data_6FX7 # _model_server_result.job_id icex4kBPNH1AyEFAw8QPpw _model_server_result.datetime_utc '2024-12-22 09:40:17' _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 6fx7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 6FX7 # _exptl.entry_id 6FX7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 559.316 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE' _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 97.7 _cell.angle_gamma 90 _cell.entry_id 6FX7 _cell.length_a 141.312 _cell.length_b 39.535 _cell.length_c 35.964 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6FX7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 127 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 104 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 170 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 147 _struct_conn.ptnr2_symmetry 1_555 _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 2.02 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C15 H23 N5 O14 P2' _chem_comp.formula_weight 559.316 _chem_comp.id AR6 _chem_comp.mon_nstd_flag . _chem_comp.name '[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Adenosine-5-Diphosphoribose # 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 N1 C2 AR6 doub 13 n y N1 C6 AR6 sing 14 n y C2 N3 AR6 sing 15 n y N3 C4 AR6 doub 16 n y C4 C5 AR6 sing 17 n y C4 N9 AR6 sing 18 n y C5 C6 AR6 doub 19 n y C5 N7 AR6 sing 20 n y C6 N6 AR6 sing 21 n n N7 C8 AR6 doub 22 n y C8 N9 AR6 sing 23 n y N9 C1' AR6 sing 24 n n PA O1A AR6 sing 25 n n PA O2A AR6 doub 26 n n PA O3A AR6 sing 27 n n PA O5' AR6 sing 28 n n PB O1B AR6 sing 29 n n PB O2B AR6 doub 30 n n PB O3A AR6 sing 31 n n PB O5D AR6 sing 32 n n C1' C2' AR6 sing 33 n n C1' O4' AR6 sing 34 n n C1D O1D AR6 sing 35 n n C1D C2D AR6 sing 36 n n C1D O4D AR6 sing 37 n n C2' O2' AR6 sing 38 n n C2' C3' AR6 sing 39 n n C2D O2D AR6 sing 40 n n C2D C3D AR6 sing 41 n n C3' O3' AR6 sing 42 n n C3' C4' AR6 sing 43 n n C3D O3D AR6 sing 44 n n C3D C4D AR6 sing 45 n n C4' O4' AR6 sing 46 n n C4' C5' AR6 sing 47 n n C4D O4D AR6 sing 48 n n C4D C5D AR6 sing 49 n n C5' O5' AR6 sing 50 n n C5D O5D AR6 sing 51 n n C2 H2 AR6 sing 52 n n N6 HN6 AR6 sing 53 n n N6 HN6A AR6 sing 54 n n C8 H8 AR6 sing 55 n n C1' H1' AR6 sing 56 n n C1D H1D AR6 sing 57 n n C2' H2' AR6 sing 58 n n O2' HO2' AR6 sing 59 n n C2D H2D AR6 sing 60 n n O2D HO2D AR6 sing 61 n n C3' H3' AR6 sing 62 n n O3' HO3' AR6 sing 63 n n C3D H3D AR6 sing 64 n n O3D HO3D AR6 sing 65 n n C4' H4' AR6 sing 66 n n C4D H4D AR6 sing 67 n n C5' H5' AR6 sing 68 n n C5' "H5'A" AR6 sing 69 n n C5D H5D AR6 sing 70 n n C5D H5DA AR6 sing 71 n n O1A H1A AR6 sing 72 n n O1B H1B AR6 sing 73 n n O1D HD1 AR6 sing 74 n n # _atom_sites.entry_id 6FX7 _atom_sites.fract_transf_matrix[1][1] 0.007077 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000957 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.025294 _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] 0.028059 _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 B 2 AR6 A 1 301 301 AR6 AR6 . C 3 HOH A 1 401 47 HOH HOH . C 3 HOH A 2 402 1 HOH HOH . C 3 HOH A 3 403 12 HOH HOH . C 3 HOH A 4 404 45 HOH HOH . C 3 HOH A 5 405 3 HOH HOH . C 3 HOH A 6 406 74 HOH HOH . C 3 HOH A 7 407 22 HOH HOH . C 3 HOH A 8 408 29 HOH HOH . C 3 HOH A 9 409 28 HOH HOH . C 3 HOH A 10 410 34 HOH HOH . C 3 HOH A 11 411 18 HOH HOH . C 3 HOH A 12 412 24 HOH HOH . C 3 HOH A 13 413 5 HOH HOH . C 3 HOH A 14 414 9 HOH HOH . C 3 HOH A 15 415 30 HOH HOH . C 3 HOH A 16 416 65 HOH HOH . C 3 HOH A 17 417 93 HOH HOH . C 3 HOH A 18 418 63 HOH HOH . C 3 HOH A 19 419 16 HOH HOH . C 3 HOH A 20 420 15 HOH HOH . C 3 HOH A 21 421 38 HOH HOH . C 3 HOH A 22 422 61 HOH HOH . C 3 HOH A 23 423 19 HOH HOH . C 3 HOH A 24 424 8 HOH HOH . C 3 HOH A 25 425 25 HOH HOH . C 3 HOH A 26 426 26 HOH HOH . C 3 HOH A 27 427 87 HOH HOH . C 3 HOH A 28 428 4 HOH HOH . C 3 HOH A 29 429 20 HOH HOH . C 3 HOH A 30 430 64 HOH HOH . C 3 HOH A 31 431 57 HOH HOH . C 3 HOH A 32 432 51 HOH HOH . C 3 HOH A 33 433 54 HOH HOH . C 3 HOH A 34 434 53 HOH HOH . C 3 HOH A 35 435 40 HOH HOH . C 3 HOH A 36 436 70 HOH HOH . C 3 HOH A 37 437 59 HOH HOH . C 3 HOH A 38 438 13 HOH HOH . C 3 HOH A 39 439 89 HOH HOH . C 3 HOH A 40 440 14 HOH HOH . C 3 HOH A 41 441 7 HOH HOH . C 3 HOH A 42 442 77 HOH HOH . C 3 HOH A 43 443 6 HOH HOH . C 3 HOH A 44 444 80 HOH HOH . C 3 HOH A 45 445 99 HOH HOH . C 3 HOH A 46 446 27 HOH HOH . C 3 HOH A 47 447 100 HOH HOH . C 3 HOH A 48 448 78 HOH HOH . C 3 HOH A 49 449 36 HOH HOH . C 3 HOH A 50 450 48 HOH HOH . C 3 HOH A 51 451 33 HOH HOH . C 3 HOH A 52 452 58 HOH HOH . C 3 HOH A 53 453 49 HOH HOH . C 3 HOH A 54 454 86 HOH HOH . C 3 HOH A 55 455 41 HOH HOH . C 3 HOH A 56 456 43 HOH HOH . C 3 HOH A 57 457 71 HOH HOH . C 3 HOH A 58 458 55 HOH HOH . C 3 HOH A 59 459 97 HOH HOH . C 3 HOH A 60 460 96 HOH HOH . C 3 HOH A 61 461 75 HOH HOH . C 3 HOH A 62 462 79 HOH HOH . C 3 HOH A 63 463 39 HOH HOH . C 3 HOH A 64 464 23 HOH HOH . C 3 HOH A 65 465 56 HOH HOH . C 3 HOH A 66 466 10 HOH HOH . C 3 HOH A 67 467 69 HOH HOH . C 3 HOH A 68 468 11 HOH HOH . C 3 HOH A 69 469 67 HOH HOH . C 3 HOH A 70 470 17 HOH HOH . C 3 HOH A 71 471 37 HOH HOH . C 3 HOH A 72 472 32 HOH HOH . C 3 HOH A 73 473 94 HOH HOH . C 3 HOH A 74 474 66 HOH HOH . C 3 HOH A 75 475 81 HOH HOH . C 3 HOH A 76 476 2 HOH HOH . C 3 HOH A 77 477 76 HOH HOH . C 3 HOH A 78 478 44 HOH HOH . C 3 HOH A 79 479 31 HOH HOH . C 3 HOH A 80 480 35 HOH HOH . C 3 HOH A 81 481 60 HOH HOH . C 3 HOH A 82 482 83 HOH HOH . C 3 HOH A 83 483 21 HOH HOH . C 3 HOH A 84 484 62 HOH HOH . C 3 HOH A 85 485 46 HOH HOH . C 3 HOH A 86 486 73 HOH HOH . C 3 HOH A 87 487 52 HOH HOH . C 3 HOH A 88 488 85 HOH HOH . C 3 HOH A 89 489 98 HOH HOH . C 3 HOH A 90 490 42 HOH HOH . C 3 HOH A 91 491 72 HOH HOH . C 3 HOH A 92 492 95 HOH HOH . C 3 HOH A 93 493 50 HOH HOH . C 3 HOH A 94 494 84 HOH HOH . C 3 HOH A 95 495 90 HOH HOH . C 3 HOH A 96 496 91 HOH HOH . C 3 HOH A 97 497 68 HOH HOH . C 3 HOH A 98 498 92 HOH HOH . C 3 HOH A 99 499 88 HOH HOH . C 3 HOH A 100 500 82 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 N N1 AR6 . . . B 2 -16.228 -8.459 4.296 1 22.18 ? N1 AR6 301 A 1 HETATM 2 C C2 AR6 . . . B 2 -15.748 -9.388 5.135 1 20.85 ? C2 AR6 301 A 1 HETATM 3 N N3 AR6 . . . B 2 -15.679 -9.355 6.47 1 23.05 ? N3 AR6 301 A 1 HETATM 4 C C4 AR6 . . . B 2 -16.153 -8.192 6.953 1 25.48 ? C4 AR6 301 A 1 HETATM 5 C C5 AR6 . . . B 2 -16.667 -7.135 6.212 1 24.99 ? C5 AR6 301 A 1 HETATM 6 C C6 AR6 . . . B 2 -16.727 -7.309 4.808 1 23.42 ? C6 AR6 301 A 1 HETATM 7 N N6 AR6 . . . B 2 -17.328 -6.452 3.967 1 23.29 ? N6 AR6 301 A 1 HETATM 8 N N7 AR6 . . . B 2 -17.037 -6.088 7.045 1 24.22 ? N7 AR6 301 A 1 HETATM 9 C C8 AR6 . . . B 2 -16.757 -6.532 8.247 1 24.73 ? C8 AR6 301 A 1 HETATM 10 N N9 AR6 . . . B 2 -16.223 -7.797 8.268 1 26.47 ? N9 AR6 301 A 1 HETATM 11 P PA AR6 . . . B 2 -19.623 -8.32 12.673 1 26.48 ? PA AR6 301 A 1 HETATM 12 P PB AR6 . . . B 2 -20.718 -10.376 14.529 1 24.95 ? PB AR6 301 A 1 HETATM 13 C C1' AR6 . . . B 2 -15.826 -8.596 9.429 1 25.38 ? C1' AR6 301 A 1 HETATM 14 O O1A AR6 . . . B 2 -20.148 -7.948 11.341 1 26.75 ? O1A AR6 301 A 1 HETATM 15 O O1B AR6 . . . B 2 -19.558 -10.082 15.537 1 22.95 ? O1B AR6 301 A 1 HETATM 16 C C1D AR6 . . . B 2 -24.387 -7.639 16.638 1 29.27 ? C1D AR6 301 A 1 HETATM 17 O O1D AR6 . . . B 2 -25.323 -7.368 17.639 1 32.48 ? O1D AR6 301 A 1 HETATM 18 C C2' AR6 . . . B 2 -15.551 -7.852 10.731 1 29.48 ? C2' AR6 301 A 1 HETATM 19 O O2' AR6 . . . B 2 -14.32 -7.143 10.688 1 30.39 ? O2' AR6 301 A 1 HETATM 20 O O2A AR6 . . . B 2 -19.634 -7.205 13.663 1 29.18 ? O2A AR6 301 A 1 HETATM 21 O O2B AR6 . . . B 2 -21.07 -11.801 14.311 1 23.6 ? O2B AR6 301 A 1 HETATM 22 C C2D AR6 . . . B 2 -24.433 -6.563 15.565 1 28.38 ? C2D AR6 301 A 1 HETATM 23 O O2D AR6 . . . B 2 -25.778 -6.215 15.245 1 23.14 ? O2D AR6 301 A 1 HETATM 24 C C3' AR6 . . . B 2 -15.563 -9.033 11.719 1 28.92 ? C3' AR6 301 A 1 HETATM 25 O O3' AR6 . . . B 2 -14.305 -9.689 11.845 1 30.2 ? O3' AR6 301 A 1 HETATM 26 O O3A AR6 . . . B 2 -20.383 -9.624 13.169 1 21.15 ? O3A AR6 301 A 1 HETATM 27 C C3D AR6 . . . B 2 -23.768 -7.294 14.398 1 26.93 ? C3D AR6 301 A 1 HETATM 28 O O3D AR6 . . . B 2 -24.118 -6.753 13.131 1 24.23 ? O3D AR6 301 A 1 HETATM 29 C C4' AR6 . . . B 2 -16.574 -10.01 11.084 1 26.32 ? C4' AR6 301 A 1 HETATM 30 O O4' AR6 . . . B 2 -16.854 -9.505 9.758 1 23.52 ? O4' AR6 301 A 1 HETATM 31 C C4D AR6 . . . B 2 -24.276 -8.727 14.573 1 24.59 ? C4D AR6 301 A 1 HETATM 32 O O4D AR6 . . . B 2 -24.707 -8.845 15.949 1 28.48 ? O4D AR6 301 A 1 HETATM 33 C C5' AR6 . . . B 2 -17.859 -10.189 11.853 1 25.98 ? C5' AR6 301 A 1 HETATM 34 O O5' AR6 . . . B 2 -18.158 -8.915 12.462 1 25.76 ? O5' AR6 301 A 1 HETATM 35 C C5D AR6 . . . B 2 -23.283 -9.819 14.272 1 24.44 ? C5D AR6 301 A 1 HETATM 36 O O5D AR6 . . . B 2 -22.05 -9.589 14.99 1 25.13 ? O5D AR6 301 A 1 # _model_server_stats.io_time_ms 52 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 336 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 36 #