data_3W7N # _model_server_result.job_id CcREKgJUp8qnX9n4XEJVBA _model_server_result.datetime_utc '2024-10-15 11:26:50' _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 3w7n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 3W7N # _exptl.entry_id 3W7N _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 397.381 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '5-(2-{6-[(2-hydroxyethyl)carbamoyl]naphthalen-2-yl}ethyl)-2,6-dioxo-1,2,3,6-tetrahydropyrimidine-4-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 3W7N _cell.length_a 67.743 _cell.length_b 72.951 _cell.length_c 129.553 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3W7N _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,S,T _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 ? 2 C N N ? 2 Q N N # _chem_comp.formula 'C20 H19 N3 O6' _chem_comp.formula_weight 397.381 _chem_comp.id W7N _chem_comp.mon_nstd_flag . _chem_comp.name '5-(2-{6-[(2-hydroxyethyl)carbamoyl]naphthalen-2-yl}ethyl)-2,6-dioxo-1,2,3,6-tetrahydropyrimidine-4-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 OAE CAM W7N sing 439 n n OAB CAU W7N doub 440 n n CAH CAJ W7N doub 441 n y CAH CAW W7N sing 442 n y CAJ CBB W7N sing 443 n y CAM CAN W7N sing 444 n n CAU CAW W7N sing 445 n n CAU NAQ W7N sing 446 n n CAW CAL W7N doub 447 n y CBB CAK W7N doub 448 n y CBB CBC W7N sing 449 n y CAK CAV W7N sing 450 n y CAL CBC W7N sing 451 n y NAQ CAN W7N sing 452 n n CBC CAI W7N doub 453 n y CAV CAO W7N sing 454 n n CAV CAG W7N doub 455 n y CAO CAP W7N sing 456 n n CAI CAG W7N sing 457 n y CAP CAX W7N sing 458 n n OAD CBA W7N doub 459 n n CAX CBA W7N sing 460 n n CAX CAY W7N doub 461 n n CBA NAS W7N sing 462 n n OAF CAT W7N doub 463 n n CAY CAT W7N sing 464 n n CAY NAR W7N sing 465 n n CAT OAA W7N sing 466 n n NAS CAZ W7N sing 467 n n NAR CAZ W7N sing 468 n n CAZ OAC W7N doub 469 n n OAA H1 W7N sing 470 n n NAR H2 W7N sing 471 n n NAS H3 W7N sing 472 n n CAP H4 W7N sing 473 n n CAP H5 W7N sing 474 n n CAO H6 W7N sing 475 n n CAO H7 W7N sing 476 n n CAK H8 W7N sing 477 n n CAG H9 W7N sing 478 n n CAI H10 W7N sing 479 n n CAL H11 W7N sing 480 n n CAJ H12 W7N sing 481 n n CAH H13 W7N sing 482 n n NAQ H14 W7N sing 483 n n CAN H15 W7N sing 484 n n CAN H16 W7N sing 485 n n CAM H17 W7N sing 486 n n CAM H18 W7N sing 487 n n OAE H19 W7N sing 488 n n # _atom_sites.entry_id 3W7N _atom_sites.fract_transf_matrix[1][1] 0.014762 _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] 0.013708 _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] 0.007719 _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 W7N A 1 401 1 W7N DRG . D 3 GOL A 1 402 1 GOL GOL . E 3 GOL A 1 403 2 GOL GOL . F 3 GOL A 1 404 3 GOL GOL . G 3 GOL A 1 405 4 GOL GOL . H 3 GOL A 1 406 5 GOL GOL . I 3 GOL A 1 407 6 GOL GOL . J 3 GOL A 1 408 8 GOL GOL . K 3 GOL A 1 409 9 GOL GOL . L 3 GOL A 1 410 10 GOL GOL . M 3 GOL A 1 411 12 GOL GOL . N 3 GOL A 1 412 14 GOL GOL . O 4 FMN A 1 413 1 FMN FMN . P 5 NCO A 1 414 351 NCO NCO . Q 2 W7N B 1 401 2 W7N DRG . R 4 FMN B 1 402 2 FMN FMN . S 6 HOH A 1 501 1 HOH HOH . S 6 HOH A 2 502 2 HOH HOH . S 6 HOH A 3 503 5 HOH HOH . S 6 HOH A 4 504 7 HOH HOH . S 6 HOH A 5 505 10 HOH HOH . S 6 HOH A 6 506 11 HOH HOH . S 6 HOH A 7 507 12 HOH HOH . S 6 HOH A 8 508 20 HOH HOH . S 6 HOH A 9 509 21 HOH HOH . S 6 HOH A 10 510 22 HOH HOH . S 6 HOH A 11 511 23 HOH HOH . S 6 HOH A 12 512 24 HOH HOH . S 6 HOH A 13 513 27 HOH HOH . S 6 HOH A 14 514 28 HOH HOH . S 6 HOH A 15 515 29 HOH HOH . S 6 HOH A 16 516 30 HOH HOH . S 6 HOH A 17 517 31 HOH HOH . S 6 HOH A 18 518 32 HOH HOH . S 6 HOH A 19 519 33 HOH HOH . S 6 HOH A 20 520 35 HOH HOH . S 6 HOH A 21 521 43 HOH HOH . S 6 HOH A 22 522 45 HOH HOH . S 6 HOH A 23 523 47 HOH HOH . S 6 HOH A 24 524 48 HOH HOH . S 6 HOH A 25 525 49 HOH HOH . S 6 HOH A 26 526 51 HOH HOH . S 6 HOH A 27 527 53 HOH HOH . S 6 HOH A 28 528 55 HOH HOH . S 6 HOH A 29 529 56 HOH HOH . S 6 HOH A 30 530 57 HOH HOH . S 6 HOH A 31 531 62 HOH HOH . S 6 HOH A 32 532 67 HOH HOH . S 6 HOH A 33 533 70 HOH HOH . S 6 HOH A 34 534 72 HOH HOH . S 6 HOH A 35 535 73 HOH HOH . S 6 HOH A 36 536 74 HOH HOH . S 6 HOH A 37 537 77 HOH HOH . S 6 HOH A 38 538 79 HOH HOH . S 6 HOH A 39 539 83 HOH HOH . S 6 HOH A 40 540 84 HOH HOH . S 6 HOH A 41 541 85 HOH HOH . S 6 HOH A 42 542 86 HOH HOH . S 6 HOH A 43 543 87 HOH HOH . S 6 HOH A 44 544 88 HOH HOH . S 6 HOH A 45 545 89 HOH HOH . S 6 HOH A 46 546 90 HOH HOH . S 6 HOH A 47 547 91 HOH HOH . S 6 HOH A 48 548 93 HOH HOH . S 6 HOH A 49 549 94 HOH HOH . S 6 HOH A 50 550 96 HOH HOH . S 6 HOH A 51 551 97 HOH HOH . S 6 HOH A 52 552 99 HOH HOH . S 6 HOH A 53 553 100 HOH HOH . S 6 HOH A 54 554 104 HOH HOH . S 6 HOH A 55 555 105 HOH HOH . S 6 HOH A 56 556 106 HOH HOH . S 6 HOH A 57 557 109 HOH HOH . S 6 HOH A 58 558 110 HOH HOH . S 6 HOH A 59 559 112 HOH HOH . S 6 HOH A 60 560 113 HOH HOH . S 6 HOH A 61 561 114 HOH HOH . S 6 HOH A 62 562 117 HOH HOH . S 6 HOH A 63 563 121 HOH HOH . S 6 HOH A 64 564 123 HOH HOH . S 6 HOH A 65 565 126 HOH HOH . S 6 HOH A 66 566 128 HOH HOH . S 6 HOH A 67 567 131 HOH HOH . S 6 HOH A 68 568 132 HOH HOH . S 6 HOH A 69 569 136 HOH HOH . S 6 HOH A 70 570 140 HOH HOH . S 6 HOH A 71 571 144 HOH HOH . S 6 HOH A 72 572 145 HOH HOH . S 6 HOH A 73 573 147 HOH HOH . S 6 HOH A 74 574 148 HOH HOH . S 6 HOH A 75 575 152 HOH HOH . S 6 HOH A 76 576 156 HOH HOH . S 6 HOH A 77 577 157 HOH HOH . S 6 HOH A 78 578 158 HOH HOH . S 6 HOH A 79 579 159 HOH HOH . S 6 HOH A 80 580 161 HOH HOH . S 6 HOH A 81 581 168 HOH HOH . S 6 HOH A 82 582 171 HOH HOH . S 6 HOH A 83 583 172 HOH HOH . S 6 HOH A 84 584 175 HOH HOH . S 6 HOH A 85 585 176 HOH HOH . S 6 HOH A 86 586 178 HOH HOH . S 6 HOH A 87 587 179 HOH HOH . S 6 HOH A 88 588 180 HOH HOH . S 6 HOH A 89 589 181 HOH HOH . S 6 HOH A 90 590 182 HOH HOH . S 6 HOH A 91 591 183 HOH HOH . S 6 HOH A 92 592 185 HOH HOH . S 6 HOH A 93 593 188 HOH HOH . S 6 HOH A 94 594 189 HOH HOH . S 6 HOH A 95 595 192 HOH HOH . S 6 HOH A 96 596 193 HOH HOH . S 6 HOH A 97 597 194 HOH HOH . S 6 HOH A 98 598 195 HOH HOH . S 6 HOH A 99 599 201 HOH HOH . T 6 HOH B 1 501 3 HOH HOH . T 6 HOH B 2 502 4 HOH HOH . T 6 HOH B 3 503 6 HOH HOH . T 6 HOH B 4 504 8 HOH HOH . T 6 HOH B 5 505 9 HOH HOH . T 6 HOH B 6 506 13 HOH HOH . T 6 HOH B 7 507 14 HOH HOH . T 6 HOH B 8 508 15 HOH HOH . T 6 HOH B 9 509 16 HOH HOH . T 6 HOH B 10 510 17 HOH HOH . T 6 HOH B 11 511 18 HOH HOH . T 6 HOH B 12 512 19 HOH HOH . T 6 HOH B 13 513 25 HOH HOH . T 6 HOH B 14 514 26 HOH HOH . T 6 HOH B 15 515 34 HOH HOH . T 6 HOH B 16 516 36 HOH HOH . T 6 HOH B 17 517 37 HOH HOH . T 6 HOH B 18 518 38 HOH HOH . T 6 HOH B 19 519 39 HOH HOH . T 6 HOH B 20 520 40 HOH HOH . T 6 HOH B 21 521 41 HOH HOH . T 6 HOH B 22 522 42 HOH HOH . T 6 HOH B 23 523 44 HOH HOH . T 6 HOH B 24 524 46 HOH HOH . T 6 HOH B 25 525 50 HOH HOH . T 6 HOH B 26 526 52 HOH HOH . T 6 HOH B 27 527 54 HOH HOH . T 6 HOH B 28 528 58 HOH HOH . T 6 HOH B 29 529 59 HOH HOH . T 6 HOH B 30 530 60 HOH HOH . T 6 HOH B 31 531 61 HOH HOH . T 6 HOH B 32 532 63 HOH HOH . T 6 HOH B 33 533 64 HOH HOH . T 6 HOH B 34 534 65 HOH HOH . T 6 HOH B 35 535 66 HOH HOH . T 6 HOH B 36 536 68 HOH HOH . T 6 HOH B 37 537 69 HOH HOH . T 6 HOH B 38 538 71 HOH HOH . T 6 HOH B 39 539 75 HOH HOH . T 6 HOH B 40 540 76 HOH HOH . T 6 HOH B 41 541 78 HOH HOH . T 6 HOH B 42 542 80 HOH HOH . T 6 HOH B 43 543 81 HOH HOH . T 6 HOH B 44 544 82 HOH HOH . T 6 HOH B 45 545 92 HOH HOH . T 6 HOH B 46 546 95 HOH HOH . T 6 HOH B 47 547 98 HOH HOH . T 6 HOH B 48 548 101 HOH HOH . T 6 HOH B 49 549 102 HOH HOH . T 6 HOH B 50 550 103 HOH HOH . T 6 HOH B 51 551 107 HOH HOH . T 6 HOH B 52 552 108 HOH HOH . T 6 HOH B 53 553 111 HOH HOH . T 6 HOH B 54 554 115 HOH HOH . T 6 HOH B 55 555 116 HOH HOH . T 6 HOH B 56 556 118 HOH HOH . T 6 HOH B 57 557 119 HOH HOH . T 6 HOH B 58 558 120 HOH HOH . T 6 HOH B 59 559 122 HOH HOH . T 6 HOH B 60 560 124 HOH HOH . T 6 HOH B 61 561 125 HOH HOH . T 6 HOH B 62 562 127 HOH HOH . T 6 HOH B 63 563 129 HOH HOH . T 6 HOH B 64 564 130 HOH HOH . T 6 HOH B 65 565 133 HOH HOH . T 6 HOH B 66 566 134 HOH HOH . T 6 HOH B 67 567 135 HOH HOH . T 6 HOH B 68 568 137 HOH HOH . T 6 HOH B 69 569 138 HOH HOH . T 6 HOH B 70 570 139 HOH HOH . T 6 HOH B 71 571 141 HOH HOH . T 6 HOH B 72 572 142 HOH HOH . T 6 HOH B 73 573 143 HOH HOH . T 6 HOH B 74 574 146 HOH HOH . T 6 HOH B 75 575 149 HOH HOH . T 6 HOH B 76 576 150 HOH HOH . T 6 HOH B 77 577 151 HOH HOH . T 6 HOH B 78 578 153 HOH HOH . T 6 HOH B 79 579 154 HOH HOH . T 6 HOH B 80 580 155 HOH HOH . T 6 HOH B 81 581 160 HOH HOH . T 6 HOH B 82 582 162 HOH HOH . T 6 HOH B 83 583 163 HOH HOH . T 6 HOH B 84 584 164 HOH HOH . T 6 HOH B 85 585 165 HOH HOH . T 6 HOH B 86 586 166 HOH HOH . T 6 HOH B 87 587 167 HOH HOH . T 6 HOH B 88 588 169 HOH HOH . T 6 HOH B 89 589 170 HOH HOH . T 6 HOH B 90 590 173 HOH HOH . T 6 HOH B 91 591 174 HOH HOH . T 6 HOH B 92 592 177 HOH HOH . T 6 HOH B 93 593 184 HOH HOH . T 6 HOH B 94 594 186 HOH HOH . T 6 HOH B 95 595 187 HOH HOH . T 6 HOH B 96 596 190 HOH HOH . T 6 HOH B 97 597 191 HOH HOH . T 6 HOH B 98 598 196 HOH HOH . T 6 HOH B 99 599 197 HOH HOH . T 6 HOH B 100 600 198 HOH HOH . T 6 HOH B 101 601 199 HOH HOH . T 6 HOH B 102 602 200 HOH HOH . T 6 HOH B 103 603 202 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 OAA W7N . . . C 2 6.96 18.546 14.631 1 35.04 ? OAA W7N 401 A 1 HETATM 2 C CAT W7N . . . C 2 6.132 17.589 14.539 1 38.64 ? CAT W7N 401 A 1 HETATM 3 O OAF W7N . . . C 2 4.889 17.833 14.495 1 38.63 ? OAF W7N 401 A 1 HETATM 4 C CAY W7N . . . C 2 6.54 16.226 14.527 1 38.02 ? CAY W7N 401 A 1 HETATM 5 N NAR W7N . . . C 2 5.963 15.364 15.5 1 37.85 ? NAR W7N 401 A 1 HETATM 6 C CAZ W7N . . . C 2 6.276 13.996 15.548 1 34.83 ? CAZ W7N 401 A 1 HETATM 7 O OAC W7N . . . C 2 5.777 13.24 16.376 1 35.56 ? OAC W7N 401 A 1 HETATM 8 N NAS W7N . . . C 2 7.154 13.495 14.66 1 33.56 ? NAS W7N 401 A 1 HETATM 9 C CBA W7N . . . C 2 7.74 14.304 13.664 1 35.57 ? CBA W7N 401 A 1 HETATM 10 O OAD W7N . . . C 2 8.569 13.773 12.889 1 32.05 ? OAD W7N 401 A 1 HETATM 11 C CAX W7N . . . C 2 7.44 15.677 13.606 1 37.19 ? CAX W7N 401 A 1 HETATM 12 C CAP W7N . . . C 2 8.038 16.476 12.595 1 40.57 ? CAP W7N 401 A 1 HETATM 13 C CAO W7N . . . C 2 7.497 16.047 11.174 1 44.41 ? CAO W7N 401 A 1 HETATM 14 C CAV W7N . . . C 2 6.254 16.606 11.011 1 50.34 ? CAV W7N 401 A 1 HETATM 15 C CAK W7N . . . C 2 6.142 17.747 10.22 1 60.31 ? CAK W7N 401 A 1 HETATM 16 C CAG W7N . . . C 2 5.13 16.066 11.654 1 54.53 ? CAG W7N 401 A 1 HETATM 17 C CAI W7N . . . C 2 3.877 16.651 11.521 1 53.71 ? CAI W7N 401 A 1 HETATM 18 C CBC W7N . . . C 2 3.774 17.779 10.717 1 57.93 ? CBC W7N 401 A 1 HETATM 19 C CAL W7N . . . C 2 2.528 18.354 10.592 1 62.29 ? CAL W7N 401 A 1 HETATM 20 C CBB W7N . . . C 2 4.896 18.349 10.064 1 61.49 ? CBB W7N 401 A 1 HETATM 21 C CAJ W7N . . . C 2 4.794 19.494 9.261 1 58.46 ? CAJ W7N 401 A 1 HETATM 22 C CAH W7N . . . C 2 3.517 20.065 9.146 1 66.71 ? CAH W7N 401 A 1 HETATM 23 C CAW W7N . . . C 2 2.397 19.497 9.803 1 68 ? CAW W7N 401 A 1 HETATM 24 C CAU W7N . . . C 2 1.124 20.066 9.697 1 70.84 ? CAU W7N 401 A 1 HETATM 25 O OAB W7N . . . C 2 0.892 20.905 8.819 1 79.26 ? OAB W7N 401 A 1 HETATM 26 N NAQ W7N . . . C 2 0.243 19.694 10.674 1 60 ? NAQ W7N 401 A 1 HETATM 27 C CAN W7N . . . C 2 -1.147 20.185 10.741 1 66.69 ? CAN W7N 401 A 1 HETATM 28 C CAM W7N . . . C 2 -1.729 20.552 9.341 1 69.03 ? CAM W7N 401 A 1 HETATM 29 O OAE W7N . . . C 2 -2.03 19.384 8.539 1 60.52 ? OAE W7N 401 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 29 #