data_6K5H # _model_server_result.job_id YGpVxPmd9YIUZRFg4X_bxg _model_server_result.datetime_utc '2024-11-15 05:24:52' _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 6k5h # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":402}' # _entry.id 6K5H # _exptl.entry_id 6K5H _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 230.11 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 1-O-phosphono-alpha-D-ribofuranose _entity.pdbx_number_of_molecules 4 _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 6K5H _cell.length_a 66.975 _cell.length_b 97.688 _cell.length_c 188.865 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6K5H _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 2 21 21' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,D,E,F,K,L,M,P 1 1 B,C,G,H,I,J,N,O 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 ? 3 F N N ? 3 H N N ? 3 J N N ? 3 L N N # _chem_comp.formula 'C5 H11 O8 P' _chem_comp.formula_weight 230.11 _chem_comp.id R1P _chem_comp.mon_nstd_flag n _chem_comp.name 1-O-phosphono-alpha-D-ribofuranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms RIBOSE-1-PHOSPHATE;1-O-phosphono-alpha-D-ribose;1-O-phosphono-D-ribose;1-O-phosphono-ribose # 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 C5 O5 R1P sing 277 n n C5 C4 R1P sing 278 n n C5 H51 R1P sing 279 n n C5 H52 R1P sing 280 n n O5 HO5 R1P sing 281 n n C4 O4 R1P sing 282 n n C4 C3 R1P sing 283 n n C4 H4 R1P sing 284 n n O4 C1 R1P sing 285 n n C1 C2 R1P sing 286 n n C1 O1 R1P sing 287 n n C1 H1 R1P sing 288 n n C2 O2 R1P sing 289 n n C2 C3 R1P sing 290 n n C2 H2 R1P sing 291 n n O2 HO2 R1P sing 292 n n C3 O3 R1P sing 293 n n C3 H3 R1P sing 294 n n O3 HO3 R1P sing 295 n n O1 P R1P sing 296 n n P O1P R1P doub 297 n n P O2P R1P sing 298 n n P O3P R1P sing 299 n n O2P HOP2 R1P sing 300 n n O3P HOP3 R1P sing 301 n n # _pdbx_chem_comp_identifier.comp_id R1P _pdbx_chem_comp_identifier.identifier a-D-Ribf1PO3 _pdbx_chem_comp_identifier.type 'IUPAC CARBOHYDRATE SYMBOL' _pdbx_chem_comp_identifier.program PDB-CARE _pdbx_chem_comp_identifier.program_version 1 # _atom_sites.entry_id 6K5H _atom_sites.fract_transf_matrix[1][1] 0.014931 _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] 0.010237 _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] 0.005295 _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 E 2 URA A 1 401 1 URA URA . F 3 R1P A 1 402 1 R1P R1P . G 2 URA B 1 401 2 URA URA . H 3 R1P B 1 402 2 R1P R1P . I 2 URA C 1 401 3 URA URA . J 3 R1P C 1 402 3 R1P R1P . K 2 URA D 1 401 4 URA URA . L 3 R1P D 1 402 4 R1P R1P . M 4 HOH A 1 501 192 HOH HOH . M 4 HOH A 2 502 21 HOH HOH . M 4 HOH A 3 503 173 HOH HOH . M 4 HOH A 4 504 116 HOH HOH . M 4 HOH A 5 505 36 HOH HOH . M 4 HOH A 6 506 12 HOH HOH . M 4 HOH A 7 507 34 HOH HOH . M 4 HOH A 8 508 85 HOH HOH . M 4 HOH A 9 509 80 HOH HOH . M 4 HOH A 10 510 2 HOH HOH . M 4 HOH A 11 511 52 HOH HOH . M 4 HOH A 12 512 68 HOH HOH . M 4 HOH A 13 513 5 HOH HOH . M 4 HOH A 14 514 61 HOH HOH . M 4 HOH A 15 515 73 HOH HOH . M 4 HOH A 16 516 117 HOH HOH . M 4 HOH A 17 517 45 HOH HOH . M 4 HOH A 18 518 153 HOH HOH . M 4 HOH A 19 519 78 HOH HOH . M 4 HOH A 20 520 99 HOH HOH . M 4 HOH A 21 521 92 HOH HOH . M 4 HOH A 22 522 125 HOH HOH . M 4 HOH A 23 523 108 HOH HOH . M 4 HOH A 24 524 89 HOH HOH . M 4 HOH A 25 525 126 HOH HOH . M 4 HOH A 26 526 84 HOH HOH . M 4 HOH A 27 527 145 HOH HOH . M 4 HOH A 28 528 26 HOH HOH . M 4 HOH A 29 529 115 HOH HOH . M 4 HOH A 30 530 140 HOH HOH . M 4 HOH A 31 531 29 HOH HOH . M 4 HOH A 32 532 147 HOH HOH . M 4 HOH A 33 533 166 HOH HOH . M 4 HOH A 34 534 182 HOH HOH . M 4 HOH A 35 535 60 HOH HOH . M 4 HOH A 36 536 123 HOH HOH . M 4 HOH A 37 537 42 HOH HOH . M 4 HOH A 38 538 18 HOH HOH . M 4 HOH A 39 539 83 HOH HOH . M 4 HOH A 40 540 100 HOH HOH . M 4 HOH A 41 541 72 HOH HOH . N 4 HOH B 1 501 191 HOH HOH . N 4 HOH B 2 502 179 HOH HOH . N 4 HOH B 3 503 69 HOH HOH . N 4 HOH B 4 504 109 HOH HOH . N 4 HOH B 5 505 137 HOH HOH . N 4 HOH B 6 506 70 HOH HOH . N 4 HOH B 7 507 17 HOH HOH . N 4 HOH B 8 508 138 HOH HOH . N 4 HOH B 9 509 30 HOH HOH . N 4 HOH B 10 510 24 HOH HOH . N 4 HOH B 11 511 15 HOH HOH . N 4 HOH B 12 512 152 HOH HOH . N 4 HOH B 13 513 87 HOH HOH . N 4 HOH B 14 514 1 HOH HOH . N 4 HOH B 15 515 8 HOH HOH . N 4 HOH B 16 516 74 HOH HOH . N 4 HOH B 17 517 121 HOH HOH . N 4 HOH B 18 518 44 HOH HOH . N 4 HOH B 19 519 67 HOH HOH . N 4 HOH B 20 520 23 HOH HOH . N 4 HOH B 21 521 158 HOH HOH . N 4 HOH B 22 522 159 HOH HOH . N 4 HOH B 23 523 146 HOH HOH . N 4 HOH B 24 524 135 HOH HOH . N 4 HOH B 25 525 168 HOH HOH . N 4 HOH B 26 526 88 HOH HOH . N 4 HOH B 27 527 175 HOH HOH . N 4 HOH B 28 528 62 HOH HOH . N 4 HOH B 29 529 157 HOH HOH . N 4 HOH B 30 530 55 HOH HOH . N 4 HOH B 31 531 174 HOH HOH . N 4 HOH B 32 532 39 HOH HOH . N 4 HOH B 33 533 90 HOH HOH . N 4 HOH B 34 534 136 HOH HOH . N 4 HOH B 35 535 96 HOH HOH . N 4 HOH B 36 536 128 HOH HOH . N 4 HOH B 37 537 120 HOH HOH . N 4 HOH B 38 538 184 HOH HOH . N 4 HOH B 39 539 187 HOH HOH . N 4 HOH B 40 540 143 HOH HOH . N 4 HOH B 41 541 94 HOH HOH . N 4 HOH B 42 542 54 HOH HOH . N 4 HOH B 43 543 144 HOH HOH . N 4 HOH B 44 544 154 HOH HOH . N 4 HOH B 45 545 155 HOH HOH . N 4 HOH B 46 546 169 HOH HOH . N 4 HOH B 47 547 63 HOH HOH . N 4 HOH B 48 548 161 HOH HOH . N 4 HOH B 49 549 177 HOH HOH . N 4 HOH B 50 550 106 HOH HOH . O 4 HOH C 1 501 35 HOH HOH . O 4 HOH C 2 502 9 HOH HOH . O 4 HOH C 3 503 185 HOH HOH . O 4 HOH C 4 504 20 HOH HOH . O 4 HOH C 5 505 65 HOH HOH . O 4 HOH C 6 506 10 HOH HOH . O 4 HOH C 7 507 16 HOH HOH . O 4 HOH C 8 508 127 HOH HOH . O 4 HOH C 9 509 122 HOH HOH . O 4 HOH C 10 510 19 HOH HOH . O 4 HOH C 11 511 25 HOH HOH . O 4 HOH C 12 512 58 HOH HOH . O 4 HOH C 13 513 40 HOH HOH . O 4 HOH C 14 514 38 HOH HOH . O 4 HOH C 15 515 4 HOH HOH . O 4 HOH C 16 516 77 HOH HOH . O 4 HOH C 17 517 86 HOH HOH . O 4 HOH C 18 518 183 HOH HOH . O 4 HOH C 19 519 11 HOH HOH . O 4 HOH C 20 520 148 HOH HOH . O 4 HOH C 21 521 107 HOH HOH . O 4 HOH C 22 522 76 HOH HOH . O 4 HOH C 23 523 53 HOH HOH . O 4 HOH C 24 524 151 HOH HOH . O 4 HOH C 25 525 64 HOH HOH . O 4 HOH C 26 526 171 HOH HOH . O 4 HOH C 27 527 7 HOH HOH . O 4 HOH C 28 528 104 HOH HOH . O 4 HOH C 29 529 180 HOH HOH . O 4 HOH C 30 530 172 HOH HOH . O 4 HOH C 31 531 91 HOH HOH . O 4 HOH C 32 532 51 HOH HOH . O 4 HOH C 33 533 97 HOH HOH . O 4 HOH C 34 534 139 HOH HOH . O 4 HOH C 35 535 82 HOH HOH . O 4 HOH C 36 536 189 HOH HOH . O 4 HOH C 37 537 178 HOH HOH . O 4 HOH C 38 538 79 HOH HOH . O 4 HOH C 39 539 167 HOH HOH . O 4 HOH C 40 540 150 HOH HOH . O 4 HOH C 41 541 75 HOH HOH . O 4 HOH C 42 542 129 HOH HOH . O 4 HOH C 43 543 176 HOH HOH . O 4 HOH C 44 544 66 HOH HOH . P 4 HOH D 1 501 110 HOH HOH . P 4 HOH D 2 502 160 HOH HOH . P 4 HOH D 3 503 71 HOH HOH . P 4 HOH D 4 504 165 HOH HOH . P 4 HOH D 5 505 141 HOH HOH . P 4 HOH D 6 506 33 HOH HOH . P 4 HOH D 7 507 142 HOH HOH . P 4 HOH D 8 508 37 HOH HOH . P 4 HOH D 9 509 41 HOH HOH . P 4 HOH D 10 510 162 HOH HOH . P 4 HOH D 11 511 13 HOH HOH . P 4 HOH D 12 512 114 HOH HOH . P 4 HOH D 13 513 28 HOH HOH . P 4 HOH D 14 514 49 HOH HOH . P 4 HOH D 15 515 14 HOH HOH . P 4 HOH D 16 516 32 HOH HOH . P 4 HOH D 17 517 27 HOH HOH . P 4 HOH D 18 518 98 HOH HOH . P 4 HOH D 19 519 59 HOH HOH . P 4 HOH D 20 520 56 HOH HOH . P 4 HOH D 21 521 31 HOH HOH . P 4 HOH D 22 522 46 HOH HOH . P 4 HOH D 23 523 163 HOH HOH . P 4 HOH D 24 524 113 HOH HOH . P 4 HOH D 25 525 48 HOH HOH . P 4 HOH D 26 526 93 HOH HOH . P 4 HOH D 27 527 81 HOH HOH . P 4 HOH D 28 528 6 HOH HOH . P 4 HOH D 29 529 50 HOH HOH . P 4 HOH D 30 530 164 HOH HOH . P 4 HOH D 31 531 181 HOH HOH . P 4 HOH D 32 532 95 HOH HOH . P 4 HOH D 33 533 124 HOH HOH . P 4 HOH D 34 534 3 HOH HOH . P 4 HOH D 35 535 130 HOH HOH . P 4 HOH D 36 536 101 HOH HOH . P 4 HOH D 37 537 156 HOH HOH . P 4 HOH D 38 538 118 HOH HOH . P 4 HOH D 39 539 131 HOH HOH . P 4 HOH D 40 540 103 HOH HOH . P 4 HOH D 41 541 132 HOH HOH . P 4 HOH D 42 542 188 HOH HOH . P 4 HOH D 43 543 149 HOH HOH . P 4 HOH D 44 544 105 HOH HOH . P 4 HOH D 45 545 119 HOH HOH . P 4 HOH D 46 546 112 HOH HOH . P 4 HOH D 47 547 22 HOH HOH . P 4 HOH D 48 548 134 HOH HOH . P 4 HOH D 49 549 170 HOH HOH . P 4 HOH D 50 550 47 HOH HOH . P 4 HOH D 51 551 186 HOH HOH . P 4 HOH D 52 552 43 HOH HOH . P 4 HOH D 53 553 57 HOH HOH . P 4 HOH D 54 554 102 HOH HOH . P 4 HOH D 55 555 133 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 C C5 R1P . . . F 3 -22.7 50.1 -28.817 1 28.49 ? C5 R1P 402 A 1 HETATM 2 O O5 R1P . . . F 3 -23.397 51.048 -29.637 1 23.62 ? O5 R1P 402 A 1 HETATM 3 C C4 R1P . . . F 3 -22.945 48.623 -29.211 1 33.57 ? C4 R1P 402 A 1 HETATM 4 O O4 R1P . . . F 3 -21.973 48.257 -30.016 1 30.15 ? O4 R1P 402 A 1 HETATM 5 C C1 R1P . . . F 3 -20.937 47.274 -29.213 1 40.86 ? C1 R1P 402 A 1 HETATM 6 C C2 R1P . . . F 3 -21.361 47.235 -27.912 1 30.35 ? C2 R1P 402 A 1 HETATM 7 O O2 R1P . . . F 3 -21.217 45.893 -27.329 1 30.4 ? O2 R1P 402 A 1 HETATM 8 C C3 R1P . . . F 3 -22.841 47.606 -27.993 1 38.68 ? C3 R1P 402 A 1 HETATM 9 O O3 R1P . . . F 3 -23.576 46.491 -28.25 1 36.68 ? O3 R1P 402 A 1 HETATM 10 O O1 R1P . . . F 3 -20.826 45.99 -29.749 1 38.79 ? O1 R1P 402 A 1 HETATM 11 P P R1P . . . F 3 -21.489 45.506 -31.185 1 22.99 ? P R1P 402 A 1 HETATM 12 O O1P R1P . . . F 3 -21.006 46.242 -32.372 1 19.17 ? O1P R1P 402 A 1 HETATM 13 O O2P R1P . . . F 3 -21.05 44.098 -31.377 1 29.66 ? O2P R1P 402 A 1 HETATM 14 O O3P R1P . . . F 3 -23.014 45.599 -31.046 1 28.23 ? O3P R1P 402 A 1 HETATM 15 H H51 R1P . . . F 3 -22.988 50.222 -27.899 1 34.19 ? H51 R1P 402 A 1 HETATM 16 H H52 R1P . . . F 3 -21.75 50.28 -28.885 1 34.19 ? H52 R1P 402 A 1 HETATM 17 H HO5 R1P . . . F 3 -22.963 51.173 -30.357 1 28.34 ? HO5 R1P 402 A 1 HETATM 18 H H4 R1P . . . F 3 -23.831 48.537 -29.597 1 40.28 ? H4 R1P 402 A 1 HETATM 19 H H1 R1P . . . F 3 -20.06 47.685 -29.267 1 49.03 ? H1 R1P 402 A 1 HETATM 20 H H2 R1P . . . F 3 -20.856 47.872 -27.382 1 36.42 ? H2 R1P 402 A 1 HETATM 21 H HO2 R1P . . . F 3 -20.601 45.903 -26.744 1 36.48 ? HO2 R1P 402 A 1 HETATM 22 H H3 R1P . . . F 3 -23.138 48.031 -27.173 1 46.42 ? H3 R1P 402 A 1 # _model_server_stats.io_time_ms 39 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 22 #