data_4WDA # _model_server_result.job_id yLPd10Tp8Q6QJq-t9OVlBw _model_server_result.datetime_utc '2024-12-04 07:23:47' _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 4wda # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 4WDA # _exptl.entry_id 4WDA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-2'-MONOPHOSPHATE" _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 4WDA _cell.length_a 40.71 _cell.length_b 46.84 _cell.length_c 106.23 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4WDA _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details 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 # _chem_comp.formula 'C10 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id 2AM _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-2'-MONOPHOSPHATE" _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 P O1P 2AM doub 1 n n P O2P 2AM sing 2 n n P O3P 2AM sing 3 n n P O2' 2AM sing 4 n n O2P HOP2 2AM sing 5 n n O3P HOP3 2AM sing 6 n n C5' O5' 2AM sing 7 n n C5' C4' 2AM sing 8 n n C5' "H5'1" 2AM sing 9 n n C5' "H5'2" 2AM sing 10 n n O5' HO5' 2AM sing 11 n n C4' O4' 2AM sing 12 n n C4' C3' 2AM sing 13 n n C4' H4' 2AM sing 14 n n O4' C1' 2AM sing 15 n n C3' O3' 2AM sing 16 n n C3' C2' 2AM sing 17 n n C3' H3' 2AM sing 18 n n O3' HO3' 2AM sing 19 n n C2' O2' 2AM sing 20 n n C2' C1' 2AM sing 21 n n C2' H2' 2AM sing 22 n n C1' N9 2AM sing 23 n n C1' H1' 2AM sing 24 n n N9 C8 2AM sing 25 n y N9 C4 2AM sing 26 n y C8 N7 2AM doub 27 n y C8 H8 2AM sing 28 n n N7 C5 2AM sing 29 n y C5 C6 2AM sing 30 n y C5 C4 2AM doub 31 n y C6 N6 2AM sing 32 n n C6 N1 2AM doub 33 n y N6 HN61 2AM sing 34 n n N6 HN62 2AM sing 35 n n N1 C2 2AM sing 36 n y C2 N3 2AM doub 37 n y C2 H2 2AM sing 38 n n N3 C4 2AM sing 39 n y # _atom_sites.entry_id 4WDA _atom_sites.fract_transf_matrix[1][1] 0.024564 _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] 0.021349 _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] 0.009414 _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 2AM A 1 401 1 2AM 2AM . C 3 HOH A 1 501 25 HOH HOH . C 3 HOH A 2 502 55 HOH HOH . C 3 HOH A 3 503 51 HOH HOH . C 3 HOH A 4 504 29 HOH HOH . C 3 HOH A 5 505 1 HOH HOH . C 3 HOH A 6 506 34 HOH HOH . C 3 HOH A 7 507 16 HOH HOH . C 3 HOH A 8 508 24 HOH HOH . C 3 HOH A 9 509 71 HOH HOH . C 3 HOH A 10 510 21 HOH HOH . C 3 HOH A 11 511 10 HOH HOH . C 3 HOH A 12 512 76 HOH HOH . C 3 HOH A 13 513 32 HOH HOH . C 3 HOH A 14 514 67 HOH HOH . C 3 HOH A 15 515 14 HOH HOH . C 3 HOH A 16 516 50 HOH HOH . C 3 HOH A 17 517 74 HOH HOH . C 3 HOH A 18 518 52 HOH HOH . C 3 HOH A 19 519 43 HOH HOH . C 3 HOH A 20 520 40 HOH HOH . C 3 HOH A 21 521 68 HOH HOH . C 3 HOH A 22 522 2 HOH HOH . C 3 HOH A 23 523 3 HOH HOH . C 3 HOH A 24 524 4 HOH HOH . C 3 HOH A 25 525 5 HOH HOH . C 3 HOH A 26 526 6 HOH HOH . C 3 HOH A 27 527 7 HOH HOH . C 3 HOH A 28 528 8 HOH HOH . C 3 HOH A 29 529 9 HOH HOH . C 3 HOH A 30 530 11 HOH HOH . C 3 HOH A 31 531 12 HOH HOH . C 3 HOH A 32 532 13 HOH HOH . C 3 HOH A 33 533 15 HOH HOH . C 3 HOH A 34 534 18 HOH HOH . C 3 HOH A 35 535 19 HOH HOH . C 3 HOH A 36 536 20 HOH HOH . C 3 HOH A 37 537 22 HOH HOH . C 3 HOH A 38 538 23 HOH HOH . C 3 HOH A 39 539 26 HOH HOH . C 3 HOH A 40 540 27 HOH HOH . C 3 HOH A 41 541 28 HOH HOH . C 3 HOH A 42 542 30 HOH HOH . C 3 HOH A 43 543 31 HOH HOH . C 3 HOH A 44 544 33 HOH HOH . C 3 HOH A 45 545 36 HOH HOH . C 3 HOH A 46 546 38 HOH HOH . C 3 HOH A 47 547 39 HOH HOH . C 3 HOH A 48 548 41 HOH HOH . C 3 HOH A 49 549 42 HOH HOH . C 3 HOH A 50 550 47 HOH HOH . C 3 HOH A 51 551 48 HOH HOH . C 3 HOH A 52 552 49 HOH HOH . C 3 HOH A 53 553 53 HOH HOH . C 3 HOH A 54 554 54 HOH HOH . C 3 HOH A 55 555 56 HOH HOH . C 3 HOH A 56 556 57 HOH HOH . C 3 HOH A 57 557 58 HOH HOH . C 3 HOH A 58 558 61 HOH HOH . C 3 HOH A 59 559 62 HOH HOH . C 3 HOH A 60 560 63 HOH HOH . C 3 HOH A 61 561 64 HOH HOH . C 3 HOH A 62 562 65 HOH HOH . C 3 HOH A 63 563 66 HOH HOH . C 3 HOH A 64 564 69 HOH HOH . C 3 HOH A 65 565 70 HOH HOH . C 3 HOH A 66 566 72 HOH HOH . C 3 HOH A 67 567 73 HOH HOH . C 3 HOH A 68 568 75 HOH HOH . C 3 HOH A 69 569 77 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 P P 2AM . . . B 2 -5.293 4.089 -21.014 1 82.73 ? P 2AM 401 A 1 HETATM 2 O O1P 2AM . . . B 2 -4.774 3 -21.925 1 83.37 ? O1P 2AM 401 A 1 HETATM 3 O O2P 2AM . . . B 2 -5.869 3.47 -19.761 1 82.25 ? O2P 2AM 401 A 1 HETATM 4 O O3P 2AM . . . B 2 -4.172 5.038 -20.667 1 82.29 ? O3P 2AM 401 A 1 HETATM 5 C C5' 2AM . . . B 2 -6.209 5.215 -26.507 1 64.13 ? C5' 2AM 401 A 1 HETATM 6 O O5' 2AM . . . B 2 -6.475 3.832 -26.422 1 63.83 ? O5' 2AM 401 A 1 HETATM 7 C C4' 2AM . . . B 2 -6.528 5.902 -25.183 1 64.58 ? C4' 2AM 401 A 1 HETATM 8 O O4' 2AM . . . B 2 -7.898 5.743 -24.87 1 64.09 ? O4' 2AM 401 A 1 HETATM 9 C C3' 2AM . . . B 2 -5.729 5.319 -24.026 1 65.89 ? C3' 2AM 401 A 1 HETATM 10 O O3' 2AM . . . B 2 -5.025 6.336 -23.351 1 65.7 ? O3' 2AM 401 A 1 HETATM 11 C C2' 2AM . . . B 2 -6.755 4.693 -23.105 1 66.29 ? C2' 2AM 401 A 1 HETATM 12 O O2' 2AM . . . B 2 -6.421 4.957 -21.763 1 68.21 ? O2' 2AM 401 A 1 HETATM 13 C C1' 2AM . . . B 2 -8.063 5.343 -23.522 1 64.99 ? C1' 2AM 401 A 1 HETATM 14 N N9 2AM . . . B 2 -9.228 4.445 -23.39 1 63.82 ? N9 2AM 401 A 1 HETATM 15 C C8 2AM . . . B 2 -10.184 4.499 -22.408 1 63.51 ? C8 2AM 401 A 1 HETATM 16 N N7 2AM . . . B 2 -11.098 3.536 -22.644 1 63.48 ? N7 2AM 401 A 1 HETATM 17 C C5 2AM . . . B 2 -10.74 2.867 -23.763 1 63.93 ? C5 2AM 401 A 1 HETATM 18 C C6 2AM . . . B 2 -11.315 1.799 -24.437 1 63.64 ? C6 2AM 401 A 1 HETATM 19 N N6 2AM . . . B 2 -12.438 1.251 -23.981 1 63.77 ? N6 2AM 401 A 1 HETATM 20 N N1 2AM . . . B 2 -10.717 1.316 -25.583 1 63.35 ? N1 2AM 401 A 1 HETATM 21 C C2 2AM . . . B 2 -9.552 1.889 -26.051 1 63.15 ? C2 2AM 401 A 1 HETATM 22 N N3 2AM . . . B 2 -8.985 2.95 -25.373 1 63.32 ? N3 2AM 401 A 1 HETATM 23 C C4 2AM . . . B 2 -9.57 3.433 -24.248 1 63.53 ? C4 2AM 401 A 1 HETATM 24 H "H5'1" 2AM . . . B 2 -5.159 5.37 -26.756 1 76.95 ? "H5'1" 2AM 401 A 1 HETATM 25 H "H5'2" 2AM . . . B 2 -6.813 5.654 -27.302 1 76.95 ? "H5'2" 2AM 401 A 1 HETATM 26 H HO5' 2AM . . . B 2 -6.807 3.618 -25.525 1 76.6 ? HO5' 2AM 401 A 1 HETATM 27 H H4' 2AM . . . B 2 -6.29 6.962 -25.273 1 77.5 ? H4' 2AM 401 A 1 HETATM 28 H H3' 2AM . . . B 2 -5.049 4.552 -24.397 1 79.07 ? H3' 2AM 401 A 1 HETATM 29 H HO3' 2AM . . . B 2 -5.359 6.41 -22.432 1 78.83 ? HO3' 2AM 401 A 1 HETATM 30 H H2' 2AM . . . B 2 -6.804 3.619 -23.288 1 79.54 ? H2' 2AM 401 A 1 HETATM 31 H H1' 2AM . . . B 2 -8.217 6.225 -22.901 1 77.99 ? H1' 2AM 401 A 1 HETATM 32 H H8 2AM . . . B 2 -10.201 5.203 -21.575 1 76.21 ? H8 2AM 401 A 1 HETATM 33 H HN61 2AM . . . B 2 -12.875 1.615 -23.14 1 76.52 ? HN61 2AM 401 A 1 HETATM 34 H HN62 2AM . . . B 2 -12.861 0.473 -24.477 1 76.52 ? HN62 2AM 401 A 1 HETATM 35 H H2 2AM . . . B 2 -9.092 1.519 -26.967 1 75.78 ? H2 2AM 401 A 1 # _model_server_stats.io_time_ms 81 _model_server_stats.parse_time_ms 136 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 294 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 35 #