data_6P1L # _model_server_result.job_id EKcHgH_6yD2cMgTxm63Wkg _model_server_result.datetime_utc '2024-10-19 22:42:51' _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 6p1l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":1102}' # _entry.id 6P1L # _exptl.entry_id 6P1L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 101.18 _cell.angle_gamma 90 _cell.entry_id 6P1L _cell.length_a 72.6 _cell.length_b 103.15 _cell.length_c 87.1 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6P1L _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,F,G,J,K,L,P 1 1 B,D,H,I,M,N,O,Q,R 2 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 ? 3 F N N ? 3 I N N ? 3 K N N ? 3 N 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 OD1 ASN 147 A ASN 842 1_555 E MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc2 A OD2 ASP 160 A ASP 855 1_555 E MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? metalc ? metalc3 E MG MG . A MG 1101 1_555 F O2A ANP . A ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.877 ? metalc ? metalc4 E MG MG . A MG 1101 1_555 F O3G ANP . A ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.595 ? metalc ? metalc5 E MG MG . A MG 1101 1_555 F O1B ANP . A ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.971 ? metalc ? metalc6 E MG MG . A MG 1101 1_555 P O HOH . A HOH 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc7 B OD1 ASN 147 B ASN 842 1_555 H MG MG . B MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.904 ? metalc ? metalc8 B OD2 ASP 160 B ASP 855 1_555 H MG MG . B MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.831 ? metalc ? metalc9 H MG MG . B MG 1101 1_555 I O1G ANP . B ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc10 H MG MG . B MG 1101 1_555 I O2A ANP . B ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.926 ? metalc ? metalc11 H MG MG . B MG 1101 1_555 I O1B ANP . B ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.65 ? metalc ? metalc12 H MG MG . B MG 1101 1_555 Q O HOH . B HOH 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.693 ? metalc ? metalc13 C OD1 ASN 147 C ASN 842 1_555 J MG MG . C MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? metalc ? metalc14 C OD2 ASP 160 C ASP 855 1_555 J MG MG . C MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.88 ? metalc ? metalc15 J MG MG . C MG 1101 1_555 K O1G ANP . C ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.769 ? metalc ? metalc16 J MG MG . C MG 1101 1_555 K O1B ANP . C ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc17 J MG MG . C MG 1101 1_555 K O2A ANP . C ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.904 ? metalc ? metalc18 D OD1 ASN 147 D ASN 842 1_555 M MG MG . D MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? metalc ? metalc19 D OD2 ASP 160 D ASP 855 1_555 M MG MG . D MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.838 ? metalc ? metalc20 M MG MG . D MG 1101 1_555 N O1B ANP . D ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc21 M MG MG . D MG 1101 1_555 N O2A ANP . D ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.969 ? metalc ? metalc22 M MG MG . D MG 1101 1_555 N O1G ANP . D ANP 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? metalc ? metalc23 M MG MG . D MG 1101 1_555 R O HOH . D HOH 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? # _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 57 n n PG O2G ANP sing 58 n n PG O3G ANP sing 59 n n PG N3B ANP sing 60 n n O2G HOG2 ANP sing 61 n n O3G HOG3 ANP sing 62 n n PB O1B ANP doub 63 n n PB O2B ANP sing 64 n n PB N3B ANP sing 65 n n PB O3A ANP sing 66 n n O2B HOB2 ANP sing 67 n n N3B HNB1 ANP sing 68 n n PA O1A ANP doub 69 n n PA O2A ANP sing 70 n n PA O3A ANP sing 71 n n PA O5' ANP sing 72 n n O2A HOA2 ANP sing 73 n n O5' C5' ANP sing 74 n n C5' C4' ANP sing 75 n n C5' "H5'1" ANP sing 76 n n C5' "H5'2" ANP sing 77 n n C4' O4' ANP sing 78 n n C4' C3' ANP sing 79 n n C4' H4' ANP sing 80 n n O4' C1' ANP sing 81 n n C3' O3' ANP sing 82 n n C3' C2' ANP sing 83 n n C3' H3' ANP sing 84 n n O3' HO3' ANP sing 85 n n C2' O2' ANP sing 86 n n C2' C1' ANP sing 87 n n C2' H2' ANP sing 88 n n O2' HO2' ANP sing 89 n n C1' N9 ANP sing 90 n n C1' H1' ANP sing 91 n n N9 C8 ANP sing 92 n y N9 C4 ANP sing 93 n y C8 N7 ANP doub 94 n y C8 H8 ANP sing 95 n n N7 C5 ANP sing 96 n y C5 C6 ANP sing 97 n y C5 C4 ANP doub 98 n y C6 N6 ANP sing 99 n n C6 N1 ANP doub 100 n y N6 HN61 ANP sing 101 n n N6 HN62 ANP sing 102 n n N1 C2 ANP sing 103 n y C2 N3 ANP doub 104 n y C2 H2 ANP sing 105 n n N3 C4 ANP sing 106 n y # _atom_sites.entry_id 6P1L _atom_sites.fract_transf_matrix[1][1] 0.013774 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002722 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009695 _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] 0.011703 _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 E 2 MG A 1 1101 1101 MG MG . F 3 ANP A 1 1102 1102 ANP ANP . G 4 9LL A 1 1103 1201 9LL EAI . H 2 MG B 1 1101 1101 MG MG . I 3 ANP B 1 1102 1102 ANP ANP . J 2 MG C 1 1101 1101 MG MG . K 3 ANP C 1 1102 1102 ANP ANP . L 4 9LL C 1 1103 1201 9LL EAI . M 2 MG D 1 1101 1101 MG MG . N 3 ANP D 1 1102 1102 ANP ANP . O 4 9LL D 1 1103 1201 9LL EAI . P 5 HOH A 1 1201 12 HOH HOH . P 5 HOH A 2 1202 6 HOH HOH . P 5 HOH A 3 1203 7 HOH HOH . P 5 HOH A 4 1204 5 HOH HOH . P 5 HOH A 5 1205 4 HOH HOH . Q 5 HOH B 1 1201 2 HOH HOH . Q 5 HOH B 2 1202 1 HOH HOH . Q 5 HOH B 3 1203 10 HOH HOH . Q 5 HOH B 4 1204 9 HOH HOH . R 5 HOH D 1 1201 3 HOH HOH . R 5 HOH D 2 1202 8 HOH HOH . R 5 HOH D 3 1203 13 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 PG ANP . . . I 3 33.986 10.784 -4.668 1 72.52 ? PG ANP 1102 B 1 HETATM 2 O O1G ANP . . . I 3 35.019 10.782 -3.587 1 70.53 ? O1G ANP 1102 B 1 HETATM 3 O O2G ANP . . . I 3 32.853 9.749 -4.3 1 61.99 ? O2G ANP 1102 B 1 HETATM 4 O O3G ANP . . . I 3 34.667 10.363 -6.034 1 51.53 ? O3G ANP 1102 B 1 HETATM 5 P PB ANP . . . I 3 32.971 13.028 -3.341 1 65.09 ? PB ANP 1102 B 1 HETATM 6 O O1B ANP . . . I 3 34.227 13.326 -2.593 1 65.74 ? O1B ANP 1102 B 1 HETATM 7 O O2B ANP . . . I 3 32.181 14.354 -3.553 1 51.9 ? O2B ANP 1102 B 1 HETATM 8 N N3B ANP . . . I 3 33.32 12.335 -4.831 1 68.9 ? N3B ANP 1102 B 1 HETATM 9 P PA ANP . . . I 3 31.985 12.27 -0.937 1 78.63 ? PA ANP 1102 B 1 HETATM 10 O O1A ANP . . . I 3 31.145 11.218 -0.314 1 64.42 ? O1A ANP 1102 B 1 HETATM 11 O O2A ANP . . . I 3 33.408 12.345 -0.377 1 69.41 ? O2A ANP 1102 B 1 HETATM 12 O O3A ANP . . . I 3 32.117 12.035 -2.499 1 75.18 ? O3A ANP 1102 B 1 HETATM 13 O O5' ANP . . . I 3 31.252 13.666 -0.824 1 60.92 ? O5' ANP 1102 B 1 HETATM 14 C C5' ANP . . . I 3 30.803 14.176 0.438 1 53.29 ? C5' ANP 1102 B 1 HETATM 15 C C4' ANP . . . I 3 31.253 15.606 0.604 1 58.96 ? C4' ANP 1102 B 1 HETATM 16 O O4' ANP . . . I 3 31.204 15.957 2.004 1 63.39 ? O4' ANP 1102 B 1 HETATM 17 C C3' ANP . . . I 3 32.682 15.903 0.157 1 70.03 ? C3' ANP 1102 B 1 HETATM 18 O O3' ANP . . . I 3 32.729 16.276 -1.216 1 74.03 ? O3' ANP 1102 B 1 HETATM 19 C C2' ANP . . . I 3 33.086 17.05 1.085 1 62.9 ? C2' ANP 1102 B 1 HETATM 20 O O2' ANP . . . I 3 32.596 18.305 0.626 1 62.74 ? O2' ANP 1102 B 1 HETATM 21 C C1' ANP . . . I 3 32.368 16.667 2.38 1 59.61 ? C1' ANP 1102 B 1 HETATM 22 N N9 ANP . . . I 3 33.159 15.828 3.279 1 57.98 ? N9 ANP 1102 B 1 HETATM 23 C C8 ANP . . . I 3 33.67 14.584 3.016 1 61.89 ? C8 ANP 1102 B 1 HETATM 24 N N7 ANP . . . I 3 34.349 14.064 4.01 1 60.03 ? N7 ANP 1102 B 1 HETATM 25 C C5 ANP . . . I 3 34.278 15.034 4.997 1 40 ? C5 ANP 1102 B 1 HETATM 26 C C6 ANP . . . I 3 34.799 15.094 6.305 1 41.41 ? C6 ANP 1102 B 1 HETATM 27 N N6 ANP . . . I 3 35.523 14.12 6.861 1 57.19 ? N6 ANP 1102 B 1 HETATM 28 N N1 ANP . . . I 3 34.546 16.207 7.028 1 38.5 ? N1 ANP 1102 B 1 HETATM 29 C C2 ANP . . . I 3 33.822 17.184 6.476 1 37.69 ? C2 ANP 1102 B 1 HETATM 30 N N3 ANP . . . I 3 33.282 17.241 5.256 1 41.57 ? N3 ANP 1102 B 1 HETATM 31 C C4 ANP . . . I 3 33.549 16.127 4.563 1 43.43 ? C4 ANP 1102 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #