data_4LMC # _model_server_result.job_id Cmbs0qUASA7ZDwPqRdi3PA _model_server_result.datetime_utc '2025-02-27 01:57:53' _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 4lmc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":200}' # _entry.id 4LMC # _exptl.entry_id 4LMC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 323.197 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "CYTIDINE-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 4LMC _cell.length_a 81.897 _cell.length_b 81.897 _cell.length_c 42.889 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4LMC _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_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 'C9 H14 N3 O8 P' _chem_comp.formula_weight 323.197 _chem_comp.id C5P _chem_comp.mon_nstd_flag . _chem_comp.name "CYTIDINE-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 O3P P C5P sing 70 n n O3P HOP3 C5P sing 71 n n P O1P C5P doub 72 n n P O2P C5P sing 73 n n P O5' C5P sing 74 n n O2P HOP2 C5P sing 75 n n O5' C5' C5P sing 76 n n C5' C4' C5P sing 77 n n C5' "H5'1" C5P sing 78 n n C5' "H5'2" C5P sing 79 n n C4' O4' C5P sing 80 n n C4' C3' C5P sing 81 n n C4' H4' C5P sing 82 n n O4' C1' C5P sing 83 n n C3' O3' C5P sing 84 n n C3' C2' C5P sing 85 n n C3' H3' C5P sing 86 n n O3' HO3' C5P sing 87 n n C2' O2' C5P sing 88 n n C2' C1' C5P sing 89 n n C2' "H2'1" C5P sing 90 n n O2' HO2' C5P sing 91 n n C1' N1 C5P sing 92 n n C1' H1' C5P sing 93 n n N1 C2 C5P sing 94 n n N1 C6 C5P sing 95 n n C2 N3 C5P sing 96 n n C2 O2 C5P doub 97 n n N3 C4 C5P doub 98 n n C4 C5 C5P sing 99 n n C4 N4 C5P sing 100 n n C5 C6 C5P doub 101 n n C5 H5 C5P sing 102 n n C6 H6 C5P sing 103 n n N4 HN41 C5P sing 104 n n N4 HN42 C5P sing 105 n n # _atom_sites.entry_id 4LMC _atom_sites.fract_transf_matrix[1][1] 0.01221 _atom_sites.fract_transf_matrix[1][2] 0.00705 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014099 _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] 0.023316 _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 C5P A 1 200 200 C5P C5P . C 3 HOH A 1 301 1 HOH HOH . C 3 HOH A 2 302 2 HOH HOH . C 3 HOH A 3 303 3 HOH HOH . C 3 HOH A 4 304 4 HOH HOH . C 3 HOH A 5 305 5 HOH HOH . C 3 HOH A 6 306 6 HOH HOH . C 3 HOH A 7 307 7 HOH HOH . C 3 HOH A 8 308 8 HOH HOH . C 3 HOH A 9 309 9 HOH HOH . C 3 HOH A 10 310 10 HOH HOH . C 3 HOH A 11 311 11 HOH HOH . C 3 HOH A 12 312 12 HOH HOH . C 3 HOH A 13 313 14 HOH HOH . C 3 HOH A 14 314 15 HOH HOH . C 3 HOH A 15 315 16 HOH HOH . C 3 HOH A 16 316 17 HOH HOH . C 3 HOH A 17 317 18 HOH HOH . C 3 HOH A 18 318 19 HOH HOH . C 3 HOH A 19 319 20 HOH HOH . C 3 HOH A 20 320 21 HOH HOH . C 3 HOH A 21 321 24 HOH HOH . C 3 HOH A 22 322 25 HOH HOH . C 3 HOH A 23 323 26 HOH HOH . C 3 HOH A 24 324 27 HOH HOH . C 3 HOH A 25 325 28 HOH HOH . C 3 HOH A 26 326 29 HOH HOH . C 3 HOH A 27 327 30 HOH HOH . C 3 HOH A 28 328 31 HOH HOH . C 3 HOH A 29 329 32 HOH HOH . C 3 HOH A 30 330 33 HOH HOH . C 3 HOH A 31 331 34 HOH HOH . C 3 HOH A 32 332 35 HOH HOH . C 3 HOH A 33 333 36 HOH HOH . C 3 HOH A 34 334 37 HOH HOH . C 3 HOH A 35 335 38 HOH HOH . C 3 HOH A 36 336 39 HOH HOH . C 3 HOH A 37 337 40 HOH HOH . C 3 HOH A 38 338 41 HOH HOH . C 3 HOH A 39 339 42 HOH HOH . C 3 HOH A 40 340 43 HOH HOH . C 3 HOH A 41 341 44 HOH HOH . C 3 HOH A 42 342 45 HOH HOH . C 3 HOH A 43 343 46 HOH HOH . C 3 HOH A 44 344 47 HOH HOH . C 3 HOH A 45 345 48 HOH HOH . C 3 HOH A 46 346 49 HOH HOH . C 3 HOH A 47 347 50 HOH HOH . C 3 HOH A 48 348 51 HOH HOH . C 3 HOH A 49 349 52 HOH HOH . C 3 HOH A 50 350 53 HOH HOH . C 3 HOH A 51 351 54 HOH HOH . C 3 HOH A 52 352 55 HOH HOH . C 3 HOH A 53 353 56 HOH HOH . C 3 HOH A 54 354 57 HOH HOH . C 3 HOH A 55 355 58 HOH HOH . C 3 HOH A 56 356 59 HOH HOH . C 3 HOH A 57 357 60 HOH HOH . C 3 HOH A 58 358 61 HOH HOH . C 3 HOH A 59 359 62 HOH HOH . C 3 HOH A 60 360 63 HOH HOH . C 3 HOH A 61 361 64 HOH HOH . C 3 HOH A 62 362 65 HOH HOH . C 3 HOH A 63 363 66 HOH HOH . C 3 HOH A 64 364 67 HOH HOH . C 3 HOH A 65 365 68 HOH HOH . C 3 HOH A 66 366 70 HOH HOH . C 3 HOH A 67 367 71 HOH HOH . C 3 HOH A 68 368 72 HOH HOH . C 3 HOH A 69 369 73 HOH HOH . C 3 HOH A 70 370 74 HOH HOH . C 3 HOH A 71 371 75 HOH HOH . C 3 HOH A 72 372 76 HOH HOH . C 3 HOH A 73 373 77 HOH HOH . C 3 HOH A 74 374 78 HOH HOH . C 3 HOH A 75 375 79 HOH HOH . C 3 HOH A 76 376 80 HOH HOH . C 3 HOH A 77 377 81 HOH HOH . C 3 HOH A 78 378 82 HOH HOH . C 3 HOH A 79 379 83 HOH HOH . C 3 HOH A 80 380 84 HOH HOH . C 3 HOH A 81 381 85 HOH HOH . C 3 HOH A 82 382 86 HOH HOH . C 3 HOH A 83 383 87 HOH HOH . C 3 HOH A 84 384 88 HOH HOH . C 3 HOH A 85 385 89 HOH HOH . C 3 HOH A 86 386 90 HOH HOH . C 3 HOH A 87 387 91 HOH HOH . C 3 HOH A 88 388 92 HOH HOH . C 3 HOH A 89 389 93 HOH HOH . C 3 HOH A 90 390 94 HOH HOH . C 3 HOH A 91 391 95 HOH HOH . C 3 HOH A 92 392 96 HOH HOH . C 3 HOH A 93 393 97 HOH HOH . C 3 HOH A 94 394 98 HOH HOH . C 3 HOH A 95 395 99 HOH HOH . C 3 HOH A 96 396 100 HOH HOH . C 3 HOH A 97 397 102 HOH HOH . C 3 HOH A 98 398 103 HOH HOH . C 3 HOH A 99 399 104 HOH HOH . C 3 HOH A 100 400 105 HOH HOH . C 3 HOH A 101 401 106 HOH HOH . C 3 HOH A 102 402 107 HOH HOH . C 3 HOH A 103 403 108 HOH HOH . C 3 HOH A 104 404 109 HOH HOH . C 3 HOH A 105 405 110 HOH HOH . C 3 HOH A 106 406 111 HOH HOH . C 3 HOH A 107 407 112 HOH HOH . C 3 HOH A 108 408 113 HOH HOH . C 3 HOH A 109 409 114 HOH HOH . C 3 HOH A 110 410 115 HOH HOH . C 3 HOH A 111 411 116 HOH HOH . C 3 HOH A 112 412 117 HOH HOH . C 3 HOH A 113 413 118 HOH HOH . C 3 HOH A 114 414 119 HOH HOH . C 3 HOH A 115 415 120 HOH HOH . C 3 HOH A 116 416 121 HOH HOH . C 3 HOH A 117 417 122 HOH HOH . C 3 HOH A 118 418 123 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 O O3P C5P . . . B 2 19.925 85.441 -5.978 1 58.16 ? O3P C5P 200 A 1 HETATM 2 P P C5P . . . B 2 20.495 84.035 -6.304 1 78.02 ? P C5P 200 A 1 HETATM 3 O O1P C5P . . . B 2 19.358 83.019 -6.457 1 60.71 ? O1P C5P 200 A 1 HETATM 4 O O2P C5P . . . B 2 21.517 84.206 -7.376 1 69.94 ? O2P C5P 200 A 1 HETATM 5 O O5' C5P . . . B 2 21.228 83.485 -5.004 1 70.26 ? O5' C5P 200 A 1 HETATM 6 C C5' C5P . . . B 2 20.502 83.31 -3.796 1 52.57 ? C5' C5P 200 A 1 HETATM 7 C C4' C5P . . . B 2 21.298 83.782 -2.601 1 33.79 ? C4' C5P 200 A 1 HETATM 8 O O4' C5P . . . B 2 21.029 85.204 -2.355 1 63.13 ? O4' C5P 200 A 1 HETATM 9 C C3' C5P . . . B 2 20.937 83.082 -1.307 1 33.42 ? C3' C5P 200 A 1 HETATM 10 O O3' C5P . . . B 2 22.048 83.145 -0.416 1 52.59 ? O3' C5P 200 A 1 HETATM 11 C C2' C5P . . . B 2 19.77 83.946 -0.806 1 39.23 ? C2' C5P 200 A 1 HETATM 12 O O2' C5P . . . B 2 19.449 83.878 0.564 1 25.72 ? O2' C5P 200 A 1 HETATM 13 C C1' C5P . . . B 2 20.246 85.317 -1.196 1 55.89 ? C1' C5P 200 A 1 HETATM 14 N N1 C5P . . . B 2 19.41 86.485 -0.999 1 48.4 ? N1 C5P 200 A 1 HETATM 15 C C2 C5P . . . B 2 19.168 87.439 -2.161 1 50.49 ? C2 C5P 200 A 1 HETATM 16 N N3 C5P . . . B 2 18.162 88.656 -1.899 1 55.06 ? N3 C5P 200 A 1 HETATM 17 C C4 C5P . . . B 2 17.511 88.803 -0.64 1 41.36 ? C4 C5P 200 A 1 HETATM 18 C C5 C5P . . . B 2 17.78 87.767 0.557 1 36.63 ? C5 C5P 200 A 1 HETATM 19 C C6 C5P . . . B 2 18.725 86.597 0.368 1 26.74 ? C6 C5P 200 A 1 HETATM 20 O O2 C5P . . . B 2 19.727 87.299 -3.254 1 58.78 ? O2 C5P 200 A 1 HETATM 21 N N4 C5P . . . B 2 16.555 90.024 -0.437 1 50.39 ? N4 C5P 200 A 1 HETATM 22 H "H5'1" C5P . . . B 2 19.635 83.838 -3.847 1 63.08 ? "H5'1" C5P 200 A 1 HETATM 23 H "H5'2" C5P . . . B 2 20.295 82.357 -3.682 1 63.08 ? "H5'2" C5P 200 A 1 HETATM 24 H H4' C5P . . . B 2 22.273 83.659 -2.782 1 40.55 ? H4' C5P 200 A 1 HETATM 25 H H3' C5P . . . B 2 20.659 82.148 -1.471 1 40.11 ? H3' C5P 200 A 1 HETATM 26 H HO3' C5P . . . B 2 22.618 82.407 -0.578 1 63.11 ? HO3' C5P 200 A 1 HETATM 27 H "H2'1" C5P . . . B 2 19.009 83.734 -1.309 1 47.08 ? "H2'1" C5P 200 A 1 HETATM 28 H HO2' C5P . . . B 2 18.655 83.491 0.667 1 30.86 ? HO2' C5P 200 A 1 HETATM 29 H H1' C5P . . . B 2 21.057 85.508 -0.394 1 67.06 ? H1' C5P 200 A 1 HETATM 30 H H5 C5P . . . B 2 17.292 87.902 1.485 1 43.96 ? H5 C5P 200 A 1 HETATM 31 H H6 C5P . . . B 2 18.889 85.924 1.104 1 32.09 ? H6 C5P 200 A 1 HETATM 32 H HN41 C5P . . . B 2 16.423 90.591 -1.094 1 60.47 ? HN41 C5P 200 A 1 HETATM 33 H HN42 C5P . . . B 2 16.122 90.153 0.382 1 60.47 ? HN42 C5P 200 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 33 #