data_4NA0 # _model_server_result.job_id ALDg0QD4u6dNEQ7oDzefnQ _model_server_result.datetime_utc '2024-11-15 06:47:30' _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 4na0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":1003}' # _entry.id 4NA0 # _exptl.entry_id 4NA0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 559.316 _entity.id 3 _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 3 _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 4NA0 _cell.length_a 188.3 _cell.length_b 55.665 _cell.length_c 166.149 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4NA0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,F 1 1 B,G,H,I 2 1 C,J,K,L 3 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 ? 3 F N N ? 3 I N N ? 3 L N 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 covale ? covale1 A C GLU 16 A GLU 453 1_555 A N MSE 17 A MSE 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale2 A C MSE 17 A MSE 454 1_555 A N ARG 18 A ARG 455 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale3 A C LYS 19 A LYS 456 1_555 A N MSE 20 A MSE 457 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale4 A C MSE 20 A MSE 457 1_555 A N PRO 21 A PRO 458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? covale ? covale5 A C LYS 68 A LYS 505 1_555 A N MSE 69 A MSE 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale6 A C MSE 69 A MSE 506 1_555 A N PRO 70 A PRO 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? covale ? covale7 A C ASP 152 A ASP 589 1_555 A N MSE 153 A MSE 590 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale8 A C MSE 153 A MSE 590 1_555 A N VAL 154 A VAL 591 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale9 A C LYS 174 A LYS 611 1_555 A N MSE 175 A MSE 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale10 A C MSE 175 A MSE 612 1_555 A N ASN 176 A ASN 613 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale11 A C THR 180 A THR 617 1_555 A N MSE 181 A MSE 618 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale12 A C MSE 181 A MSE 618 1_555 A N SER 182 A SER 619 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale13 A C GLY 288 A GLY 725 1_555 A N MSE 289 A MSE 726 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale14 A C MSE 289 A MSE 726 1_555 A N LEU 290 A LEU 727 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale15 A C LEU 463 A LEU 900 1_555 A N MSE 464 A MSE 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale16 A C MSE 464 A MSE 901 1_555 A N ARG 465 A ARG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale17 A C SER 469 A SER 906 1_555 A N MSE 470 A MSE 907 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale18 A C MSE 470 A MSE 907 1_555 A N HIS 471 A HIS 908 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale19 B C GLU 16 B GLU 453 1_555 B N MSE 17 B MSE 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale20 B C MSE 17 B MSE 454 1_555 B N ARG 18 B ARG 455 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale21 B C LYS 19 B LYS 456 1_555 B N MSE 20 B MSE 457 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale22 B C MSE 20 B MSE 457 1_555 B N PRO 21 B PRO 458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.344 ? covale ? covale23 B C LYS 68 B LYS 505 1_555 B N MSE 69 B MSE 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale24 B C MSE 69 B MSE 506 1_555 B N PRO 70 B PRO 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale25 B C ASP 152 B ASP 589 1_555 B N MSE 153 B MSE 590 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale26 B C MSE 153 B MSE 590 1_555 B N VAL 154 B VAL 591 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale27 B C LYS 174 B LYS 611 1_555 B N MSE 175 B MSE 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale28 B C MSE 175 B MSE 612 1_555 B N ASN 176 B ASN 613 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale29 B C THR 180 B THR 617 1_555 B N MSE 181 B MSE 618 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale30 B C MSE 181 B MSE 618 1_555 B N SER 182 B SER 619 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale31 B C GLY 288 B GLY 725 1_555 B N MSE 289 B MSE 726 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale32 B C MSE 289 B MSE 726 1_555 B N LEU 290 B LEU 727 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale33 B C LEU 463 B LEU 900 1_555 B N MSE 464 B MSE 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale34 B C MSE 464 B MSE 901 1_555 B N ARG 465 B ARG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale35 B C SER 469 B SER 906 1_555 B N MSE 470 B MSE 907 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale36 B C MSE 470 B MSE 907 1_555 B N HIS 471 B HIS 908 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale37 C C GLU 16 C GLU 453 1_555 C N MSE 17 C MSE 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale38 C C MSE 17 C MSE 454 1_555 C N ARG 18 C ARG 455 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale39 C C LYS 19 C LYS 456 1_555 C N MSE 20 C MSE 457 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale40 C C MSE 20 C MSE 457 1_555 C N PRO 21 C PRO 458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? covale ? covale41 C C LYS 68 C LYS 505 1_555 C N MSE 69 C MSE 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale42 C C MSE 69 C MSE 506 1_555 C N PRO 70 C PRO 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? covale ? covale43 C C ASP 152 C ASP 589 1_555 C N MSE 153 C MSE 590 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale44 C C MSE 153 C MSE 590 1_555 C N VAL 154 C VAL 591 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale45 C C LYS 174 C LYS 611 1_555 C N MSE 175 C MSE 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale46 C C MSE 175 C MSE 612 1_555 C N ASN 176 C ASN 613 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale47 C C THR 180 C THR 617 1_555 C N MSE 181 C MSE 618 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale48 C C MSE 181 C MSE 618 1_555 C N SER 182 C SER 619 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale49 C C GLY 288 C GLY 725 1_555 C N MSE 289 C MSE 726 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale50 C C MSE 289 C MSE 726 1_555 C N LEU 290 C LEU 727 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale51 C C LEU 463 C LEU 900 1_555 C N MSE 464 C MSE 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale52 C C MSE 464 C MSE 901 1_555 C N ARG 465 C ARG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale53 C C SER 469 C SER 906 1_555 C N MSE 470 C MSE 907 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale54 C C MSE 470 C MSE 907 1_555 C N HIS 471 C HIS 908 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? # _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 ? # _atom_sites.entry_id 4NA0 _atom_sites.fract_transf_matrix[1][1] 0.005311 _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] 0.017965 _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] 0.006019 _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 D 2 IOD A 1 1001 5 IOD IOD . E 2 IOD A 1 1002 6 IOD IOD . F 3 AR6 A 1 1003 1 AR6 AR6 . G 2 IOD B 1 1001 3 IOD IOD . H 2 IOD B 1 1002 4 IOD IOD . I 3 AR6 B 1 1003 1 AR6 AR6 . J 2 IOD C 1 1001 1 IOD IOD . K 2 IOD C 1 1002 2 IOD IOD . L 3 AR6 C 1 1003 1 AR6 AR6 . # 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 . . . L 3 54.887 34.047 163.069 1 27.76 ? N1 AR6 1003 C 1 HETATM 2 C C2 AR6 . . . L 3 53.637 34.224 162.592 1 28.61 ? C2 AR6 1003 C 1 HETATM 3 N N3 AR6 . . . L 3 53.118 35.457 162.423 1 23.12 ? N3 AR6 1003 C 1 HETATM 4 C C4 AR6 . . . L 3 53.858 36.551 162.721 1 28.61 ? C4 AR6 1003 C 1 HETATM 5 C C5 AR6 . . . L 3 55.142 36.4 163.221 1 29.23 ? C5 AR6 1003 C 1 HETATM 6 C C6 AR6 . . . L 3 55.661 35.119 163.399 1 31.55 ? C6 AR6 1003 C 1 HETATM 7 N N6 AR6 . . . L 3 57.056 34.943 163.939 1 25.04 ? N6 AR6 1003 C 1 HETATM 8 N N7 AR6 . . . L 3 55.64 37.644 163.44 1 33.85 ? N7 AR6 1003 C 1 HETATM 9 C C8 AR6 . . . L 3 54.682 38.544 163.087 1 29.89 ? C8 AR6 1003 C 1 HETATM 10 N N9 AR6 . . . L 3 53.594 37.872 162.634 1 35.79 ? N9 AR6 1003 C 1 HETATM 11 P PA AR6 . . . L 3 54.446 41.219 159.133 1 42.1 ? PA AR6 1003 C 1 HETATM 12 P PB AR6 . . . L 3 53.987 41.914 156.377 1 38.2 ? PB AR6 1003 C 1 HETATM 13 C C1' AR6 . . . L 3 52.285 38.42 162.139 1 38.51 ? C1' AR6 1003 C 1 HETATM 14 O O1A AR6 . . . L 3 53.759 42.376 160.114 1 48.9 ? O1A AR6 1003 C 1 HETATM 15 O O1B AR6 . . . L 3 53.222 43.206 156.575 1 42.63 ? O1B AR6 1003 C 1 HETATM 16 C C1D AR6 . . . L 3 59.231 43.181 156.912 1 50.88 ? C1D AR6 1003 C 1 HETATM 17 O O1D AR6 . . . L 3 60.01 44.34 157.237 1 50.58 ? O1D AR6 1003 C 1 HETATM 18 C C2' AR6 . . . L 3 51.979 39.765 162.749 1 38.1 ? C2' AR6 1003 C 1 HETATM 19 O O2' AR6 . . . L 3 50.568 39.962 162.771 1 34.1 ? O2' AR6 1003 C 1 HETATM 20 O O2A AR6 . . . L 3 55.749 42.228 158.861 1 34.62 ? O2A AR6 1003 C 1 HETATM 21 O O2B AR6 . . . L 3 53.696 40.995 155.221 1 44.57 ? O2B AR6 1003 C 1 HETATM 22 C C2D AR6 . . . L 3 59.432 42.801 155.452 1 50.62 ? C2D AR6 1003 C 1 HETATM 23 O O2D AR6 . . . L 3 60.737 43.131 154.965 1 51.3 ? O2D AR6 1003 C 1 HETATM 24 C C3' AR6 . . . L 3 52.616 40.76 161.803 1 41.47 ? C3' AR6 1003 C 1 HETATM 25 O O3' AR6 . . . L 3 51.768 41.903 161.716 1 38.74 ? O3' AR6 1003 C 1 HETATM 26 O O3A AR6 . . . L 3 53.616 41.002 157.638 1 45.83 ? O3A AR6 1003 C 1 HETATM 27 C C3D AR6 . . . L 3 58.365 43.581 154.728 1 47.43 ? C3D AR6 1003 C 1 HETATM 28 O O3D AR6 . . . L 3 58.961 44.741 154.146 1 48.92 ? O3D AR6 1003 C 1 HETATM 29 C C4' AR6 . . . L 3 52.843 39.993 160.478 1 42.09 ? C4' AR6 1003 C 1 HETATM 30 O O4' AR6 . . . L 3 52.287 38.689 160.721 1 42.94 ? O4' AR6 1003 C 1 HETATM 31 C C4D AR6 . . . L 3 57.337 43.947 155.795 1 46.35 ? C4D AR6 1003 C 1 HETATM 32 O O4D AR6 . . . L 3 57.846 43.484 157.049 1 47.84 ? O4D AR6 1003 C 1 HETATM 33 C C5' AR6 . . . L 3 54.33 39.776 160.278 1 40.95 ? C5' AR6 1003 C 1 HETATM 34 O O5' AR6 . . . L 3 55.395 39.85 159.317 1 42.23 ? O5' AR6 1003 C 1 HETATM 35 C C5D AR6 . . . L 3 55.935 43.38 155.527 1 43.96 ? C5D AR6 1003 C 1 HETATM 36 O O5D AR6 . . . L 3 55.54 42.303 156.381 1 35.88 ? O5D AR6 1003 C 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 73 _model_server_stats.query_time_ms 468 _model_server_stats.encode_time_ms 26 _model_server_stats.element_count 36 #