 277 n y N6A H61A NAD sing 278 n n N6A H62A NAD sing 279 n n N1A C2A NAD sing 280 n y C2A N3A NAD doub 281 n y C2A H2A NAD sing 282 n n N3A C4A NAD sing 283 n y O3 PN NAD sing 284 n n PN O1N NAD doub 285 n n PN O2N NAD sing 286 n n PN O5D NAD sing 287 n n O5D C5D NAD sing 288 n n C5D C4D NAD sing 289 n n C5D H51N NAD sing 290 n n C5D H52N NAD sing 291 n n C4D O4D NAD sing 292 n n C4D C3D NAD sing 293 n n C4D H4D NAD sing 294 n n O4D C1D NAD sing 295 n n C3D O3D NAD sing 296 n n C3D C2D NAD sing 297 n n C3D H3D NAD sing 298 n n O3D HO3N NAD sing 299 n n C2D O2D NAD sing 300 n n C2D C1D NAD sing 301 n n C2D H2D NAD sing 302 n n O2D HO2N NAD sing 303 n n C1D N1N NAD sing 304 n n C1D H1D NAD sing 305 n n N1N C2N NAD sing 306 n y N1N C6N NAD doub 307 n y C2N C3N NAD doub 308 n y C2N H2N NAD sing 309 n n C3N C7N NAD sing 310 n n C3N C4N NAD sing 311 n y C7N O7N NAD doub 312 n n C7N N7N NAD sing 313 n n N7N H71N NAD sing 314 n n N7N H72N NAD sing 315 n n C4N C5N NAD doub 316 n y C4N H4N NAD sing 317 n n C5N C6N NAD sing 318 n y C5N H5N NAD sing 319 n n C6N H6N NAD sing 320 n n # _atom_sites.entry_id 7RAD _atom_sites.fract_transf_matrix[1][1] 0.009889 _atom_sites.fract_transf_matrix[1][2] 0.005709 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011418 _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] 0.00539 _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 NAD A 1 601 4 NAD ZRF . D 3 ZGJ A 1 602 1 ZGJ dcz . E 4 NA A 1 603 1 NA NA . F 5 EDO A 1 604 2 EDO EDO . G 5 EDO A 1 605 4 EDO EDO . H 5 EDO A 1 606 5 EDO EDO . I 5 EDO A 1 607 6 EDO EDO . J 2 NAD B 1 601 3 NAD ZRF . K 3 ZGJ B 1 602 2 ZGJ dcz . L 4 NA B 1 603 2 NA NA . M 5 EDO B 1 604 1 EDO EDO . N 5 EDO B 1 605 3 EDO EDO . O 5 EDO B 1 606 7 EDO EDO . P 5 EDO B 1 607 8 EDO EDO . Q 6 HOH A 1 701 14 HOH HOH . Q 6 HOH A 2 702 13 HOH HOH . Q 6 HOH A 3 703 50 HOH HOH . Q 6 HOH A 4 704 24 HOH HOH . Q 6 HOH A 5 705 16 HOH HOH . Q 6 HOH A 6 706 26 HOH HOH . Q 6 HOH A 7 707 75 HOH HOH . Q 6 HOH A 8 708 23 HOH HOH . Q 6 HOH A 9 709 21 HOH HOH . Q 6 HOH A 10 710 57 HOH HOH . Q 6 HOH A 11 711 39 HOH HOH . Q 6 HOH A 12 712 70 HOH HOH . Q 6 HOH A 13 713 71 HOH HOH . Q 6 HOH A 14 714 51 HOH HOH . Q 6 HOH A 15 715 48 HOH HOH . Q 6 HOH A 16 716 66 HOH HOH . Q 6 HOH A 17 717 52 HOH HOH . Q 6 HOH A 18 718 6 HOH HOH . Q 6 HOH A 19 719 30 HOH HOH . Q 6 HOH A 20 720 12 HOH HOH . Q 6 HOH A 21 721 65 HOH HOH . Q 6 HOH A 22 722 63 HOH HOH . Q 6 HOH A 23 723 87 HOH HOH . Q 6 HOH A 24 724 53 HOH HOH . Q 6 HOH A 25 725 86 HOH HOH . Q 6 HOH A 26 726 27 HOH HOH . Q 6 HOH A 27 727 68 HOH HOH . Q 6 HOH A 28 728 90 HOH HOH . Q 6 HOH A 29 729 10 HOH HOH . Q 6 HOH A 30 730 5 HOH HOH . Q 6 HOH A 31 731 31 HOH HOH . Q 6 HOH A 32 732 74 HOH HOH . Q 6 HOH A 33 733 83 HOH HOH . Q 6 HOH A 34 734 29 HOH HOH . Q 6 HOH A 35 735 28 HOH HOH . Q 6 HOH A 36 736 77 HOH HOH . Q 6 HOH A 37 737 72 HOH HOH . Q 6 HOH A 38 738 9 HOH HOH . Q 6 HOH A 39 739 73 HOH HOH . Q 6 HOH A 40 740 20 HOH HOH . Q 6 HOH A 41 741 49 HOH HOH . Q 6 HOH A 42 742 8 HOH HOH . Q 6 HOH A 43 743 93 HOH HOH . Q 6 HOH A 44 744 7 HOH HOH . Q 6 HOH A 45 745 89 HOH HOH . Q 6 HOH A 46 746 94 HOH HOH . Q 6 HOH A 47 747 69 HOH HOH . Q 6 HOH A 48 748 42 HOH HOH . Q 6 HOH A 49 749 47 HOH HOH . Q 6 HOH A 50 750 91 HOH HOH . Q 6 HOH A 51 751 88 HOH HOH . Q 6 HOH A 52 752 54 HOH HOH . Q 6 HOH A 53 753 17 HOH HOH . Q 6 HOH A 54 754 25 HOH HOH . Q 6 HOH A 55 755 15 HOH HOH . Q 6 HOH A 56 756 32 HOH HOH . Q 6 HOH A 57 757 18 HOH HOH . Q 6 HOH A 58 758 64 HOH HOH . Q 6 HOH A 59 759 58 HOH HOH . Q 6 HOH A 60 760 19 HOH HOH . R 6 HOH B 1 701 55 HOH HOH . R 6 HOH B 2 702 40 HOH HOH . R 6 HOH B 3 703 76 HOH HOH . R 6 HOH B 4 704 1 HOH HOH . R 6 HOH B 5 705 81 HOH HOH . R 6 HOH B 6 706 60 HOH HOH . R 6 HOH B 7 707 41 HOH HOH . R 6 HOH B 8 708 2 HOH HOH . R 6 HOH B 9 709 36 HOH HOH . R 6 HOH B 10 710 95 HOH HOH . R 6 HOH B 11 711 59 HOH HOH . R 6 HOH B 12 712 38 HOH HOH . R 6 HOH B 13 713 56 HOH HOH . R 6 HOH B 14 714 84 HOH HOH . R 6 HOH B 15 715 45 HOH HOH . R 6 HOH B 16 716 85 HOH HOH . R 6 HOH B 17 717 33 HOH HOH . R 6 HOH B 18 718 11 HOH HOH . R 6 HOH B 19 719 61 HOH HOH . R 6 HOH B 20 720 3 HOH HOH . R 6 HOH B 21 721 34 HOH HOH . R 6 HOH B 22 722 67 HOH HOH . R 6 HOH B 23 723 62 HOH HOH . R 6 HOH B 24 724 78 HOH HOH . R 6 HOH B 25 725 37 HOH HOH . R 6 HOH B 26 726 4 HOH HOH . R 6 HOH B 27 727 80 HOH HOH . R 6 HOH B 28 728 79 HOH HOH . R 6 HOH B 29 729 35 HOH HOH . R 6 HOH B 30 730 92 HOH HOH . R 6 HOH B 31 731 46 HOH HOH . R 6 HOH B 32 732 44 HOH HOH . R 6 HOH B 33 733 82 HOH HOH . R 6 HOH B 34 734 43 HOH HOH . R 6 HOH B 35 735 22 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 P PA NAD . . . C 2 41.333 -12.626 1.035 1 45.72 ? PA NAD 601 A 1 HETATM 2 O O1A NAD . . . C 2 39.846 -12.832 1.138 1 50 ? O1A NAD 601 A 1 HETATM 3 O O2A NAD . . . C 2 41.873 -13.188 -0.249 1 48.18 ? O2A NAD 601 A 1 HETATM 4 O O5B NAD . . . C 2 42.25 -13.3 2.158 1 42.87 ? O5B NAD 601 A 1 HETATM 5 C C5B NAD . . . C 2 42.221 -12.892 3.509 1 45.31 ? C5B NAD 601 A 1 HETATM 6 C C4B NAD . . . C 2 42.833 -13.974 4.378 1 46.02 ? C4B NAD 601 A 1 HETATM 7 O O4B NAD . . . C 2 42.002 -15.141 4.267 1 53.5 ? O4B NAD 601 A 1 HETATM 8 C C3B NAD . . . C 2 44.216 -14.392 3.924 1 46.56 ? C3B NAD 601 A 1 HETATM 9 O O3B NAD . . . C 2 45.04 -14.801 5.027 1 46.15 ? O3B NAD 601 A 1 HETATM 10 C C2B NAD . . . C 2 43.965 -15.578 3.026 1 46.05 ? C2B NAD 601 A 1 HETATM 11 O O2B NAD . . . C 2 45.055 -16.486 3.018 1 41.91 ? O2B NAD 601 A 1 HETATM 12 C C1B NAD . . . C 2 42.745 -16.208 3.664 1 49.56 ? C1B NAD 601 A 1 HETATM 13 N N9A NAD . . . C 2 41.898 -16.993 2.737 1 50.66 ? N9A NAD 601 A 1 HETATM 14 C C8A NAD . . . C 2 41.786 -16.963 1.391 1 53.16 ? C8A NAD 601 A 1 HETATM 15 N N7A NAD . . . C 2 40.894 -17.897 0.96 1 52.84 ? N7A NAD 601 A 1 HETATM 16 C C5A NAD . . . C 2 40.41 -18.54 2.04 1 53.01 ? C5A NAD 601 A 1 HETATM 17 C C6A NAD . . . C 2 39.496 -19.569 2.29 1 55.51 ? C6A NAD 601 A 1 HETATM 18 N N6A NAD . . . C 2 38.816 -20.19 1.301 1 52.86 ? N6A NAD 601 A 1 HETATM 19 N N1A NAD . . . C 2 39.287 -19.966 3.564 1 51.25 ? N1A NAD 601 A 1 HETATM 20 C C2A NAD . . . C 2 39.927 -19.383 4.598 1 52.79 ? C2A NAD 601 A 1 HETATM 21 N N3A NAD . . . C 2 40.822 -18.392 4.445 1 48.34 ? N3A NAD 601 A 1 HETATM 22 C C4A NAD . . . C 2 41.095 -17.938 3.2 1 52.88 ? C4A NAD 601 A 1 HETATM 23 O O3 NAD . . . C 2 41.56 -11.07 1.012 1 50.19 ? O3 NAD 601 A 1 HETATM 24 P PN NAD . . . C 2 42.923 -10.275 0.98 1 47.92 ? PN NAD 601 A 1 HETATM 25 O O1N NAD . . . C 2 44.106 -11.02 1.52 1 45.21 ? O1N NAD 601 A 1 HETATM 26 O O2N NAD . . . C 2 43.111 -10.145 -0.498 1 41.47 ? O2N NAD 601 A 1 HETATM 27 O O5D NAD . . . C 2 42.766 -8.805 1.602 1 49.72 ? O5D NAD 601 A 1 HETATM 28 C C5D NAD . . . C 2 41.995 -7.822 0.924 1 49.92 ? C5D NAD 601 A 1 HETATM 29 C C4D NAD . . . C 2 40.556 -7.901 1.389 1 49.75 ? C4D NAD 601 A 1 HETATM 30 O O4D NAD . . . C 2 40.467 -7.738 2.816 1 51.66 ? O4D NAD 601 A 1 HETATM 31 C C3D NAD . . . C 2 39.805 -6.73 0.797 1 48.25 ? C3D NAD 601 A 1 HETATM 32 O O3D NAD . . . C 2 38.516 -7.15 0.379 1 46.08 ? O3D NAD 601 A 1 HETATM 33 C C2D NAD . . . C 2 39.72 -5.732 1.931 1 48.46 ? C2D NAD 601 A 1 HETATM 34 O O2D NAD . . . C 2 38.636 -4.808 1.778 1 48.71 ? O2D NAD 601 A 1 HETATM 35 C C1D NAD . . . C 2 39.576 -6.654 3.125 1 50.36 ? C1D NAD 601 A 1 HETATM 36 N N1N NAD . . . C 2 39.9 -5.989 4.403 1 53.22 ? N1N NAD 601 A 1 HETATM 37 C C2N NAD . . . C 2 38.917 -5.726 5.293 1 53.01 ? C2N NAD 601 A 1 HETATM 38 C C3N NAD . . . C 2 39.194 -5.08 6.502 1 53.33 ? C3N NAD 601 A 1 HETATM 39 C C7N NAD . . . C 2 38.153 -4.78 7.541 1 50 ? C7N NAD 601 A 1 HETATM 40 O O7N NAD . . . C 2 38.512 -4.65 8.696 1 49.66 ? O7N NAD 601 A 1 HETATM 41 N N7N NAD . . . C 2 36.862 -4.681 7.26 1 51.32 ? N7N NAD 601 A 1 HETATM 42 C C4N NAD . . . C 2 40.523 -4.735 6.778 1 58.31 ? C4N NAD 601 A 1 HETATM 43 C C5N NAD . . . C 2 41.52 -5.024 5.856 1 54.45 ? C5N NAD 601 A 1 HETATM 44 C C6N NAD . . . C 2 41.184 -5.651 4.668 1 53.1 ? C6N NAD 601 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 361 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 44 #