data_4XJS # _model_server_result.job_id hBUR-7UVhDhxiGVdLPnWOg _model_server_result.datetime_utc '2024-11-13 13:59:19' _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 4xjs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 4XJS # _exptl.entry_id 4XJS _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 5-O-phosphono-alpha-D-ribofuranose _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 4XJS _cell.length_a 50.298 _cell.length_b 64.424 _cell.length_c 72.832 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XJS _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 disulf ? disulf1 A SG CYS 29 A CYS 67 1_555 A SG CYS 44 A CYS 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf2 A SG CYS 61 A CYS 99 1_555 A SG CYS 142 A CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.982 ? disulf ? disulf3 A SG CYS 81 A CYS 119 1_555 A SG CYS 163 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf4 A SG CYS 122 A CYS 160 1_555 A SG CYS 135 A CYS 173 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 216 A CYS 254 1_555 A SG CYS 237 A CYS 275 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? covale ? covale1 A OE2 GLU 188 A GLU 226 1_555 C C1 HSX . A HSX 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? # _chem_comp.formula 'C5 H11 O8 P' _chem_comp.formula_weight 230.11 _chem_comp.id HSX _chem_comp.mon_nstd_flag n _chem_comp.name 5-O-phosphono-alpha-D-ribofuranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms 5-O-phosphono-alpha-D-ribose;5-O-phosphono-D-ribose;5-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 O4 C1 HSX sing 193 n n C1 O1 HSX sing 194 n n C1 C2 HSX sing 195 n n C1 H1 HSX sing 196 n n O4 C4 HSX sing 197 n n C3 C2 HSX sing 198 n n C2 O2 HSX sing 199 n n C2 H2 HSX sing 200 n n O2 HO2 HSX sing 201 n n C4 C3 HSX sing 202 n n C3 O3 HSX sing 203 n n C3 H3 HSX sing 204 n n O3 HO3 HSX sing 205 n n C5 C4 HSX sing 206 n n C4 H4 HSX sing 207 n n O5 C5 HSX sing 208 n n C5 H51 HSX sing 209 n n C5 H52 HSX sing 210 n n P' O5 HSX sing 211 n n O1X P' HSX doub 212 n n O3X P' HSX sing 213 n n P' O2X HSX sing 214 n n O2X HO2X HSX sing 215 n n O3X HO3X HSX sing 216 n n O1 HO1 HSX sing 217 n n # _pdbx_chem_comp_identifier.comp_id HSX _pdbx_chem_comp_identifier.identifier a-D-Ribf5PO3 _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 4XJS _atom_sites.fract_transf_matrix[1][1] 0.019882 _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] 0.015522 _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] 0.01373 _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 2 733 A 1 401 1 733 733 . C 3 HSX A 1 402 1 HSX NMN . D 4 HOH A 1 501 5 HOH HOH . D 4 HOH A 2 502 3 HOH HOH . D 4 HOH A 3 503 4 HOH HOH . D 4 HOH A 4 504 14 HOH HOH . D 4 HOH A 5 505 21 HOH HOH . D 4 HOH A 6 506 12 HOH HOH . D 4 HOH A 7 507 1 HOH HOH . D 4 HOH A 8 508 2 HOH HOH . D 4 HOH A 9 509 6 HOH HOH . D 4 HOH A 10 510 7 HOH HOH . D 4 HOH A 11 511 8 HOH HOH . D 4 HOH A 12 512 9 HOH HOH . D 4 HOH A 13 513 10 HOH HOH . D 4 HOH A 14 514 11 HOH HOH . D 4 HOH A 15 515 13 HOH HOH . D 4 HOH A 16 516 15 HOH HOH . D 4 HOH A 17 517 16 HOH HOH . D 4 HOH A 18 518 17 HOH HOH . D 4 HOH A 19 519 18 HOH HOH . D 4 HOH A 20 520 19 HOH HOH . D 4 HOH A 21 521 20 HOH HOH . D 4 HOH A 22 522 22 HOH HOH . D 4 HOH A 23 523 23 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 C1 HSX . . . C 3 -8.147 -15.758 18.626 1 63.02 ? C1 HSX 402 A 1 HETATM 2 O O4 HSX . . . C 3 -8.688 -17.059 18.402 1 61.7 ? O4 HSX 402 A 1 HETATM 3 C C2 HSX . . . C 3 -9.056 -14.776 17.904 1 66.44 ? C2 HSX 402 A 1 HETATM 4 O O2 HSX . . . C 3 -9.283 -13.631 18.712 1 64.34 ? O2 HSX 402 A 1 HETATM 5 C C3 HSX . . . C 3 -10.361 -15.49 17.746 1 64.5 ? C3 HSX 402 A 1 HETATM 6 O O3 HSX . . . C 3 -11.304 -14.855 18.601 1 62.84 ? O3 HSX 402 A 1 HETATM 7 C C4 HSX . . . C 3 -10.099 -16.903 18.219 1 61.52 ? C4 HSX 402 A 1 HETATM 8 C C5 HSX . . . C 3 -10.602 -17.823 17.138 1 59.34 ? C5 HSX 402 A 1 HETATM 9 O O5 HSX . . . C 3 -9.948 -19.079 17.194 1 57.57 ? O5 HSX 402 A 1 HETATM 10 P P' HSX . . . C 3 -10.859 -20.369 17.592 1 56.5 ? P' HSX 402 A 1 HETATM 11 O O1X HSX . . . C 3 -12.081 -20.203 16.715 1 57.25 ? O1X HSX 402 A 1 HETATM 12 O O2X HSX . . . C 3 -11.089 -20.253 19.079 1 56.89 ? O2X HSX 402 A 1 HETATM 13 O O3X HSX . . . C 3 -9.96 -21.515 17.193 1 57.78 ? O3X HSX 402 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 13 #