data_2XB2 # _model_server_result.job_id v-yIy5ajHDOLmylbNzYU7g _model_server_result.datetime_utc '2025-01-02 16:41:15' _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 2xb2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":1413}' # _entry.id 2XB2 # _exptl.entry_id 2XB2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 9 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 2 _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 2XB2 _cell.length_a 134.8 _cell.length_b 134.8 _cell.length_c 227.25 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2XB2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 21 2' # 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 hexameric 6 author_and_software_defined_assembly 1 PISA hexameric 6 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression G,H,J,K,L,M,P,Q 1 1 A,B,C,D,F,I,N,O 2 1 E 3 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 ? 9 O N N ? 9 Q 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 A OG1 THR 89 A THR 89 1_555 N MG MG . A MG 1412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc2 A OE2 GLU 188 A GLU 188 1_555 N MG MG . A MG 1412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.687 ? metalc ? metalc3 N MG MG . A MG 1412 1_555 O O1G ANP . A ANP 1413 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc4 N MG MG . A MG 1412 1_555 O O1B ANP . A ANP 1413 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.757 ? metalc ? metalc5 K OG1 THR 89 X THR 89 1_555 P MG MG . X MG 1412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? metalc ? metalc6 K OE2 GLU 188 X GLU 188 1_555 P MG MG . X MG 1412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.948 ? metalc ? metalc7 P MG MG . X MG 1412 1_555 Q O1B ANP . X ANP 1413 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc8 P MG MG . X MG 1412 1_555 Q O1G ANP . X ANP 1413 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id ANP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 PG O1G ANP doub 13 n n PG O2G ANP sing 14 n n PG O3G ANP sing 15 n n PG N3B ANP sing 16 n n O2G HOG2 ANP sing 17 n n O3G HOG3 ANP sing 18 n n PB O1B ANP doub 19 n n PB O2B ANP sing 20 n n PB N3B ANP sing 21 n n PB O3A ANP sing 22 n n O2B HOB2 ANP sing 23 n n N3B HNB1 ANP sing 24 n n PA O1A ANP doub 25 n n PA O2A ANP sing 26 n n PA O3A ANP sing 27 n n PA O5' ANP sing 28 n n O2A HOA2 ANP sing 29 n n O5' C5' ANP sing 30 n n C5' C4' ANP sing 31 n n C5' "H5'1" ANP sing 32 n n C5' "H5'2" ANP sing 33 n n C4' O4' ANP sing 34 n n C4' C3' ANP sing 35 n n C4' H4' ANP sing 36 n n O4' C1' ANP sing 37 n n C3' O3' ANP sing 38 n n C3' C2' ANP sing 39 n n C3' H3' ANP sing 40 n n O3' HO3' ANP sing 41 n n C2' O2' ANP sing 42 n n C2' C1' ANP sing 43 n n C2' H2' ANP sing 44 n n O2' HO2' ANP sing 45 n n C1' N9 ANP sing 46 n n C1' H1' ANP sing 47 n n N9 C8 ANP sing 48 n y N9 C4 ANP sing 49 n y C8 N7 ANP doub 50 n y C8 H8 ANP sing 51 n n N7 C5 ANP sing 52 n y C5 C6 ANP sing 53 n y C5 C4 ANP doub 54 n y C6 N6 ANP sing 55 n n C6 N1 ANP doub 56 n y N6 HN61 ANP sing 57 n n N6 HN62 ANP sing 58 n n N1 C2 ANP sing 59 n y C2 N3 ANP doub 60 n y C2 H2 ANP sing 61 n n N3 C4 ANP sing 62 n y # _atom_sites.entry_id 2XB2 _atom_sites.fract_transf_matrix[1][1] 0.007418 _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] 0.007418 _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] 0.0044 _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 N 8 MG A 1 1412 1412 MG MG . O 9 ANP A 1 1413 1413 ANP ANP . P 8 MG X 1 1412 1412 MG MG . Q 9 ANP X 1 1413 1413 ANP ANP . # 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 ANP . . . O 9 21.796 -43.246 -8.637 1 35.71 ? PG ANP 1413 A 1 HETATM 2 O O1G ANP . . . O 9 20.315 -42.732 -8.394 1 36.48 ? O1G ANP 1413 A 1 HETATM 3 O O2G ANP . . . O 9 21.796 -44.34 -7.499 1 39.05 ? O2G ANP 1413 A 1 HETATM 4 O O3G ANP . . . O 9 22.104 -43.746 -10 1 37.26 ? O3G ANP 1413 A 1 HETATM 5 P PB ANP . . . O 9 22.325 -40.533 -9.048 1 32.86 ? PB ANP 1413 A 1 HETATM 6 O O1B ANP . . . O 9 20.756 -40.419 -9.045 1 30.42 ? O1B ANP 1413 A 1 HETATM 7 O O2B ANP . . . O 9 23.053 -40.368 -10.328 1 30.69 ? O2B ANP 1413 A 1 HETATM 8 N N3B ANP . . . O 9 22.836 -41.98 -8.435 1 34.62 ? N3B ANP 1413 A 1 HETATM 9 P PA ANP . . . O 9 22.637 -38.473 -6.811 1 35.73 ? PA ANP 1413 A 1 HETATM 10 O O1A ANP . . . O 9 22.234 -39.625 -5.823 1 34.06 ? O1A ANP 1413 A 1 HETATM 11 O O2A ANP . . . O 9 21.683 -37.359 -6.955 1 33.69 ? O2A ANP 1413 A 1 HETATM 12 O O3A ANP . . . O 9 22.752 -39.253 -8.194 1 33.15 ? O3A ANP 1413 A 1 HETATM 13 O O5' ANP . . . O 9 24.021 -38.047 -6.08 1 34.39 ? O5' ANP 1413 A 1 HETATM 14 C C5' ANP . . . O 9 24.554 -38.791 -4.998 1 35.68 ? C5' ANP 1413 A 1 HETATM 15 C C4' ANP . . . O 9 25.927 -38.201 -4.58 1 36.22 ? C4' ANP 1413 A 1 HETATM 16 O O4' ANP . . . O 9 26.234 -37.138 -5.495 1 36.41 ? O4' ANP 1413 A 1 HETATM 17 C C3' ANP . . . O 9 26.097 -37.52 -3.177 1 37.09 ? C3' ANP 1413 A 1 HETATM 18 O O3' ANP . . . O 9 27.159 -37.754 -2.351 1 34.79 ? O3' ANP 1413 A 1 HETATM 19 C C2' ANP . . . O 9 25.728 -36.02 -3.548 1 36.8 ? C2' ANP 1413 A 1 HETATM 20 O O2' ANP . . . O 9 26.144 -35.123 -2.585 1 39.22 ? O2' ANP 1413 A 1 HETATM 21 C C1' ANP . . . O 9 26.744 -36.036 -4.733 1 35.47 ? C1' ANP 1413 A 1 HETATM 22 N N9 ANP . . . O 9 27.164 -34.965 -5.637 1 33.67 ? N9 ANP 1413 A 1 HETATM 23 C C8 ANP . . . O 9 26.237 -34.66 -6.702 1 33.36 ? C8 ANP 1413 A 1 HETATM 24 N N7 ANP . . . O 9 26.663 -33.68 -7.497 1 34.76 ? N7 ANP 1413 A 1 HETATM 25 C C5 ANP . . . O 9 27.912 -33.307 -6.964 1 31.43 ? C5 ANP 1413 A 1 HETATM 26 C C6 ANP . . . O 9 28.815 -32.312 -7.409 1 33.52 ? C6 ANP 1413 A 1 HETATM 27 N N6 ANP . . . O 9 28.559 -31.534 -8.499 1 33.9 ? N6 ANP 1413 A 1 HETATM 28 N N1 ANP . . . O 9 29.993 -32.124 -6.718 1 33.8 ? N1 ANP 1413 A 1 HETATM 29 C C2 ANP . . . O 9 30.191 -32.933 -5.637 1 33.48 ? C2 ANP 1413 A 1 HETATM 30 N N3 ANP . . . O 9 29.414 -33.918 -5.105 1 31.95 ? N3 ANP 1413 A 1 HETATM 31 C C4 ANP . . . O 9 28.248 -34.089 -5.808 1 31.82 ? C4 ANP 1413 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 31 #