data_3RTI # _model_server_result.job_id bp7GCSQEXLbqoh6Y8kpBhA _model_server_result.datetime_utc '2024-12-01 16:43:24' _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 3rti # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":301}' # _entry.id 3RTI # _exptl.entry_id 3RTI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "FORMYCIN-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 90 _cell.entry_id 3RTI _cell.length_a 72.74 _cell.length_b 78.49 _cell.length_c 114.34 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3RTI _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 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,F,G,H,I _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 5 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 3 2 1 GAL BGC C1 O1 . O4 HO4 . sing 2 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C BGC 1 C 1 BGC B 265 BGC 3 n C GAL 2 C 2 GAL B 264 GAL 3 n D BGC 1 D 1 BGC B 268 BGC 3 n D GAL 2 D 2 GAL B 267 GAL 4 n E NAG 1 E 1 NAG B 270 NAG 4 n E NAG 2 E 2 NAG B 271 NAG 4 n F NAG 1 F 1 NAG B 280 NAG 4 n F NAG 2 F 2 NAG B 281 NAG # 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 disulf ? disulf1 A SG CYS 259 A CYS 259 1_555 B SG CYS 4 B CYS 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf2 B SG CYS 20 B CYS 20 1_555 B SG CYS 39 B CYS 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 B SG CYS 63 B CYS 63 1_555 B SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf4 B SG CYS 151 B CYS 151 1_555 B SG CYS 164 B CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf5 B SG CYS 190 B CYS 190 1_555 B SG CYS 207 B CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 B ND2 ASN 95 B ASN 95 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale2 B ND2 ASN 135 B ASN 135 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 C O4 BGC . C BGC 1 1_555 C C1 GAL . C GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.388 ? covale ? covale4 D O4 BGC . D BGC 1 1_555 D C1 GAL . D GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.388 ? covale ? covale5 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.393 ? covale ? covale6 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.386 ? # _chem_comp.formula 'C10 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id FMP _chem_comp.mon_nstd_flag . _chem_comp.name "FORMYCIN-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 FMP doub 107 n n P O2P FMP sing 108 n n P O3P FMP sing 109 n n P O5' FMP sing 110 n n O2P HOP2 FMP sing 111 n n O3P HOP3 FMP sing 112 n n O5' C5' FMP sing 113 n n C5' C4' FMP sing 114 n n C5' "H5'1" FMP sing 115 n n C5' "H5'2" FMP sing 116 n n C4' O4' FMP sing 117 n n C4' C3' FMP sing 118 n n C4' H4' FMP sing 119 n n O4' C1' FMP sing 120 n n C3' O3' FMP sing 121 n n C3' C2' FMP sing 122 n n C3' H3' FMP sing 123 n n O3' HO3' FMP sing 124 n n C2' O2' FMP sing 125 n n C2' C1' FMP sing 126 n n C2' H2' FMP sing 127 n n O2' HO2' FMP sing 128 n n C1' C9 FMP sing 129 n n C1' H1' FMP sing 130 n n C9 N8 FMP doub 131 n y C9 C4 FMP sing 132 n y N8 N7 FMP sing 133 n y N7 C5 FMP sing 134 n y N7 HN7 FMP sing 135 n n C6 N6 FMP sing 136 n n C6 C5 FMP sing 137 n y C6 N1 FMP doub 138 n y N6 HN61 FMP sing 139 n n N6 HN62 FMP sing 140 n n C5 C4 FMP doub 141 n y C4 N3 FMP sing 142 n y N3 C2 FMP doub 143 n y C2 N1 FMP sing 144 n y C2 H2 FMP sing 145 n n # _atom_sites.entry_id 3RTI _atom_sites.fract_transf_matrix[1][1] 0.013748 _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] 0.01274 _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] 0.008746 _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 G 5 FMP A 1 301 301 FMP FMP . H 6 HOH A 1 268 1 HOH HOH . H 6 HOH A 2 269 7 HOH HOH . H 6 HOH A 3 270 10 HOH HOH . H 6 HOH A 4 271 16 HOH HOH . H 6 HOH A 5 272 29 HOH HOH . H 6 HOH A 6 273 31 HOH HOH . H 6 HOH A 7 274 32 HOH HOH . H 6 HOH A 8 275 38 HOH HOH . H 6 HOH A 9 276 66 HOH HOH . H 6 HOH A 10 277 68 HOH HOH . H 6 HOH A 11 278 71 HOH HOH . H 6 HOH A 12 279 73 HOH HOH . H 6 HOH A 13 280 77 HOH HOH . H 6 HOH A 14 281 80 HOH HOH . H 6 HOH A 15 282 85 HOH HOH . H 6 HOH A 16 283 89 HOH HOH . H 6 HOH A 17 284 96 HOH HOH . H 6 HOH A 18 285 106 HOH HOH . H 6 HOH A 19 286 107 HOH HOH . H 6 HOH A 20 287 140 HOH HOH . H 6 HOH A 21 288 144 HOH HOH . H 6 HOH A 22 289 145 HOH HOH . H 6 HOH A 23 290 149 HOH HOH . H 6 HOH A 24 291 192 HOH HOH . I 6 HOH B 1 263 2 HOH HOH . I 6 HOH B 2 266 3 HOH HOH . I 6 HOH B 3 269 4 HOH HOH . I 6 HOH B 4 272 5 HOH HOH . I 6 HOH B 5 273 6 HOH HOH . I 6 HOH B 6 274 8 HOH HOH . I 6 HOH B 7 275 26 HOH HOH . I 6 HOH B 8 276 34 HOH HOH . I 6 HOH B 9 277 40 HOH HOH . I 6 HOH B 10 278 45 HOH HOH . I 6 HOH B 11 279 47 HOH HOH . I 6 HOH B 12 282 48 HOH HOH . I 6 HOH B 13 283 53 HOH HOH . I 6 HOH B 14 284 54 HOH HOH . I 6 HOH B 15 285 56 HOH HOH . I 6 HOH B 16 286 57 HOH HOH . I 6 HOH B 17 287 91 HOH HOH . I 6 HOH B 18 288 92 HOH HOH . I 6 HOH B 19 289 100 HOH HOH . I 6 HOH B 20 290 115 HOH HOH . I 6 HOH B 21 291 118 HOH HOH . I 6 HOH B 22 292 136 HOH HOH . I 6 HOH B 23 293 150 HOH HOH . I 6 HOH B 24 294 164 HOH HOH . I 6 HOH B 25 295 187 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 FMP . . . G 5 25.107 68.005 50.02 1 88.14 ? P FMP 301 A 1 HETATM 2 O O1P FMP . . . G 5 24.269 68.056 48.803 1 87.92 ? O1P FMP 301 A 1 HETATM 3 O O2P FMP . . . G 5 26.666 68.254 49.707 1 87.84 ? O2P FMP 301 A 1 HETATM 4 O O3P FMP . . . G 5 24.687 69.101 51.119 1 87.09 ? O3P FMP 301 A 1 HETATM 5 O O5' FMP . . . G 5 25.037 66.583 50.766 1 84.84 ? O5' FMP 301 A 1 HETATM 6 C C5' FMP . . . G 5 25.927 66.288 51.845 1 77.9 ? C5' FMP 301 A 1 HETATM 7 C C4' FMP . . . G 5 25.699 64.862 52.35 1 72.34 ? C4' FMP 301 A 1 HETATM 8 O O4' FMP . . . G 5 26.553 64.505 53.451 1 70.49 ? O4' FMP 301 A 1 HETATM 9 C C3' FMP . . . G 5 24.285 64.69 52.899 1 70.33 ? C3' FMP 301 A 1 HETATM 10 O O3' FMP . . . G 5 23.373 64.548 51.807 1 71.34 ? O3' FMP 301 A 1 HETATM 11 C C2' FMP . . . G 5 24.507 63.337 53.569 1 68.47 ? C2' FMP 301 A 1 HETATM 12 O O2' FMP . . . G 5 24.76 62.338 52.577 1 66.16 ? O2' FMP 301 A 1 HETATM 13 C C1' FMP . . . G 5 25.801 63.644 54.328 1 65.75 ? C1' FMP 301 A 1 HETATM 14 C C9 FMP . . . G 5 25.518 64.421 55.616 1 60.97 ? C9 FMP 301 A 1 HETATM 15 N N8 FMP . . . G 5 26.435 65.037 56.356 1 59.04 ? N8 FMP 301 A 1 HETATM 16 N N7 FMP . . . G 5 25.904 65.566 57.338 1 56.53 ? N7 FMP 301 A 1 HETATM 17 C C6 FMP . . . G 5 23.545 65.739 58.178 1 53.96 ? C6 FMP 301 A 1 HETATM 18 N N6 FMP . . . G 5 23.776 66.474 59.263 1 52.62 ? N6 FMP 301 A 1 HETATM 19 C C5 FMP . . . G 5 24.589 65.358 57.344 1 55.83 ? C5 FMP 301 A 1 HETATM 20 C C4 FMP . . . G 5 24.28 64.616 56.218 1 57.74 ? C4 FMP 301 A 1 HETATM 21 N N3 FMP . . . G 5 23.014 64.267 55.961 1 56.23 ? N3 FMP 301 A 1 HETATM 22 C C2 FMP . . . G 5 22.049 64.643 56.787 1 54.97 ? C2 FMP 301 A 1 HETATM 23 N N1 FMP . . . G 5 22.298 65.373 57.857 1 53.67 ? N1 FMP 301 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 23 #