data_3W5W # _model_server_result.job_id f80QpaNQ765e-M9jbgMLhw _model_server_result.datetime_utc '2024-11-24 17:55:32' _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 3w5w # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 3W5W # _exptl.entry_id 3W5W _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 363.221 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-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 120 _cell.entry_id 3W5W _cell.length_a 90.828 _cell.length_b 90.828 _cell.length_c 107.878 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3W5W _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _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 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_555 -x,-x+y,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 71.918667 # _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 # 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 metalc ? metalc1 A NE2 HIS 29 A HIS 29 1_555 C MN MN . A MN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.628 ? metalc ? metalc2 A OD1 ASP 33 A ASP 33 1_555 C MN MN . A MN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.246 ? metalc ? metalc3 A OD2 ASP 35 A ASP 35 1_555 D MN MN . A MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc4 A OD2 ASP 99 A ASP 99 1_555 C MN MN . A MN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.259 ? metalc ? metalc5 A OD1 ASP 99 A ASP 99 1_555 D MN MN . A MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? metalc ? metalc6 A NE2 HIS 125 A HIS 125 1_555 D MN MN . A MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc7 A OD2 ASP 177 A ASP 177 1_555 D MN MN . A MN 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.232 ? # _chem_comp.formula 'C10 H14 N5 O8 P' _chem_comp.formula_weight 363.221 _chem_comp.id 5GP _chem_comp.mon_nstd_flag . _chem_comp.name "GUANOSINE-5'-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 5GP doub 1 n n P O2P 5GP sing 2 n n P O3P 5GP sing 3 n n P O5' 5GP sing 4 n n O2P HOP2 5GP sing 5 n n O3P HOP3 5GP sing 6 n n O5' C5' 5GP sing 7 n n C5' C4' 5GP sing 8 n n C5' "H5'1" 5GP sing 9 n n C5' "H5'2" 5GP sing 10 n n C4' O4' 5GP sing 11 n n C4' C3' 5GP sing 12 n n C4' H4' 5GP sing 13 n n O4' C1' 5GP sing 14 n n C3' O3' 5GP sing 15 n n C3' C2' 5GP sing 16 n n C3' H3' 5GP sing 17 n n O3' HO3' 5GP sing 18 n n C2' O2' 5GP sing 19 n n C2' C1' 5GP sing 20 n n C2' H2' 5GP sing 21 n n O2' HO2' 5GP sing 22 n n C1' N9 5GP sing 23 n n C1' H1' 5GP sing 24 n n N9 C8 5GP sing 25 n y N9 C4 5GP sing 26 n y C8 N7 5GP doub 27 n y C8 H8 5GP sing 28 n n N7 C5 5GP sing 29 n y C5 C6 5GP sing 30 n n C5 C4 5GP doub 31 n y C6 O6 5GP doub 32 n n C6 N1 5GP sing 33 n n N1 C2 5GP sing 34 n n N1 HN1 5GP sing 35 n n C2 N2 5GP sing 36 n n C2 N3 5GP doub 37 n n N2 HN21 5GP sing 38 n n N2 HN22 5GP sing 39 n n N3 C4 5GP sing 40 n n # _atom_sites.entry_id 3W5W _atom_sites.fract_transf_matrix[1][1] 0.01101 _atom_sites.fract_transf_matrix[1][2] 0.006357 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012713 _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] 0.00927 _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 5GP A 1 401 1 5GP 5GP . C 3 MN A 1 402 1 MN MN . D 3 MN A 1 403 2 MN MN . E 4 HOH A 1 501 1 HOH HOH . E 4 HOH A 2 502 2 HOH HOH . E 4 HOH A 3 503 3 HOH HOH . E 4 HOH A 4 504 4 HOH HOH . E 4 HOH A 5 505 5 HOH HOH . E 4 HOH A 6 506 6 HOH HOH . E 4 HOH A 7 507 7 HOH HOH . E 4 HOH A 8 508 8 HOH HOH . E 4 HOH A 9 509 9 HOH HOH . E 4 HOH A 10 510 10 HOH HOH . E 4 HOH A 11 511 11 HOH HOH . E 4 HOH A 12 512 12 HOH HOH . E 4 HOH A 13 513 13 HOH HOH . E 4 HOH A 14 514 14 HOH HOH . E 4 HOH A 15 515 15 HOH HOH . E 4 HOH A 16 516 16 HOH HOH . E 4 HOH A 17 517 17 HOH HOH . E 4 HOH A 18 518 18 HOH HOH . E 4 HOH A 19 519 19 HOH HOH . E 4 HOH A 20 520 20 HOH HOH . E 4 HOH A 21 521 21 HOH HOH . E 4 HOH A 22 522 22 HOH HOH . E 4 HOH A 23 523 23 HOH HOH . E 4 HOH A 24 524 24 HOH HOH . E 4 HOH A 25 525 25 HOH HOH . E 4 HOH A 26 526 26 HOH HOH . E 4 HOH A 27 527 27 HOH HOH . E 4 HOH A 28 528 28 HOH HOH . E 4 HOH A 29 529 29 HOH HOH . E 4 HOH A 30 530 30 HOH HOH . E 4 HOH A 31 531 31 HOH HOH . E 4 HOH A 32 532 32 HOH HOH . E 4 HOH A 33 533 33 HOH HOH . E 4 HOH A 34 534 34 HOH HOH . E 4 HOH A 35 535 35 HOH HOH . E 4 HOH A 36 536 36 HOH HOH . E 4 HOH A 37 537 37 HOH HOH . E 4 HOH A 38 538 38 HOH HOH . E 4 HOH A 39 539 40 HOH HOH . E 4 HOH A 40 540 41 HOH HOH . E 4 HOH A 41 541 42 HOH HOH . E 4 HOH A 42 542 43 HOH HOH . E 4 HOH A 43 543 44 HOH HOH . E 4 HOH A 44 544 45 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 5GP . . . B 2 -29.176 15.297 36.008 1 120.01 ? P 5GP 401 A 1 HETATM 2 O O1P 5GP . . . B 2 -28.695 16.162 37.12 1 119.35 ? O1P 5GP 401 A 1 HETATM 3 O O2P 5GP . . . B 2 -29.678 13.878 36.6 1 118.53 ? O2P 5GP 401 A 1 HETATM 4 O O3P 5GP . . . B 2 -27.98 15.036 34.965 1 120.18 ? O3P 5GP 401 A 1 HETATM 5 O O5' 5GP . . . B 2 -30.401 16.036 35.232 1 120.25 ? O5' 5GP 401 A 1 HETATM 6 C C5' 5GP . . . B 2 -31.462 16.258 36.174 1 119.79 ? C5' 5GP 401 A 1 HETATM 7 C C4' 5GP . . . B 2 -32.651 16.944 35.483 1 119.41 ? C4' 5GP 401 A 1 HETATM 8 O O4' 5GP . . . B 2 -33.153 16.12 34.385 1 119.86 ? O4' 5GP 401 A 1 HETATM 9 C C3' 5GP . . . B 2 -33.801 17.173 36.485 1 119.27 ? C3' 5GP 401 A 1 HETATM 10 O O3' 5GP . . . B 2 -34.148 18.56 36.564 1 117.1 ? O3' 5GP 401 A 1 HETATM 11 C C2' 5GP . . . B 2 -34.975 16.3 35.993 1 119.7 ? C2' 5GP 401 A 1 HETATM 12 O O2' 5GP . . . B 2 -36.138 17.093 35.737 1 119.3 ? O2' 5GP 401 A 1 HETATM 13 C C1' 5GP . . . B 2 -34.48 15.593 34.711 1 120.53 ? C1' 5GP 401 A 1 HETATM 14 N N9 5GP . . . B 2 -34.439 14.104 34.88 1 120.98 ? N9 5GP 401 A 1 HETATM 15 C C8 5GP . . . B 2 -33.374 13.349 35.319 1 120.83 ? C8 5GP 401 A 1 HETATM 16 N N7 5GP . . . B 2 -33.683 12.084 35.34 1 120.79 ? N7 5GP 401 A 1 HETATM 17 C C5 5GP . . . B 2 -34.959 11.928 34.919 1 121 ? C5 5GP 401 A 1 HETATM 18 C C6 5GP . . . B 2 -35.823 10.796 34.735 1 121.16 ? C6 5GP 401 A 1 HETATM 19 O O6 5GP . . . B 2 -35.43 9.666 34.981 1 121.19 ? O6 5GP 401 A 1 HETATM 20 N N1 5GP . . . B 2 -37.102 11.01 34.276 1 120.84 ? N1 5GP 401 A 1 HETATM 21 C C2 5GP . . . B 2 -37.546 12.288 33.998 1 120.51 ? C2 5GP 401 A 1 HETATM 22 N N2 5GP . . . B 2 -38.825 12.466 33.542 1 120.16 ? N2 5GP 401 A 1 HETATM 23 N N3 5GP . . . B 2 -36.751 13.352 34.165 1 120.63 ? N3 5GP 401 A 1 HETATM 24 C C4 5GP . . . B 2 -35.469 13.22 34.616 1 120.99 ? C4 5GP 401 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 24 #