data_4MY1 # _model_server_result.job_id DhOMgdWC4gZa1P2urqzbxw _model_server_result.datetime_utc '2024-11-09 01:24:52' _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 4my1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":500}' # _entry.id 4MY1 # _exptl.entry_id 4MY1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 348.206 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'INOSINIC ACID' _entity.pdbx_number_of_molecules 8 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 81.13 _cell.angle_beta 89.95 _cell.angle_gamma 83.59 _cell.entry_id 4MY1 _cell.length_a 83.22 _cell.length_b 89.391 _cell.length_c 103.987 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4MY1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # 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 tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,I,J,K,L,M,N,O,P,Y,Z,AA,BA 1 1 E,F,G,H,Q,R,S,T,U,V,W,X,CA,DA,EA,FA 2 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 ? 2 I N N ? 2 K N N ? 2 M N N ? 2 O N N ? 2 Q N N ? 2 T N N ? 2 U N N ? 2 W N N # _chem_comp.formula 'C10 H13 N4 O8 P' _chem_comp.formula_weight 348.206 _chem_comp.id IMP _chem_comp.mon_nstd_flag n _chem_comp.name 'INOSINIC ACID' _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 IMP doub 173 n n P O2P IMP sing 174 n n P O3P IMP sing 175 n n P O5' IMP sing 176 n n O2P HOP2 IMP sing 177 n n O3P HOP3 IMP sing 178 n n O5' C5' IMP sing 179 n n C5' C4' IMP sing 180 n n C5' "H5'1" IMP sing 181 n n C5' "H5'2" IMP sing 182 n n C4' O4' IMP sing 183 n n C4' C3' IMP sing 184 n n C4' H4' IMP sing 185 n n O4' C1' IMP sing 186 n n C3' O3' IMP sing 187 n n C3' C2' IMP sing 188 n n C3' H3' IMP sing 189 n n O3' HO3' IMP sing 190 n n C2' O2' IMP sing 191 n n C2' C1' IMP sing 192 n n C2' H2' IMP sing 193 n n O2' HO2' IMP sing 194 n n C1' N9 IMP sing 195 n n C1' H1' IMP sing 196 n n N9 C8 IMP sing 197 n y N9 C4 IMP sing 198 n y C8 N7 IMP doub 199 n y C8 H8 IMP sing 200 n n N7 C5 IMP sing 201 n y C5 C6 IMP sing 202 n n C5 C4 IMP doub 203 n y C6 O6 IMP doub 204 n n C6 N1 IMP sing 205 n n N1 C2 IMP sing 206 n n N1 HN1 IMP sing 207 n n C2 N3 IMP doub 208 n n C2 H2 IMP sing 209 n n N3 C4 IMP sing 210 n n # _atom_sites.entry_id 4MY1 _atom_sites.fract_transf_matrix[1][1] 0.012016 _atom_sites.fract_transf_matrix[1][2] -0.00135 _atom_sites.fract_transf_matrix[1][3] 0.000202 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011257 _atom_sites.fract_transf_matrix[2][3] -0.001766 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.009734 _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 I 2 IMP A 1 500 500 IMP IMP . J 3 P68 A 1 501 501 P68 P68 . K 2 IMP B 1 500 500 IMP IMP . L 3 P68 B 1 501 501 P68 P68 . M 2 IMP C 1 500 500 IMP IMP . N 3 P68 C 1 501 501 P68 P68 . O 2 IMP D 1 500 500 IMP IMP . P 3 P68 D 1 501 501 P68 P68 . Q 2 IMP E 1 501 500 IMP IMP . R 3 P68 E 1 502 501 P68 P68 . S 3 P68 E 1 503 501 P68 P68 . T 2 IMP F 1 500 500 IMP IMP . U 2 IMP G 1 500 500 IMP IMP . V 3 P68 G 1 501 501 P68 P68 . W 2 IMP H 1 500 500 IMP IMP . X 3 P68 H 1 501 501 P68 P68 . Y 4 HOH A 1 601 8 HOH HOH . Y 4 HOH A 2 602 19 HOH HOH . Y 4 HOH A 3 603 21 HOH HOH . Y 4 HOH A 4 604 26 HOH HOH . Y 4 HOH A 5 605 34 HOH HOH . Y 4 HOH A 6 606 39 HOH HOH . Y 4 HOH A 7 607 41 HOH HOH . Y 4 HOH A 8 608 47 HOH HOH . Y 4 HOH A 9 609 50 HOH HOH . Y 4 HOH A 10 610 62 HOH HOH . Y 4 HOH A 11 611 63 HOH HOH . Y 4 HOH A 12 612 67 HOH HOH . Y 4 HOH A 13 613 72 HOH HOH . Y 4 HOH A 14 614 85 HOH HOH . Y 4 HOH A 15 615 88 HOH HOH . Y 4 HOH A 16 616 92 HOH HOH . Y 4 HOH A 17 617 97 HOH HOH . Y 4 HOH A 18 618 98 HOH HOH . Y 4 HOH A 19 619 100 HOH HOH . Y 4 HOH A 20 620 104 HOH HOH . Y 4 HOH A 21 621 107 HOH HOH . Z 4 HOH B 1 601 5 HOH HOH . Z 4 HOH B 2 602 10 HOH HOH . Z 4 HOH B 3 603 12 HOH HOH . Z 4 HOH B 4 604 13 HOH HOH . Z 4 HOH B 5 605 29 HOH HOH . Z 4 HOH B 6 606 32 HOH HOH . Z 4 HOH B 7 607 36 HOH HOH . Z 4 HOH B 8 608 37 HOH HOH . Z 4 HOH B 9 609 52 HOH HOH . Z 4 HOH B 10 610 53 HOH HOH . Z 4 HOH B 11 611 54 HOH HOH . Z 4 HOH B 12 612 58 HOH HOH . Z 4 HOH B 13 613 59 HOH HOH . Z 4 HOH B 14 614 61 HOH HOH . Z 4 HOH B 15 615 65 HOH HOH . Z 4 HOH B 16 616 66 HOH HOH . Z 4 HOH B 17 617 71 HOH HOH . Z 4 HOH B 18 618 84 HOH HOH . Z 4 HOH B 19 619 103 HOH HOH . Z 4 HOH B 20 620 116 HOH HOH . AA 4 HOH C 1 601 1 HOH HOH . AA 4 HOH C 2 602 3 HOH HOH . AA 4 HOH C 3 603 18 HOH HOH . AA 4 HOH C 4 604 22 HOH HOH . AA 4 HOH C 5 605 24 HOH HOH . AA 4 HOH C 6 606 27 HOH HOH . AA 4 HOH C 7 607 28 HOH HOH . AA 4 HOH C 8 608 30 HOH HOH . AA 4 HOH C 9 609 38 HOH HOH . AA 4 HOH C 10 610 43 HOH HOH . AA 4 HOH C 11 611 45 HOH HOH . AA 4 HOH C 12 612 57 HOH HOH . AA 4 HOH C 13 613 75 HOH HOH . AA 4 HOH C 14 614 77 HOH HOH . AA 4 HOH C 15 615 80 HOH HOH . AA 4 HOH C 16 616 81 HOH HOH . AA 4 HOH C 17 617 94 HOH HOH . AA 4 HOH C 18 618 96 HOH HOH . AA 4 HOH C 19 619 102 HOH HOH . AA 4 HOH C 20 620 109 HOH HOH . AA 4 HOH C 21 621 111 HOH HOH . BA 4 HOH D 1 601 2 HOH HOH . BA 4 HOH D 2 602 14 HOH HOH . BA 4 HOH D 3 603 15 HOH HOH . BA 4 HOH D 4 604 16 HOH HOH . BA 4 HOH D 5 605 31 HOH HOH . BA 4 HOH D 6 606 35 HOH HOH . BA 4 HOH D 7 607 46 HOH HOH . BA 4 HOH D 8 608 73 HOH HOH . BA 4 HOH D 9 609 76 HOH HOH . BA 4 HOH D 10 610 78 HOH HOH . BA 4 HOH D 11 611 95 HOH HOH . BA 4 HOH D 12 612 99 HOH HOH . BA 4 HOH D 13 613 115 HOH HOH . BA 4 HOH D 14 614 117 HOH HOH . CA 4 HOH E 1 601 20 HOH HOH . CA 4 HOH E 2 602 25 HOH HOH . CA 4 HOH E 3 603 44 HOH HOH . CA 4 HOH E 4 604 51 HOH HOH . CA 4 HOH E 5 605 56 HOH HOH . CA 4 HOH E 6 606 60 HOH HOH . CA 4 HOH E 7 607 69 HOH HOH . CA 4 HOH E 8 608 89 HOH HOH . CA 4 HOH E 9 609 91 HOH HOH . DA 4 HOH F 1 601 40 HOH HOH . DA 4 HOH F 2 602 49 HOH HOH . DA 4 HOH F 3 603 74 HOH HOH . DA 4 HOH F 4 604 82 HOH HOH . DA 4 HOH F 5 605 106 HOH HOH . DA 4 HOH F 6 606 108 HOH HOH . DA 4 HOH F 7 607 113 HOH HOH . EA 4 HOH G 1 601 9 HOH HOH . EA 4 HOH G 2 602 23 HOH HOH . EA 4 HOH G 3 603 48 HOH HOH . EA 4 HOH G 4 604 64 HOH HOH . EA 4 HOH G 5 605 70 HOH HOH . EA 4 HOH G 6 606 79 HOH HOH . EA 4 HOH G 7 607 83 HOH HOH . EA 4 HOH G 8 608 90 HOH HOH . EA 4 HOH G 9 609 110 HOH HOH . EA 4 HOH G 10 610 112 HOH HOH . FA 4 HOH H 1 601 4 HOH HOH . FA 4 HOH H 2 602 6 HOH HOH . FA 4 HOH H 3 603 7 HOH HOH . FA 4 HOH H 4 604 11 HOH HOH . FA 4 HOH H 5 605 17 HOH HOH . FA 4 HOH H 6 606 33 HOH HOH . FA 4 HOH H 7 607 42 HOH HOH . FA 4 HOH H 8 608 55 HOH HOH . FA 4 HOH H 9 609 68 HOH HOH . FA 4 HOH H 10 610 86 HOH HOH . FA 4 HOH H 11 611 87 HOH HOH . FA 4 HOH H 12 612 93 HOH HOH . FA 4 HOH H 13 613 101 HOH HOH . FA 4 HOH H 14 614 105 HOH HOH . FA 4 HOH H 15 615 114 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 IMP . . . K 2 11.987 19.352 -3.145 1 40.1 ? P IMP 500 B 1 HETATM 2 O O1P IMP . . . K 2 12.865 19.257 -4.381 1 40.18 ? O1P IMP 500 B 1 HETATM 3 O O2P IMP . . . K 2 11.158 18.132 -2.932 1 40.11 ? O2P IMP 500 B 1 HETATM 4 O O3P IMP . . . K 2 11.083 20.565 -3.248 1 40.06 ? O3P IMP 500 B 1 HETATM 5 O O5' IMP . . . K 2 12.944 19.522 -1.876 1 46.15 ? O5' IMP 500 B 1 HETATM 6 C C5' IMP . . . K 2 13.903 20.576 -1.806 1 46.08 ? C5' IMP 500 B 1 HETATM 7 C C4' IMP . . . K 2 14.562 20.632 -0.447 1 46.04 ? C4' IMP 500 B 1 HETATM 8 O O4' IMP . . . K 2 15.346 19.437 -0.226 1 45.94 ? O4' IMP 500 B 1 HETATM 9 C C3' IMP . . . K 2 15.565 21.752 -0.203 1 46.06 ? C3' IMP 500 B 1 HETATM 10 O O3' IMP . . . K 2 14.958 23.009 0.052 1 46.13 ? O3' IMP 500 B 1 HETATM 11 C C2' IMP . . . K 2 16.346 21.225 0.988 1 45.97 ? C2' IMP 500 B 1 HETATM 12 O O2' IMP . . . K 2 15.593 21.418 2.17 1 46.04 ? O2' IMP 500 B 1 HETATM 13 C C1' IMP . . . K 2 16.382 19.722 0.7 1 45.82 ? C1' IMP 500 B 1 HETATM 14 N N9 IMP . . . K 2 17.682 19.298 0.143 1 45.54 ? N9 IMP 500 B 1 HETATM 15 C C8 IMP . . . K 2 18.471 19.977 -0.749 1 45.37 ? C8 IMP 500 B 1 HETATM 16 N N7 IMP . . . K 2 19.573 19.233 -0.99 1 45.21 ? N7 IMP 500 B 1 HETATM 17 C C5 IMP . . . K 2 19.525 18.097 -0.268 1 45.18 ? C5 IMP 500 B 1 HETATM 18 C C6 IMP . . . K 2 20.402 17.002 -0.168 1 45.1 ? C6 IMP 500 B 1 HETATM 19 O O6 IMP . . . K 2 21.062 16.662 -1.16 1 44.98 ? O6 IMP 500 B 1 HETATM 20 N N1 IMP . . . K 2 20.033 15.984 0.701 1 45.12 ? N1 IMP 500 B 1 HETATM 21 C C2 IMP . . . K 2 18.842 16.04 1.415 1 45.06 ? C2 IMP 500 B 1 HETATM 22 N N3 IMP . . . K 2 17.983 17.114 1.288 1 45.05 ? N3 IMP 500 B 1 HETATM 23 C C4 IMP . . . K 2 18.328 18.128 0.459 1 45.26 ? C4 IMP 500 B 1 # _model_server_stats.io_time_ms 52 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 36 _model_server_stats.query_time_ms 339 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 23 #