data_3HVG # _model_server_result.job_id SGoqmuN47Keeu2uyIaKl5Q _model_server_result.datetime_utc '2024-10-19 01:31:10' _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 3hvg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":441}' # _entry.id 3HVG # _exptl.entry_id 3HVG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 153.182 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-amino-6-propylpyrimidin-4(3H)-one _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 103.73 _cell.angle_gamma 90 _cell.entry_id 3HVG _cell.length_a 232.55 _cell.length_b 100.13 _cell.length_c 64.78 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3HVG _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,H 1 1 B,E,F,I 2 1 C,G,J 3 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 ? 2 D N N ? 2 E N N ? 2 F 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 disulf ? disulf1 A SG CYS 174 A CYS 155 1_555 A SG CYS 378 A CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf2 A SG CYS 236 A CYS 217 1_555 A SG CYS 401 A CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf3 A SG CYS 288 A CYS 269 1_555 A SG CYS 338 A CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf4 B SG CYS 174 B CYS 155 1_555 B SG CYS 378 B CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf5 B SG CYS 236 B CYS 217 1_555 B SG CYS 401 B CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.763 ? disulf ? disulf6 B SG CYS 288 B CYS 269 1_555 B SG CYS 338 B CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf7 C SG CYS 174 C CYS 155 1_555 C SG CYS 378 C CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 C SG CYS 236 C CYS 217 1_555 C SG CYS 401 C CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf9 C SG CYS 288 C CYS 269 1_555 C SG CYS 338 C CYS 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? # _chem_comp.formula 'C7 H11 N3 O' _chem_comp.formula_weight 153.182 _chem_comp.id EV0 _chem_comp.mon_nstd_flag . _chem_comp.name 2-amino-6-propylpyrimidin-4(3H)-one _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 O11 C3 EV0 doub 83 n n C3 C1 EV0 sing 84 n n C3 N5 EV0 sing 85 n n C1 C2 EV0 doub 86 n n N5 C6 EV0 sing 87 n n C6 N7 EV0 sing 88 n n C6 N4 EV0 doub 89 n n N4 C2 EV0 sing 90 n n C2 C8 EV0 sing 91 n n C8 C9 EV0 sing 92 n n C9 C10 EV0 sing 93 n n C1 H1 EV0 sing 94 n n N5 HN5 EV0 sing 95 n n N7 HN7 EV0 sing 96 n n N7 HN7A EV0 sing 97 n n C8 H8 EV0 sing 98 n n C8 H8A EV0 sing 99 n n C9 H9 EV0 sing 100 n n C9 H9A EV0 sing 101 n n C10 H10 EV0 sing 102 n n C10 H10A EV0 sing 103 n n C10 H10B EV0 sing 104 n n # _atom_sites.entry_id 3HVG _atom_sites.fract_transf_matrix[1][1] 0.0043 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00105 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009987 _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] 0.015891 _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 D 2 EV0 A 1 441 441 EV0 EV0 . E 2 EV0 B 1 441 441 EV0 EV0 . F 2 EV0 B 1 442 442 EV0 EV0 . G 3 GOL C 1 441 441 GOL GOL . H 4 HOH A 1 442 442 HOH HOH . H 4 HOH A 2 443 443 HOH HOH . H 4 HOH A 3 444 444 HOH HOH . H 4 HOH A 4 445 445 HOH HOH . H 4 HOH A 5 446 446 HOH HOH . H 4 HOH A 6 447 447 HOH HOH . H 4 HOH A 7 448 448 HOH HOH . H 4 HOH A 8 449 449 HOH HOH . H 4 HOH A 9 450 450 HOH HOH . H 4 HOH A 10 451 451 HOH HOH . H 4 HOH A 11 452 452 HOH HOH . H 4 HOH A 12 453 453 HOH HOH . H 4 HOH A 13 454 454 HOH HOH . H 4 HOH A 14 455 455 HOH HOH . H 4 HOH A 15 456 456 HOH HOH . H 4 HOH A 16 457 457 HOH HOH . H 4 HOH A 17 458 458 HOH HOH . H 4 HOH A 18 459 459 HOH HOH . H 4 HOH A 19 460 460 HOH HOH . H 4 HOH A 20 461 461 HOH HOH . H 4 HOH A 21 462 462 HOH HOH . H 4 HOH A 22 463 463 HOH HOH . H 4 HOH A 23 464 464 HOH HOH . H 4 HOH A 24 465 465 HOH HOH . H 4 HOH A 25 466 466 HOH HOH . H 4 HOH A 26 467 467 HOH HOH . H 4 HOH A 27 468 468 HOH HOH . H 4 HOH A 28 469 469 HOH HOH . H 4 HOH A 29 470 470 HOH HOH . H 4 HOH A 30 471 471 HOH HOH . H 4 HOH A 31 472 472 HOH HOH . H 4 HOH A 32 473 473 HOH HOH . H 4 HOH A 33 474 474 HOH HOH . H 4 HOH A 34 475 475 HOH HOH . H 4 HOH A 35 476 476 HOH HOH . H 4 HOH A 36 477 477 HOH HOH . H 4 HOH A 37 478 478 HOH HOH . H 4 HOH A 38 479 479 HOH HOH . H 4 HOH A 39 480 480 HOH HOH . H 4 HOH A 40 481 481 HOH HOH . H 4 HOH A 41 482 482 HOH HOH . H 4 HOH A 42 483 483 HOH HOH . H 4 HOH A 43 484 484 HOH HOH . H 4 HOH A 44 485 485 HOH HOH . H 4 HOH A 45 486 486 HOH HOH . H 4 HOH A 46 490 490 HOH HOH . I 4 HOH B 1 443 443 HOH HOH . I 4 HOH B 2 444 444 HOH HOH . I 4 HOH B 3 445 445 HOH HOH . I 4 HOH B 4 446 446 HOH HOH . I 4 HOH B 5 447 447 HOH HOH . I 4 HOH B 6 448 448 HOH HOH . I 4 HOH B 7 449 449 HOH HOH . I 4 HOH B 8 450 450 HOH HOH . I 4 HOH B 9 451 451 HOH HOH . I 4 HOH B 10 452 452 HOH HOH . I 4 HOH B 11 453 453 HOH HOH . I 4 HOH B 12 454 454 HOH HOH . I 4 HOH B 13 455 455 HOH HOH . I 4 HOH B 14 456 456 HOH HOH . I 4 HOH B 15 457 457 HOH HOH . I 4 HOH B 16 458 458 HOH HOH . I 4 HOH B 17 459 459 HOH HOH . I 4 HOH B 18 460 460 HOH HOH . I 4 HOH B 19 461 461 HOH HOH . I 4 HOH B 20 462 462 HOH HOH . I 4 HOH B 21 463 463 HOH HOH . I 4 HOH B 22 464 464 HOH HOH . I 4 HOH B 23 465 465 HOH HOH . I 4 HOH B 24 466 466 HOH HOH . I 4 HOH B 25 467 467 HOH HOH . I 4 HOH B 26 468 468 HOH HOH . I 4 HOH B 27 469 469 HOH HOH . I 4 HOH B 28 470 470 HOH HOH . I 4 HOH B 29 471 471 HOH HOH . I 4 HOH B 30 472 472 HOH HOH . I 4 HOH B 31 473 473 HOH HOH . I 4 HOH B 32 474 474 HOH HOH . I 4 HOH B 33 475 475 HOH HOH . I 4 HOH B 34 476 476 HOH HOH . I 4 HOH B 35 477 477 HOH HOH . I 4 HOH B 36 478 478 HOH HOH . I 4 HOH B 37 479 479 HOH HOH . I 4 HOH B 38 480 480 HOH HOH . I 4 HOH B 39 481 481 HOH HOH . I 4 HOH B 40 482 482 HOH HOH . I 4 HOH B 41 483 483 HOH HOH . I 4 HOH B 42 484 484 HOH HOH . I 4 HOH B 43 485 485 HOH HOH . I 4 HOH B 44 486 486 HOH HOH . I 4 HOH B 45 487 487 HOH HOH . I 4 HOH B 46 488 488 HOH HOH . I 4 HOH B 47 489 489 HOH HOH . I 4 HOH B 48 491 491 HOH HOH . I 4 HOH B 49 492 492 HOH HOH . I 4 HOH B 50 493 493 HOH HOH . I 4 HOH B 51 494 494 HOH HOH . I 4 HOH B 52 495 495 HOH HOH . I 4 HOH B 53 496 496 HOH HOH . I 4 HOH B 54 497 497 HOH HOH . I 4 HOH B 55 498 498 HOH HOH . I 4 HOH B 56 499 499 HOH HOH . I 4 HOH B 57 500 500 HOH HOH . I 4 HOH B 58 501 501 HOH HOH . I 4 HOH B 59 502 502 HOH HOH . I 4 HOH B 60 503 503 HOH HOH . I 4 HOH B 61 504 504 HOH HOH . I 4 HOH B 62 505 505 HOH HOH . I 4 HOH B 63 506 506 HOH HOH . I 4 HOH B 64 507 507 HOH HOH . I 4 HOH B 65 508 508 HOH HOH . I 4 HOH B 66 509 509 HOH HOH . I 4 HOH B 67 510 510 HOH HOH . J 4 HOH C 1 442 442 HOH HOH . J 4 HOH C 2 443 443 HOH HOH . J 4 HOH C 3 444 444 HOH HOH . J 4 HOH C 4 445 445 HOH HOH . J 4 HOH C 5 446 446 HOH HOH . J 4 HOH C 6 447 447 HOH HOH . J 4 HOH C 7 448 448 HOH HOH . J 4 HOH C 8 449 449 HOH HOH . J 4 HOH C 9 450 450 HOH HOH . J 4 HOH C 10 451 451 HOH HOH . J 4 HOH C 11 452 452 HOH HOH . J 4 HOH C 12 453 453 HOH HOH . J 4 HOH C 13 454 454 HOH HOH . J 4 HOH C 14 455 455 HOH HOH . J 4 HOH C 15 456 456 HOH HOH . J 4 HOH C 16 457 457 HOH HOH . J 4 HOH C 17 458 458 HOH HOH . J 4 HOH C 18 459 459 HOH HOH . J 4 HOH C 19 460 460 HOH HOH . J 4 HOH C 20 461 461 HOH HOH . J 4 HOH C 21 462 462 HOH HOH . J 4 HOH C 22 463 463 HOH HOH . J 4 HOH C 23 464 464 HOH HOH . J 4 HOH C 24 465 465 HOH HOH . J 4 HOH C 25 466 466 HOH HOH . J 4 HOH C 26 467 467 HOH HOH . J 4 HOH C 27 468 468 HOH HOH . J 4 HOH C 28 469 469 HOH HOH . J 4 HOH C 29 470 470 HOH HOH . J 4 HOH C 30 471 471 HOH HOH . J 4 HOH C 31 472 472 HOH HOH . J 4 HOH C 32 473 473 HOH HOH . J 4 HOH C 33 474 474 HOH HOH . J 4 HOH C 34 475 475 HOH HOH . J 4 HOH C 35 476 476 HOH HOH . J 4 HOH C 36 477 477 HOH HOH . J 4 HOH C 37 478 478 HOH HOH . J 4 HOH C 38 479 479 HOH HOH . J 4 HOH C 39 480 480 HOH HOH . J 4 HOH C 40 481 481 HOH HOH . J 4 HOH C 41 482 482 HOH HOH . J 4 HOH C 42 483 483 HOH HOH . J 4 HOH C 43 484 484 HOH HOH . J 4 HOH C 44 485 485 HOH HOH . J 4 HOH C 45 486 486 HOH HOH . J 4 HOH C 46 487 487 HOH HOH . J 4 HOH C 47 488 488 HOH HOH . J 4 HOH C 48 489 489 HOH HOH . J 4 HOH C 49 490 490 HOH HOH . J 4 HOH C 50 491 491 HOH HOH . J 4 HOH C 51 492 492 HOH HOH . J 4 HOH C 52 493 493 HOH HOH . J 4 HOH C 53 494 494 HOH HOH . J 4 HOH C 54 495 495 HOH HOH . J 4 HOH C 55 496 496 HOH HOH . J 4 HOH C 56 497 497 HOH HOH . J 4 HOH C 57 498 498 HOH HOH . J 4 HOH C 58 499 499 HOH HOH . J 4 HOH C 59 500 500 HOH HOH . J 4 HOH C 60 501 501 HOH HOH . J 4 HOH C 61 502 502 HOH HOH . J 4 HOH C 62 503 503 HOH HOH . J 4 HOH C 63 504 504 HOH HOH . J 4 HOH C 64 505 505 HOH HOH . J 4 HOH C 65 506 506 HOH HOH . J 4 HOH C 66 507 507 HOH HOH . J 4 HOH C 67 508 508 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 O O11 EV0 . . . D 2 -59.073 -40.819 39.712 1 49.43 ? O11 EV0 441 A 1 HETATM 2 C C3 EV0 . . . D 2 -59.932 -40.12 39.227 1 49.59 ? C3 EV0 441 A 1 HETATM 3 C C1 EV0 . . . D 2 -61.321 -40.592 39.141 1 49.16 ? C1 EV0 441 A 1 HETATM 4 N N5 EV0 . . . D 2 -59.612 -38.861 38.746 1 49.76 ? N5 EV0 441 A 1 HETATM 5 C C6 EV0 . . . D 2 -60.583 -38.042 38.187 1 49.45 ? C6 EV0 441 A 1 HETATM 6 N N7 EV0 . . . D 2 -60.232 -36.797 37.722 1 49.18 ? N7 EV0 441 A 1 HETATM 7 N N4 EV0 . . . D 2 -61.822 -38.44 38.098 1 49.23 ? N4 EV0 441 A 1 HETATM 8 C C2 EV0 . . . D 2 -62.231 -39.775 38.589 1 49.45 ? C2 EV0 441 A 1 HETATM 9 C C8 EV0 . . . D 2 -63.68 -40.187 38.462 1 49.89 ? C8 EV0 441 A 1 HETATM 10 C C9 EV0 . . . D 2 -64.325 -40.348 39.84 1 51.44 ? C9 EV0 441 A 1 HETATM 11 C C10 EV0 . . . D 2 -65.792 -40.754 39.675 1 52.81 ? C10 EV0 441 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 11 #