data_9NTN # _model_server_result.job_id 6UPH2zRRNy-bYiIqetyQAQ _model_server_result.datetime_utc '2025-07-14 16:01:32' _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 9ntn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":402}' # _entry.id 9NTN # _exptl.entry_id 9NTN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 194.148 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidine-5-carboxylic acid' _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 90 _cell.entry_id 9NTN _cell.length_a 70.459 _cell.length_b 82.92 _cell.length_c 231.779 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9NTN _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 ? 4 F N N ? 4 H 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 C N GLY 1 G GLY 2 1_555 F C7A 2KA . G 2KA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale2 C SG CYS 190 G CYS 193 1_555 E S1P COA . G COA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? covale ? covale3 D N GLY 1 H GLY 2 1_555 H C7A 2KA . H 2KA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale4 D SG CYS 190 H CYS 193 1_555 G S1P COA . H COA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? # _chem_comp.formula 'C7 H6 N4 O3' _chem_comp.formula_weight 194.148 _chem_comp.id 2KA _chem_comp.mon_nstd_flag . _chem_comp.name '2-amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidine-5-carboxylic acid' _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 N9 C8 2KA sing 1 n y N9 C4 2KA sing 2 n y C8 C7 2KA doub 3 n y C4 N3 2KA sing 4 n n C4 C5 2KA doub 5 n y C7 C5 2KA sing 6 n y C7 C7A 2KA sing 7 n n N3 C2 2KA doub 8 n n O7A C7A 2KA doub 9 n n C5 C6 2KA sing 10 n n C7A O7B 2KA sing 11 n n C2 N2 2KA sing 12 n n C2 N1 2KA sing 13 n n C6 N1 2KA sing 14 n n C6 O6 2KA doub 15 n n O7B H1 2KA sing 16 n n C8 H2 2KA sing 17 n n N9 H3 2KA sing 18 n n N2 H4 2KA sing 19 n n N2 H5 2KA sing 20 n n N1 H6 2KA sing 21 n n # _atom_sites.entry_id 9NTN _atom_sites.fract_transf_matrix[1][1] 0.014193 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01206 _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] 0.004314 _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 3 COA G 1 401 1 COA COA . F 4 2KA G 1 402 2 2KA E2Y . G 3 COA H 1 401 1 COA COA . H 4 2KA H 1 402 2 2KA E2Y . I 5 HOH A 1 401 378 HOH HOH . I 5 HOH A 2 402 118 HOH HOH . I 5 HOH A 3 403 476 HOH HOH . I 5 HOH A 4 404 37 HOH HOH . I 5 HOH A 5 405 176 HOH HOH . I 5 HOH A 6 406 12 HOH HOH . I 5 HOH A 7 407 39 HOH HOH . I 5 HOH A 8 408 47 HOH HOH . I 5 HOH A 9 409 227 HOH HOH . I 5 HOH A 10 410 25 HOH HOH . I 5 HOH A 11 411 81 HOH HOH . I 5 HOH A 12 412 852 HOH HOH . I 5 HOH A 13 413 11 HOH HOH . I 5 HOH A 14 414 129 HOH HOH . I 5 HOH A 15 415 324 HOH HOH . I 5 HOH A 16 416 384 HOH HOH . I 5 HOH A 17 417 500 HOH HOH . I 5 HOH A 18 418 139 HOH HOH . I 5 HOH A 19 419 365 HOH HOH . I 5 HOH A 20 420 465 HOH HOH . I 5 HOH A 21 421 989 HOH HOH . I 5 HOH A 22 422 34 HOH HOH . I 5 HOH A 23 423 36 HOH HOH . I 5 HOH A 24 424 16 HOH HOH . I 5 HOH A 25 425 10 HOH HOH . I 5 HOH A 26 426 19 HOH HOH . I 5 HOH A 27 427 948 HOH HOH . I 5 HOH A 28 428 256 HOH HOH . I 5 HOH A 29 429 982 HOH HOH . I 5 HOH A 30 430 585 HOH HOH . I 5 HOH A 31 431 973 HOH HOH . I 5 HOH A 32 432 5 HOH HOH . I 5 HOH A 33 433 132 HOH HOH . I 5 HOH A 34 434 159 HOH HOH . I 5 HOH A 35 435 338 HOH HOH . I 5 HOH A 36 436 161 HOH HOH . I 5 HOH A 37 437 125 HOH HOH . I 5 HOH A 38 438 20 HOH HOH . I 5 HOH A 39 439 984 HOH HOH . I 5 HOH A 40 440 299 HOH HOH . I 5 HOH A 41 441 62 HOH HOH . I 5 HOH A 42 442 280 HOH HOH . I 5 HOH A 43 443 98 HOH HOH . I 5 HOH A 44 444 974 HOH HOH . I 5 HOH A 45 445 61 HOH HOH . I 5 HOH A 46 446 985 HOH HOH . I 5 HOH A 47 447 296 HOH HOH . I 5 HOH A 48 448 138 HOH HOH . I 5 HOH A 49 449 228 HOH HOH . I 5 HOH A 50 450 477 HOH HOH . I 5 HOH A 51 451 332 HOH HOH . I 5 HOH A 52 452 979 HOH HOH . I 5 HOH A 53 453 127 HOH HOH . I 5 HOH A 54 454 63 HOH HOH . I 5 HOH A 55 455 990 HOH HOH . I 5 HOH A 56 456 980 HOH HOH . I 5 HOH A 57 457 981 HOH HOH . I 5 HOH A 58 458 114 HOH HOH . I 5 HOH A 59 459 361 HOH HOH . I 5 HOH A 60 460 571 HOH HOH . I 5 HOH A 61 461 889 HOH HOH . I 5 HOH A 62 462 327 HOH HOH . J 5 HOH B 1 401 52 HOH HOH . J 5 HOH B 2 402 637 HOH HOH . J 5 HOH B 3 403 95 HOH HOH . J 5 HOH B 4 404 483 HOH HOH . J 5 HOH B 5 405 119 HOH HOH . J 5 HOH B 6 406 329 HOH HOH . J 5 HOH B 7 407 976 HOH HOH . J 5 HOH B 8 408 50 HOH HOH . J 5 HOH B 9 409 803 HOH HOH . J 5 HOH B 10 410 173 HOH HOH . J 5 HOH B 11 411 73 HOH HOH . J 5 HOH B 12 412 992 HOH HOH . J 5 HOH B 13 413 55 HOH HOH . J 5 HOH B 14 414 233 HOH HOH . J 5 HOH B 15 415 793 HOH HOH . J 5 HOH B 16 416 67 HOH HOH . J 5 HOH B 17 417 128 HOH HOH . J 5 HOH B 18 418 3 HOH HOH . J 5 HOH B 19 419 89 HOH HOH . J 5 HOH B 20 420 157 HOH HOH . J 5 HOH B 21 421 987 HOH HOH . J 5 HOH B 22 422 441 HOH HOH . J 5 HOH B 23 423 117 HOH HOH . J 5 HOH B 24 424 57 HOH HOH . J 5 HOH B 25 425 2 HOH HOH . J 5 HOH B 26 426 86 HOH HOH . J 5 HOH B 27 427 49 HOH HOH . J 5 HOH B 28 428 182 HOH HOH . J 5 HOH B 29 429 761 HOH HOH . J 5 HOH B 30 430 455 HOH HOH . J 5 HOH B 31 431 399 HOH HOH . J 5 HOH B 32 432 230 HOH HOH . J 5 HOH B 33 433 301 HOH HOH . J 5 HOH B 34 434 84 HOH HOH . J 5 HOH B 35 435 409 HOH HOH . J 5 HOH B 36 436 491 HOH HOH . J 5 HOH B 37 437 101 HOH HOH . J 5 HOH B 38 438 142 HOH HOH . J 5 HOH B 39 439 854 HOH HOH . J 5 HOH B 40 440 92 HOH HOH . J 5 HOH B 41 441 449 HOH HOH . J 5 HOH B 42 442 23 HOH HOH . J 5 HOH B 43 443 841 HOH HOH . J 5 HOH B 44 444 121 HOH HOH . J 5 HOH B 45 445 102 HOH HOH . J 5 HOH B 46 446 239 HOH HOH . J 5 HOH B 47 447 667 HOH HOH . J 5 HOH B 48 448 467 HOH HOH . J 5 HOH B 49 449 21 HOH HOH . J 5 HOH B 50 450 440 HOH HOH . J 5 HOH B 51 451 8 HOH HOH . J 5 HOH B 52 452 988 HOH HOH . J 5 HOH B 53 453 991 HOH HOH . J 5 HOH B 54 454 983 HOH HOH . J 5 HOH B 55 455 454 HOH HOH . J 5 HOH B 56 456 485 HOH HOH . J 5 HOH B 57 457 354 HOH HOH . J 5 HOH B 58 458 977 HOH HOH . J 5 HOH B 59 459 978 HOH HOH . J 5 HOH B 60 460 970 HOH HOH . J 5 HOH B 61 461 551 HOH HOH . K 5 HOH G 1 501 374 HOH HOH . K 5 HOH G 2 502 48 HOH HOH . K 5 HOH G 3 503 744 HOH HOH . K 5 HOH G 4 504 91 HOH HOH . K 5 HOH G 5 505 223 HOH HOH . K 5 HOH G 6 506 134 HOH HOH . K 5 HOH G 7 507 1 HOH HOH . K 5 HOH G 8 508 109 HOH HOH . K 5 HOH G 9 509 58 HOH HOH . K 5 HOH G 10 510 124 HOH HOH . K 5 HOH G 11 511 311 HOH HOH . K 5 HOH G 12 512 412 HOH HOH . K 5 HOH G 13 513 937 HOH HOH . K 5 HOH G 14 514 229 HOH HOH . K 5 HOH G 15 515 85 HOH HOH . K 5 HOH G 16 516 866 HOH HOH . K 5 HOH G 17 517 986 HOH HOH . K 5 HOH G 18 518 655 HOH HOH . K 5 HOH G 19 519 97 HOH HOH . K 5 HOH G 20 520 51 HOH HOH . K 5 HOH G 21 521 6 HOH HOH . K 5 HOH G 22 522 76 HOH HOH . K 5 HOH G 23 523 787 HOH HOH . K 5 HOH G 24 524 386 HOH HOH . K 5 HOH G 25 525 99 HOH HOH . K 5 HOH G 26 526 651 HOH HOH . K 5 HOH G 27 527 66 HOH HOH . K 5 HOH G 28 528 424 HOH HOH . K 5 HOH G 29 529 376 HOH HOH . K 5 HOH G 30 530 13 HOH HOH . K 5 HOH G 31 531 490 HOH HOH . K 5 HOH G 32 532 972 HOH HOH . K 5 HOH G 33 533 843 HOH HOH . K 5 HOH G 34 534 661 HOH HOH . K 5 HOH G 35 535 68 HOH HOH . K 5 HOH G 36 536 26 HOH HOH . K 5 HOH G 37 537 975 HOH HOH . K 5 HOH G 38 538 971 HOH HOH . K 5 HOH G 39 539 514 HOH HOH . K 5 HOH G 40 540 17 HOH HOH . L 5 HOH H 1 701 701 HOH HOH . L 5 HOH H 2 702 110 HOH HOH . L 5 HOH H 3 703 859 HOH HOH . L 5 HOH H 4 704 389 HOH HOH . L 5 HOH H 5 705 53 HOH HOH . L 5 HOH H 6 706 536 HOH HOH . L 5 HOH H 7 707 348 HOH HOH . L 5 HOH H 8 708 94 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 C C7A 2KA . . . H 4 -31.715 -3.592 12.117 1 56.54 ? C7A 2KA 402 H 1 HETATM 2 O O7A 2KA . . . H 4 -32.354 -2.597 12.05 1 62.02 ? O7A 2KA 402 H 1 HETATM 3 C C7 2KA . . . H 4 -31.752 -4.59 10.96 1 49.71 ? C7 2KA 402 H 1 HETATM 4 C C5 2KA . . . H 4 -30.886 -5.657 10.735 1 45.82 ? C5 2KA 402 H 1 HETATM 5 C C8 2KA . . . H 4 -32.689 -4.589 9.933 1 44.56 ? C8 2KA 402 H 1 HETATM 6 N N9 2KA . . . H 4 -32.397 -5.616 9.115 1 59.85 ? N9 2KA 402 H 1 HETATM 7 C C4 2KA . . . H 4 -31.301 -6.286 9.579 1 58.4 ? C4 2KA 402 H 1 HETATM 8 N N3 2KA . . . H 4 -30.567 -7.475 9.067 1 44.54 ? N3 2KA 402 H 1 HETATM 9 C C2 2KA . . . H 4 -29.404 -7.986 9.787 1 60.01 ? C2 2KA 402 H 1 HETATM 10 N N2 2KA . . . H 4 -28.694 -9.145 9.278 1 49.96 ? N2 2KA 402 H 1 HETATM 11 N N1 2KA . . . H 4 -28.96 -7.334 10.996 1 52.23 ? N1 2KA 402 H 1 HETATM 12 C C6 2KA . . . H 4 -29.665 -6.19 11.488 1 51.09 ? C6 2KA 402 H 1 HETATM 13 O O6 2KA . . . H 4 -29.301 -5.658 12.48 1 51.63 ? O6 2KA 402 H 1 # _model_server_stats.io_time_ms 156 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 336 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 13 #