data_4X5C # _model_server_result.job_id qt9tvIv3p0t3hsw5l41McQ _model_server_result.datetime_utc '2025-02-17 10:29:24' _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 4x5c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":401}' # _entry.id 4X5C # _exptl.entry_id 4X5C _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 175.959 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PYROPHOSPHATE 2-' _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 110.6 _cell.angle_gamma 90 _cell.entry_id 4X5C _cell.length_a 94.485 _cell.length_b 78.106 _cell.length_c 100.55 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4X5C _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _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,J _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 4 _struct_asym.id F _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 OG SER 119 A SER 119 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.927 ? metalc ? metalc2 A OD1 ASP 251 A ASP 251 1_555 D MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc3 A OE1 GLU 252 A GLU 252 1_555 D MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.706 ? metalc ? metalc4 A OE1 GLU 252 A GLU 252 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc5 C O2A PRP . A PRP 401 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.619 ? metalc ? metalc6 C O3A PRP . A PRP 401 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? metalc ? metalc7 C O3B PRP . A PRP 401 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? metalc ? metalc8 D MG MG . A MG 402 1_555 I O HOH . A HOH 530 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc9 D MG MG . A MG 402 1_555 I O HOH . A HOH 532 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? metalc ? metalc10 D MG MG . A MG 402 1_555 I O HOH . A HOH 533 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? metalc ? metalc11 E MG MG . A MG 403 1_555 I O HOH . A HOH 530 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc12 E MG MG . A MG 403 1_555 I O HOH . A HOH 531 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? metalc ? metalc13 B OG SER 119 B SER 119 1_555 G MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.528 ? metalc ? metalc14 B OD1 ASP 251 B ASP 251 1_555 H MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? metalc ? metalc15 B OE2 GLU 252 B GLU 252 1_555 G MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.575 ? metalc ? metalc16 B OE2 GLU 252 B GLU 252 1_555 H MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.661 ? metalc ? metalc17 F O3 POP . B POP 401 1_555 G MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.718 ? metalc ? metalc18 F O6 POP . B POP 401 1_555 G MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.159 ? metalc ? metalc19 G MG MG . B MG 402 1_555 J O HOH . B HOH 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc20 G MG MG . B MG 402 1_555 J O HOH . B HOH 523 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc21 H MG MG . B MG 403 1_555 J O HOH . B HOH 520 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc22 H MG MG . B MG 403 1_555 J O HOH . B HOH 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.549 ? metalc ? metalc23 H MG MG . B MG 403 1_555 J O HOH . B HOH 522 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.245 ? metalc ? metalc24 H MG MG . B MG 403 1_555 J O HOH . B HOH 524 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.901 ? # _chem_comp.formula 'H2 O7 P2 -2' _chem_comp.formula_weight 175.959 _chem_comp.id POP _chem_comp.mon_nstd_flag . _chem_comp.name 'PYROPHOSPHATE 2-' _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 P1 O1 POP doub 260 n n P1 O2 POP sing 261 n n P1 O3 POP sing 262 n n P1 O POP sing 263 n n O2 HO2 POP sing 264 n n O P2 POP sing 265 n n P2 O4 POP doub 266 n n P2 O5 POP sing 267 n n P2 O6 POP sing 268 n n O5 HO5 POP sing 269 n n # _atom_sites.entry_id 4X5C _atom_sites.fract_transf_matrix[1][1] 0.010584 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003979 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012803 _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] 0.010625 _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 C 2 PRP A 1 401 401 PRP PRP . D 3 MG A 1 402 402 MG MG . E 3 MG A 1 403 403 MG MG . F 4 POP B 1 401 401 POP POP . G 3 MG B 1 402 402 MG MG . H 3 MG B 1 403 403 MG MG . I 5 HOH A 1 501 501 HOH HOH . I 5 HOH A 2 502 502 HOH HOH . I 5 HOH A 3 503 503 HOH HOH . I 5 HOH A 4 504 505 HOH HOH . I 5 HOH A 5 505 506 HOH HOH . I 5 HOH A 6 506 504 HOH HOH . I 5 HOH A 7 507 507 HOH HOH . I 5 HOH A 8 508 508 HOH HOH . I 5 HOH A 9 509 509 HOH HOH . I 5 HOH A 10 510 510 HOH HOH . I 5 HOH A 11 511 511 HOH HOH . I 5 HOH A 12 512 512 HOH HOH . I 5 HOH A 13 513 513 HOH HOH . I 5 HOH A 14 514 514 HOH HOH . I 5 HOH A 15 515 515 HOH HOH . I 5 HOH A 16 516 516 HOH HOH . I 5 HOH A 17 517 517 HOH HOH . I 5 HOH A 18 518 518 HOH HOH . I 5 HOH A 19 519 519 HOH HOH . I 5 HOH A 20 520 520 HOH HOH . I 5 HOH A 21 521 521 HOH HOH . I 5 HOH A 22 522 522 HOH HOH . I 5 HOH A 23 523 523 HOH HOH . I 5 HOH A 24 524 524 HOH HOH . I 5 HOH A 25 525 525 HOH HOH . I 5 HOH A 26 526 526 HOH HOH . I 5 HOH A 27 527 527 HOH HOH . I 5 HOH A 28 528 528 HOH HOH . I 5 HOH A 29 529 529 HOH HOH . I 5 HOH A 30 530 530 HOH HOH . I 5 HOH A 31 531 531 HOH HOH . I 5 HOH A 32 532 532 HOH HOH . I 5 HOH A 33 533 533 HOH HOH . I 5 HOH A 34 534 534 HOH HOH . I 5 HOH A 35 535 535 HOH HOH . I 5 HOH A 36 536 536 HOH HOH . I 5 HOH A 37 537 537 HOH HOH . J 5 HOH B 1 501 501 HOH HOH . J 5 HOH B 2 502 502 HOH HOH . J 5 HOH B 3 503 504 HOH HOH . J 5 HOH B 4 504 505 HOH HOH . J 5 HOH B 5 505 503 HOH HOH . J 5 HOH B 6 506 506 HOH HOH . J 5 HOH B 7 507 507 HOH HOH . J 5 HOH B 8 508 508 HOH HOH . J 5 HOH B 9 509 509 HOH HOH . J 5 HOH B 10 510 510 HOH HOH . J 5 HOH B 11 511 511 HOH HOH . J 5 HOH B 12 512 512 HOH HOH . J 5 HOH B 13 513 513 HOH HOH . J 5 HOH B 14 514 514 HOH HOH . J 5 HOH B 15 515 515 HOH HOH . J 5 HOH B 16 516 516 HOH HOH . J 5 HOH B 17 517 517 HOH HOH . J 5 HOH B 18 518 518 HOH HOH . J 5 HOH B 19 519 519 HOH HOH . J 5 HOH B 20 520 520 HOH HOH . J 5 HOH B 21 521 521 HOH HOH . J 5 HOH B 22 522 522 HOH HOH . J 5 HOH B 23 523 523 HOH HOH . J 5 HOH B 24 524 524 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 P1 POP . . . F 4 -13.858 -32.091 9.659 1 69.48 ? P1 POP 401 B 1 HETATM 2 O O1 POP . . . F 4 -13.956 -32.187 8.158 1 67.22 ? O1 POP 401 B 1 HETATM 3 O O2 POP . . . F 4 -12.967 -30.979 10.174 1 67.38 ? O2 POP 401 B 1 HETATM 4 O O3 POP . . . F 4 -15.218 -32.126 10.333 1 73.72 ? O3 POP 401 B 1 HETATM 5 O O POP . . . F 4 -13.048 -33.443 10.117 1 76.31 ? O POP 401 B 1 HETATM 6 P P2 POP . . . F 4 -13.599 -34.943 10.474 1 76.48 ? P2 POP 401 B 1 HETATM 7 O O4 POP . . . F 4 -13.914 -35.601 9.15 1 72.81 ? O4 POP 401 B 1 HETATM 8 O O5 POP . . . F 4 -12.431 -35.598 11.196 1 66.24 ? O5 POP 401 B 1 HETATM 9 O O6 POP . . . F 4 -14.842 -34.696 11.305 1 71.77 ? O6 POP 401 B 1 # _model_server_stats.io_time_ms 70 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 9 #