data_5EHC # _model_server_result.job_id 3mGLXTc1sQiM0q9EMOHZlA _model_server_result.datetime_utc '2024-12-01 06:32:01' _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 5ehc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 5EHC # _exptl.entry_id 5EHC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 503.873 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 3-[[(2~{R},3~{S},4~{R},5~{R})-5-[2-azanyl-7-[(3-chlorophenyl)methyl]-6-oxidanylidene-1~{H}-purin-7-ium-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methylamino]-4-oxidanyl-cyclobut-3-ene-1,2-dione _entity.pdbx_number_of_molecules 1 _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 5EHC _cell.length_a 38.489 _cell.length_b 52.177 _cell.length_c 125.698 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5EHC _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 2 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 _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C21 H20 Cl N6 O7 1' _chem_comp.formula_weight 503.873 _chem_comp.id 5NX _chem_comp.mon_nstd_flag . _chem_comp.name 3-[[(2~{R},3~{S},4~{R},5~{R})-5-[2-azanyl-7-[(3-chlorophenyl)methyl]-6-oxidanylidene-1~{H}-purin-7-ium-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methylamino]-4-oxidanyl-cyclobut-3-ene-1,2-dione _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 OAC CAZ 5NX doub 1 n n CAK CAI 5NX doub 2 n y CAK CAV 5NX sing 3 n y CAI CAJ 5NX sing 4 n y CAZ CBA 5NX sing 5 n n CAZ CAW 5NX sing 6 n n OAD CBA 5NX doub 7 n n CAO CAV 5NX sing 8 n n CAO N7 5NX sing 9 n n CBA CAX 5NX sing 10 n n CAV CAL 5NX doub 11 n y CAJ CAU 5NX doub 12 n y CAW OAE 5NX sing 13 n n CAW CAX 5NX doub 14 n n O6 C6 5NX doub 15 n n CAX NAQ 5NX sing 16 n n N7 C8 5NX doub 17 n y N7 C5 5NX sing 18 n y CAL CAU 5NX sing 19 n y CAU CL 5NX sing 20 n n C6 C5 5NX sing 21 n n C6 N1 5NX sing 22 n n C8 N9 5NX sing 23 n y NAQ CAN 5NX sing 24 n n C5 C4 5NX doub 25 n y N1 C2 5NX sing 26 n n N9 C4 5NX sing 27 n y N9 CBG 5NX sing 28 n n C4 N3 5NX sing 29 n n CAN CBF 5NX sing 30 n n OAS CBG 5NX sing 31 n n OAS CBF 5NX sing 32 n n C2 N3 5NX doub 33 n n C2 N2 5NX sing 34 n n CBG CBE 5NX sing 35 n n CBF CBD 5NX sing 36 n n CBD CBE 5NX sing 37 n n CBD OAF 5NX sing 38 n n CBE OAG 5NX sing 39 n n C8 H1 5NX sing 40 n n N1 H2 5NX sing 41 n n N2 H3 5NX sing 42 n n N2 H4 5NX sing 43 n n CAL H5 5NX sing 44 n n CAJ H6 5NX sing 45 n n CAI H7 5NX sing 46 n n CAK H8 5NX sing 47 n n CAO H9 5NX sing 48 n n CAO H10 5NX sing 49 n n CBG H11 5NX sing 50 n n CBE H12 5NX sing 51 n n OAG H13 5NX sing 52 n n CBD H14 5NX sing 53 n n OAF H15 5NX sing 54 n n CBF H16 5NX sing 55 n n CAN H17 5NX sing 56 n n CAN H18 5NX sing 57 n n NAQ H19 5NX sing 58 n n OAE H20 5NX sing 59 n n # _atom_sites.entry_id 5EHC _atom_sites.fract_transf_matrix[1][1] 0.025981 _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] 0.019166 _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] 0.007956 _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 3 5NX A 1 301 1 5NX DRG . D 4 HOH A 1 401 133 HOH HOH . D 4 HOH A 2 402 125 HOH HOH . D 4 HOH A 3 403 69 HOH HOH . D 4 HOH A 4 404 124 HOH HOH . D 4 HOH A 5 405 103 HOH HOH . D 4 HOH A 6 406 15 HOH HOH . D 4 HOH A 7 407 97 HOH HOH . D 4 HOH A 8 408 90 HOH HOH . D 4 HOH A 9 409 67 HOH HOH . D 4 HOH A 10 410 70 HOH HOH . D 4 HOH A 11 411 32 HOH HOH . D 4 HOH A 12 412 6 HOH HOH . D 4 HOH A 13 413 13 HOH HOH . D 4 HOH A 14 414 48 HOH HOH . D 4 HOH A 15 415 115 HOH HOH . D 4 HOH A 16 416 20 HOH HOH . D 4 HOH A 17 417 134 HOH HOH . D 4 HOH A 18 418 23 HOH HOH . D 4 HOH A 19 419 117 HOH HOH . D 4 HOH A 20 420 1 HOH HOH . D 4 HOH A 21 421 99 HOH HOH . D 4 HOH A 22 422 114 HOH HOH . D 4 HOH A 23 423 42 HOH HOH . D 4 HOH A 24 424 59 HOH HOH . D 4 HOH A 25 425 129 HOH HOH . D 4 HOH A 26 426 89 HOH HOH . D 4 HOH A 27 427 27 HOH HOH . D 4 HOH A 28 428 40 HOH HOH . D 4 HOH A 29 429 118 HOH HOH . D 4 HOH A 30 430 36 HOH HOH . D 4 HOH A 31 431 111 HOH HOH . D 4 HOH A 32 432 46 HOH HOH . D 4 HOH A 33 433 105 HOH HOH . D 4 HOH A 34 434 73 HOH HOH . D 4 HOH A 35 435 66 HOH HOH . D 4 HOH A 36 436 83 HOH HOH . D 4 HOH A 37 437 79 HOH HOH . D 4 HOH A 38 438 62 HOH HOH . D 4 HOH A 39 439 26 HOH HOH . D 4 HOH A 40 440 98 HOH HOH . D 4 HOH A 41 441 21 HOH HOH . D 4 HOH A 42 442 45 HOH HOH . D 4 HOH A 43 443 84 HOH HOH . D 4 HOH A 44 444 14 HOH HOH . D 4 HOH A 45 445 18 HOH HOH . D 4 HOH A 46 446 60 HOH HOH . D 4 HOH A 47 447 64 HOH HOH . D 4 HOH A 48 448 136 HOH HOH . D 4 HOH A 49 449 17 HOH HOH . D 4 HOH A 50 450 50 HOH HOH . D 4 HOH A 51 451 76 HOH HOH . D 4 HOH A 52 452 10 HOH HOH . D 4 HOH A 53 453 86 HOH HOH . D 4 HOH A 54 454 85 HOH HOH . D 4 HOH A 55 455 58 HOH HOH . D 4 HOH A 56 456 19 HOH HOH . D 4 HOH A 57 457 9 HOH HOH . D 4 HOH A 58 458 57 HOH HOH . D 4 HOH A 59 459 4 HOH HOH . D 4 HOH A 60 460 75 HOH HOH . D 4 HOH A 61 461 49 HOH HOH . D 4 HOH A 62 462 88 HOH HOH . D 4 HOH A 63 463 51 HOH HOH . D 4 HOH A 64 464 38 HOH HOH . D 4 HOH A 65 465 3 HOH HOH . D 4 HOH A 66 466 39 HOH HOH . D 4 HOH A 67 467 16 HOH HOH . D 4 HOH A 68 468 52 HOH HOH . D 4 HOH A 69 469 55 HOH HOH . D 4 HOH A 70 470 8 HOH HOH . D 4 HOH A 71 471 5 HOH HOH . D 4 HOH A 72 472 34 HOH HOH . D 4 HOH A 73 473 31 HOH HOH . D 4 HOH A 74 474 41 HOH HOH . D 4 HOH A 75 475 80 HOH HOH . D 4 HOH A 76 476 72 HOH HOH . D 4 HOH A 77 477 24 HOH HOH . D 4 HOH A 78 478 28 HOH HOH . D 4 HOH A 79 479 37 HOH HOH . D 4 HOH A 80 480 35 HOH HOH . D 4 HOH A 81 481 33 HOH HOH . D 4 HOH A 82 482 123 HOH HOH . D 4 HOH A 83 483 74 HOH HOH . D 4 HOH A 84 484 112 HOH HOH . D 4 HOH A 85 485 65 HOH HOH . D 4 HOH A 86 486 30 HOH HOH . D 4 HOH A 87 487 96 HOH HOH . D 4 HOH A 88 488 54 HOH HOH . D 4 HOH A 89 489 106 HOH HOH . D 4 HOH A 90 490 22 HOH HOH . D 4 HOH A 91 491 116 HOH HOH . D 4 HOH A 92 492 110 HOH HOH . D 4 HOH A 93 493 12 HOH HOH . D 4 HOH A 94 494 47 HOH HOH . D 4 HOH A 95 495 108 HOH HOH . D 4 HOH A 96 496 43 HOH HOH . D 4 HOH A 97 497 126 HOH HOH . D 4 HOH A 98 498 139 HOH HOH . D 4 HOH A 99 499 130 HOH HOH . D 4 HOH A 100 500 7 HOH HOH . D 4 HOH A 101 501 95 HOH HOH . D 4 HOH A 102 502 132 HOH HOH . D 4 HOH A 103 503 122 HOH HOH . D 4 HOH A 104 504 92 HOH HOH . D 4 HOH A 105 505 29 HOH HOH . D 4 HOH A 106 506 120 HOH HOH . D 4 HOH A 107 507 113 HOH HOH . D 4 HOH A 108 508 109 HOH HOH . D 4 HOH A 109 509 71 HOH HOH . D 4 HOH A 110 510 104 HOH HOH . D 4 HOH A 111 511 119 HOH HOH . D 4 HOH A 112 512 81 HOH HOH . D 4 HOH A 113 513 131 HOH HOH . D 4 HOH A 114 514 87 HOH HOH . D 4 HOH A 115 515 135 HOH HOH . D 4 HOH A 116 516 77 HOH HOH . D 4 HOH A 117 517 94 HOH HOH . D 4 HOH A 118 518 91 HOH HOH . D 4 HOH A 119 519 82 HOH HOH . D 4 HOH A 120 520 68 HOH HOH . D 4 HOH A 121 521 127 HOH HOH . D 4 HOH A 122 522 121 HOH HOH . D 4 HOH A 123 523 78 HOH HOH . D 4 HOH A 124 524 102 HOH HOH . D 4 HOH A 125 525 93 HOH HOH . D 4 HOH A 126 526 128 HOH HOH . E 4 HOH B 1 701 56 HOH HOH . E 4 HOH B 2 702 44 HOH HOH . E 4 HOH B 3 703 2 HOH HOH . E 4 HOH B 4 704 107 HOH HOH . E 4 HOH B 5 705 61 HOH HOH . E 4 HOH B 6 706 53 HOH HOH . E 4 HOH B 7 707 25 HOH HOH . E 4 HOH B 8 708 11 HOH HOH . E 4 HOH B 9 709 101 HOH HOH . E 4 HOH B 10 710 63 HOH HOH . E 4 HOH B 11 711 100 HOH HOH . E 4 HOH B 12 712 137 HOH HOH . E 4 HOH B 13 713 138 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 C4 5NX . . . C 3 4.433 -10.054 -3.93 1 33.63 ? C4 5NX 301 A 1 HETATM 2 C C5 5NX . . . C 3 4.046 -10.816 -4.976 1 33.66 ? C5 5NX 301 A 1 HETATM 3 C C6 5NX . . . C 3 2.753 -11.12 -5.144 1 30.91 ? C6 5NX 301 A 1 HETATM 4 C C8 5NX . . . C 3 6.191 -10.578 -5.042 1 40.43 ? C8 5NX 301 A 1 HETATM 5 N N1 5NX . . . C 3 1.781 -10.663 -4.227 1 30.7 ? N1 5NX 301 A 1 HETATM 6 N N2 5NX . . . C 3 1.326 -9.359 -2.298 1 30.08 ? N2 5NX 301 A 1 HETATM 7 N N3 5NX . . . C 3 3.516 -9.579 -3.056 1 29.88 ? N3 5NX 301 A 1 HETATM 8 C CAL 5NX . . . C 3 5.516 -13.987 -5.526 1 34.1 ? CAL 5NX 301 A 1 HETATM 9 C CAU 5NX . . . C 3 5.525 -15.375 -5.419 1 38.38 ? CAU 5NX 301 A 1 HETATM 10 CL CL 5NX . . . C 3 5.828 -16.114 -3.89 1 60.03 ? CL 5NX 301 A 1 HETATM 11 C CAJ 5NX . . . C 3 5.29 -16.17 -6.537 1 27.05 ? CAJ 5NX 301 A 1 HETATM 12 C CAI 5NX . . . C 3 5.044 -15.589 -7.777 1 26.08 ? CAI 5NX 301 A 1 HETATM 13 C CAK 5NX . . . C 3 5.037 -14.201 -7.875 1 31.37 ? CAK 5NX 301 A 1 HETATM 14 C CAV 5NX . . . C 3 5.271 -13.399 -6.76 1 30.04 ? CAV 5NX 301 A 1 HETATM 15 C CAO 5NX . . . C 3 5.251 -11.994 -6.924 1 29.76 ? CAO 5NX 301 A 1 HETATM 16 N N7 5NX . . . C 3 5.149 -11.158 -5.654 1 36.14 ? N7 5NX 301 A 1 HETATM 17 O O6 5NX . . . C 3 2.397 -11.819 -6.091 1 25.71 ? O6 5NX 301 A 1 HETATM 18 C C2 5NX . . . C 3 2.197 -9.82 -3.191 1 32.36 ? C2 5NX 301 A 1 HETATM 19 N N9 5NX . . . C 3 5.767 -9.866 -3.992 1 37.59 ? N9 5NX 301 A 1 HETATM 20 C CBG 5NX . . . C 3 6.643 -9.161 -3.013 1 43.62 ? CBG 5NX 301 A 1 HETATM 21 O OAS 5NX . . . C 3 8.048 -9.108 -3.381 1 51.35 ? OAS 5NX 301 A 1 HETATM 22 C CBE 5NX . . . C 3 6.714 -10.026 -1.765 1 48.8 ? CBE 5NX 301 A 1 HETATM 23 O OAG 5NX . . . C 3 7.158 -9.236 -0.655 1 57.37 ? OAG 5NX 301 A 1 HETATM 24 C CBD 5NX . . . C 3 7.788 -11.042 -2.135 1 56.04 ? CBD 5NX 301 A 1 HETATM 25 O OAF 5NX . . . C 3 8.284 -11.675 -0.95 1 53 ? OAF 5NX 301 A 1 HETATM 26 C CBF 5NX . . . C 3 8.85 -10.13 -2.711 1 52.05 ? CBF 5NX 301 A 1 HETATM 27 C CAN 5NX . . . C 3 9.856 -10.873 -3.655 1 52.66 ? CAN 5NX 301 A 1 HETATM 28 N NAQ 5NX . . . C 3 9.772 -10.344 -5.032 1 49.41 ? NAQ 5NX 301 A 1 HETATM 29 C CAX 5NX . . . C 3 10.713 -10.462 -5.967 1 52.49 ? CAX 5NX 301 A 1 HETATM 30 C CBA 5NX . . . C 3 11.307 -9.57 -6.852 1 52.02 ? CBA 5NX 301 A 1 HETATM 31 O OAD 5NX . . . C 3 11.172 -8.373 -7.102 1 53.91 ? OAD 5NX 301 A 1 HETATM 32 C CAZ 5NX . . . C 3 12.113 -10.589 -7.338 1 49.01 ? CAZ 5NX 301 A 1 HETATM 33 O OAC 5NX . . . C 3 12.984 -10.671 -8.202 1 45.46 ? OAC 5NX 301 A 1 HETATM 34 C CAW 5NX . . . C 3 11.522 -11.483 -6.45 1 59.55 ? CAW 5NX 301 A 1 HETATM 35 O OAE 5NX . . . C 3 11.672 -12.806 -6.173 1 70.15 ? OAE 5NX 301 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 334 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 35 #