data_1XPO # _model_server_result.job_id 1SSFKIR92eHhO9dYzXvA4w _model_server_result.datetime_utc '2024-11-09 02:20:34' _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 1xpo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":1600}' # _entry.id 1XPO # _exptl.entry_id 1XPO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.247 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 108.79 _cell.angle_gamma 90 _cell.entry_id 1XPO _cell.length_a 211.933 _cell.length_b 111.37 _cell.length_c 161.033 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XPO _symmetry.cell_setting monoclinic _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 ? dimeric 2 author_defined_assembly 3 ? dimeric 2 author_defined_assembly 4 ? dimeric 2 author_defined_assembly 5 ? dimeric 2 author_defined_assembly 6 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,G,M,N 1 1 B,H,O,P,Q 2 1 C,I,R,S,T 3 1 D,J,U,V,W 4 1 E,K,X,Y,Z 5 1 F,L,AA,BA,CA 6 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 ? 4 N N N ? 4 P N N ? 4 S N N ? 4 V N N ? 4 Y N N ? 4 BA N 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 N O2G AGS . A AGS 1600 1_555 M MG MG . A MG 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.951 ? metalc ? metalc2 M MG MG . A MG 1601 1_555 G NH2 ARG 212 A ARG 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? metalc ? metalc3 M MG MG . A MG 1601 1_555 G OE2 GLU 215 A GLU 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc4 M MG MG . A MG 1601 1_555 G OG1 THR 185 A THR 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.814 ? metalc ? metalc5 O MG MG . B MG 2601 1_555 Q O2A BCM . B BCM 2701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.703 ? metalc ? metalc6 O MG MG . B MG 2601 1_555 P O2G AGS . B AGS 2600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.494 ? metalc ? metalc7 O MG MG . B MG 2601 1_555 P O2B AGS . B AGS 2600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.829 ? metalc ? metalc8 O MG MG . B MG 2601 1_555 H OG1 THR 185 B THR 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.704 ? metalc ? metalc9 R MG MG . C MG 3601 1_555 I OG1 THR 185 C THR 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc10 R MG MG . C MG 3601 1_555 S O2G AGS . C AGS 3600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.016 ? metalc ? metalc11 R MG MG . C MG 3601 1_555 S O2B AGS . C AGS 3600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.476 ? metalc ? metalc12 R MG MG . C MG 3601 1_555 T O9 BCM . C BCM 3701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.872 ? metalc ? metalc13 U MG MG . D MG 4601 1_555 V O2B AGS . D AGS 4600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.804 ? metalc ? metalc14 U MG MG . D MG 4601 1_555 V O2G AGS . D AGS 4600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.448 ? metalc ? metalc15 U MG MG . D MG 4601 1_555 J OG1 THR 185 D THR 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? covale ? covale1 Y O2G AGS . E AGS 5600 1_555 J NH2 ARG 366 D ARG 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.899 ? metalc ? metalc16 X MG MG . E MG 5601 1_555 K OG1 THR 185 E THR 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? metalc ? metalc17 X MG MG . E MG 5601 1_555 K NH2 ARG 212 E ARG 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.739 ? metalc ? metalc18 X MG MG . E MG 5601 1_555 Z O2A BCM . E BCM 5701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.823 ? metalc ? metalc19 X MG MG . E MG 5601 1_555 Y O2G AGS . E AGS 5600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.491 ? metalc ? metalc20 X MG MG . E MG 5601 1_555 J NH2 ARG 366 D ARG 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? metalc ? metalc21 AA MG MG . F MG 6601 1_555 BA O2G AGS . F AGS 6600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc22 AA MG MG . F MG 6601 1_555 L OE1 GLU 215 F GLU 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.028 ? metalc ? metalc23 AA MG MG . F MG 6601 1_555 L OG1 THR 185 F THR 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.366 ? metalc ? metalc24 AA MG MG . F MG 6601 1_555 BA O2B AGS . F AGS 6600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.016 ? # _chem_comp.formula 'C10 H16 N5 O12 P3 S' _chem_comp.formula_weight 523.247 _chem_comp.id AGS _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ATP-GAMMA-S;ADENOSINE 5'-(3-THIOTRIPHOSPHATE);ADENOSINE 5'-(GAMMA-THIOTRIPHOSPHATE);ADENOSINE-5'-DIPHOSPHATE MONOTHIOPHOSPHATE" # _atom_sites.entry_id 1XPO _atom_sites.fract_transf_matrix[1][1] 0.004718 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001605 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008979 _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] 0.006559 _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 M 3 MG A 1 1601 1601 MG MG . N 4 AGS A 1 1600 1600 AGS AGS . O 3 MG B 1 2601 2601 MG MG . P 4 AGS B 1 2600 2600 AGS AGS . Q 5 BCM B 1 2701 2701 BCM BCM . R 3 MG C 1 3601 3601 MG MG . S 4 AGS C 1 3600 3600 AGS AGS . T 5 BCM C 1 3701 3701 BCM BCM . U 3 MG D 1 4601 4601 MG MG . V 4 AGS D 1 4600 4600 AGS AGS . W 5 BCM D 1 4701 4701 BCM BCM . X 3 MG E 1 5601 5601 MG MG . Y 4 AGS E 1 5600 5600 AGS AGS . Z 5 BCM E 1 5701 5701 BCM BCM . AA 3 MG F 1 6601 6601 MG MG . BA 4 AGS F 1 6600 6600 AGS AGS . CA 5 BCM F 1 6701 6701 BCM BCM . # 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 PG AGS . . . N 4 5.803 -30.4 24.184 1 104.43 ? PG AGS 1600 A 1 HETATM 2 S S1G AGS . . . N 4 7.468 -31.366 23.429 1 104.72 ? S1G AGS 1600 A 1 HETATM 3 O O2G AGS . . . N 4 4.74 -30.21 23.022 1 104.58 ? O2G AGS 1600 A 1 HETATM 4 O O3G AGS . . . N 4 6.232 -28.98 24.748 1 104.55 ? O3G AGS 1600 A 1 HETATM 5 P PB AGS . . . N 4 3.788 -30.915 26.092 1 102.72 ? PB AGS 1600 A 1 HETATM 6 O O1B AGS . . . N 4 4.034 -29.929 27.31 1 102.78 ? O1B AGS 1600 A 1 HETATM 7 O O2B AGS . . . N 4 2.771 -30.251 25.078 1 102.76 ? O2B AGS 1600 A 1 HETATM 8 O O3B AGS . . . N 4 5.175 -31.303 25.367 1 103.68 ? O3B AGS 1600 A 1 HETATM 9 P PA AGS . . . N 4 3.572 -33.775 26.173 1 100.28 ? PA AGS 1600 A 1 HETATM 10 O O1A AGS . . . N 4 4.012 -33.804 24.642 1 100.34 ? O1A AGS 1600 A 1 HETATM 11 O O2A AGS . . . N 4 2.407 -34.812 26.45 1 100.34 ? O2A AGS 1600 A 1 HETATM 12 O O3A AGS . . . N 4 3.167 -32.292 26.669 1 101.54 ? O3A AGS 1600 A 1 HETATM 13 O O5' AGS . . . N 4 4.836 -34.136 27.098 1 99.3 ? O5' AGS 1600 A 1 HETATM 14 C C5' AGS . . . N 4 4.833 -33.826 28.491 1 97.63 ? C5' AGS 1600 A 1 HETATM 15 C C4' AGS . . . N 4 5.438 -34.915 29.373 1 96.39 ? C4' AGS 1600 A 1 HETATM 16 O O4' AGS . . . N 4 4.783 -34.827 30.639 1 95.84 ? O4' AGS 1600 A 1 HETATM 17 C C3' AGS . . . N 4 5.197 -36.312 28.82 1 95.91 ? C3' AGS 1600 A 1 HETATM 18 O O3' AGS . . . N 4 6.437 -36.976 28.623 1 95.93 ? O3' AGS 1600 A 1 HETATM 19 C C2' AGS . . . N 4 4.341 -37.037 29.845 1 95.57 ? C2' AGS 1600 A 1 HETATM 20 O O2' AGS . . . N 4 5.011 -38.181 30.35 1 95.59 ? O2' AGS 1600 A 1 HETATM 21 C C1' AGS . . . N 4 4.104 -36.041 30.971 1 95.25 ? C1' AGS 1600 A 1 HETATM 22 N N9 AGS . . . N 4 2.654 -35.756 31.146 1 94.52 ? N9 AGS 1600 A 1 HETATM 23 C C8 AGS . . . N 4 1.95 -34.684 30.681 1 94.27 ? C8 AGS 1600 A 1 HETATM 24 N N7 AGS . . . N 4 0.622 -34.727 31.03 1 94.1 ? N7 AGS 1600 A 1 HETATM 25 C C5 AGS . . . N 4 0.463 -35.855 31.745 1 93.94 ? C5 AGS 1600 A 1 HETATM 26 C C6 AGS . . . N 4 -0.614 -36.595 32.449 1 93.79 ? C6 AGS 1600 A 1 HETATM 27 N N6 AGS . . . N 4 -1.876 -36.108 32.461 1 93.74 ? N6 AGS 1600 A 1 HETATM 28 N N1 AGS . . . N 4 -0.323 -37.768 33.075 1 93.77 ? N1 AGS 1600 A 1 HETATM 29 C C2 AGS . . . N 4 0.917 -38.308 33.096 1 93.78 ? C2 AGS 1600 A 1 HETATM 30 N N3 AGS . . . N 4 1.972 -37.729 32.494 1 93.89 ? N3 AGS 1600 A 1 HETATM 31 C C4 AGS . . . N 4 1.763 -36.484 31.798 1 94.1 ? C4 AGS 1600 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 34 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #