data_4Y7F # _model_server_result.job_id 1pPE_LxRIRk1SfMEy5RFoA _model_server_result.datetime_utc '2024-11-22 11:51:56' _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 4y7f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 4Y7F # _exptl.entry_id 4Y7F _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 170.058 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '3-(phosphonooxy)propanoic acid' _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 4Y7F _cell.length_a 97.94 _cell.length_b 97.94 _cell.length_c 126.78 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4Y7F _symmetry.cell_setting ? _symmetry.Int_Tables_number 80 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 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 metalc ? metalc1 A OD2 ASP 140 A ASP 136 1_555 B MN MN . A MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc2 A ND1 HIS 262 A HIS 258 1_555 B MN MN . A MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? metalc ? metalc3 B MN MN . A MN 401 1_555 D O1A UPG . A UPG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc4 B MN MN . A MN 401 1_555 D O2B UPG . A UPG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? metalc ? metalc5 B MN MN . A MN 401 1_555 G O HOH . A HOH 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc6 B MN MN . A MN 401 1_555 G O HOH . A HOH 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.216 ? # _chem_comp.formula 'C3 H7 O6 P' _chem_comp.formula_weight 170.058 _chem_comp.id 48X _chem_comp.mon_nstd_flag . _chem_comp.name '3-(phosphonooxy)propanoic 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 O3P P 48X doub 1 n n O4P P 48X sing 2 n n P O2P 48X sing 3 n n P O1P 48X sing 4 n n O1P C3 48X sing 5 n n C3 C2 48X sing 6 n n C2 C1 48X sing 7 n n C1 O2 48X doub 8 n n C1 O1 48X sing 9 n n O1 H1 48X sing 10 n n O4P H2 48X sing 11 n n O2P H3 48X sing 12 n n C3 H4 48X sing 13 n n C3 H5 48X sing 14 n n C2 H6 48X sing 15 n n C2 H7 48X sing 16 n n # _atom_sites.entry_id 4Y7F _atom_sites.fract_transf_matrix[1][1] 0.01021 _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] 0.01021 _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] 0.007888 _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 MN A 1 401 1 MN MN . C 3 48X A 1 402 1 48X PPA . D 4 UPG A 1 403 2 UPG UPG . E 5 SO4 A 1 404 4 SO4 SO4 . F 6 EDO A 1 405 1 EDO EDO . G 7 HOH A 1 501 37 HOH HOH . G 7 HOH A 2 502 34 HOH HOH . G 7 HOH A 3 503 29 HOH HOH . G 7 HOH A 4 504 39 HOH HOH . G 7 HOH A 5 505 2 HOH HOH . G 7 HOH A 6 506 1 HOH HOH . G 7 HOH A 7 507 3 HOH HOH . G 7 HOH A 8 508 5 HOH HOH . G 7 HOH A 9 509 8 HOH HOH . G 7 HOH A 10 510 10 HOH HOH . G 7 HOH A 11 511 11 HOH HOH . G 7 HOH A 12 512 14 HOH HOH . G 7 HOH A 13 513 16 HOH HOH . G 7 HOH A 14 514 23 HOH HOH . G 7 HOH A 15 515 24 HOH HOH . G 7 HOH A 16 516 25 HOH HOH . G 7 HOH A 17 517 26 HOH HOH . G 7 HOH A 18 518 27 HOH HOH . G 7 HOH A 19 519 28 HOH HOH . G 7 HOH A 20 520 31 HOH HOH . G 7 HOH A 21 521 32 HOH HOH . G 7 HOH A 22 522 33 HOH HOH . G 7 HOH A 23 523 35 HOH HOH . G 7 HOH A 24 524 36 HOH HOH . G 7 HOH A 25 525 38 HOH HOH . G 7 HOH A 26 526 40 HOH HOH . G 7 HOH A 27 527 42 HOH HOH . G 7 HOH A 28 528 43 HOH HOH . G 7 HOH A 29 529 44 HOH HOH . G 7 HOH A 30 530 46 HOH HOH . G 7 HOH A 31 531 47 HOH HOH . G 7 HOH A 32 532 48 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 48X . . . C 3 7.152 -1.57 -32.788 1 98.37 ? P 48X 402 A 1 HETATM 2 O O1 48X . . . C 3 9.156 -2.122 -27.76 1 89.28 ? O1 48X 402 A 1 HETATM 3 O O2 48X . . . C 3 7.965 -0.404 -28.319 1 88.76 ? O2 48X 402 A 1 HETATM 4 O O4P 48X . . . C 3 8.202 -0.495 -32.966 1 106.15 ? O4P 48X 402 A 1 HETATM 5 O O2P 48X . . . C 3 5.944 -0.998 -32.086 1 107.37 ? O2P 48X 402 A 1 HETATM 6 O O3P 48X . . . C 3 6.688 -2.077 -34.137 1 91.87 ? O3P 48X 402 A 1 HETATM 7 O O1P 48X . . . C 3 7.795 -2.745 -31.933 1 103.47 ? O1P 48X 402 A 1 HETATM 8 C C3 48X . . . C 3 8.501 -2.423 -30.757 1 98.58 ? C3 48X 402 A 1 HETATM 9 C C2 48X . . . C 3 7.586 -2.439 -29.555 1 91.55 ? C2 48X 402 A 1 HETATM 10 C C1 48X . . . C 3 8.268 -1.614 -28.484 1 99.1 ? C1 48X 402 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 10 #