data_3H4L # _model_server_result.job_id yW1QPrDCKGBX4onlWttpAA _model_server_result.datetime_utc '2025-01-02 17:02:14' _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 3h4l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":397}' # _entry.id 3H4L # _exptl.entry_id 3H4L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 2 _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 3H4L _cell.length_a 75.592 _cell.length_b 103.288 _cell.length_c 117.167 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3H4L _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # 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 software_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H 1 1 A,C,D,G 2 1 B,E,F,H 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 ? 2 C N N ? 2 E 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 G O HOH . A HOH 1 1_555 D MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc2 G O HOH . A HOH 2 1_555 D MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? metalc ? metalc3 A OD1 ASN 36 A ASN 65 1_555 D MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? metalc ? metalc4 C O1G ANP . A ANP 397 1_555 D MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? metalc ? metalc5 C O2B ANP . A ANP 397 1_555 D MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc6 C O1A ANP . A ANP 397 1_555 D MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc7 C O2G ANP . A ANP 397 1_555 D MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.944 ? metalc ? metalc8 H O HOH . B HOH 3 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc9 H O HOH . B HOH 4 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc10 B OD1 ASN 36 B ASN 65 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.159 ? metalc ? metalc11 E O1G ANP . B ANP 397 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.815 ? metalc ? metalc12 E O2B ANP . B ANP 397 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc13 E O1A ANP . B ANP 397 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.89 ? metalc ? metalc14 E O3A ANP . B ANP 397 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.933 ? # _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 3H4L _atom_sites.fract_transf_matrix[1][1] 0.013229 _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] 0.009682 _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] 0.008535 _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 ANP A 1 397 380 ANP ANP . D 3 MG A 1 701 701 MG MG . E 2 ANP B 1 397 381 ANP ANP . F 3 MG B 1 702 702 MG MG . G 4 HOH A 1 1 1 HOH TIP . G 4 HOH A 2 2 2 HOH TIP . G 4 HOH A 3 7 7 HOH TIP . G 4 HOH A 4 9 9 HOH TIP . G 4 HOH A 5 10 10 HOH TIP . G 4 HOH A 6 13 13 HOH TIP . G 4 HOH A 7 15 15 HOH TIP . G 4 HOH A 8 16 16 HOH TIP . G 4 HOH A 9 17 17 HOH TIP . G 4 HOH A 10 18 18 HOH TIP . G 4 HOH A 11 19 19 HOH TIP . G 4 HOH A 12 20 20 HOH TIP . G 4 HOH A 13 22 22 HOH TIP . G 4 HOH A 14 23 23 HOH TIP . G 4 HOH A 15 25 25 HOH TIP . G 4 HOH A 16 26 26 HOH TIP . G 4 HOH A 17 27 27 HOH TIP . G 4 HOH A 18 28 28 HOH TIP . G 4 HOH A 19 398 30 HOH TIP . G 4 HOH A 20 399 31 HOH TIP . G 4 HOH A 21 400 35 HOH TIP . G 4 HOH A 22 401 37 HOH TIP . G 4 HOH A 23 402 40 HOH TIP . G 4 HOH A 24 403 43 HOH TIP . G 4 HOH A 25 404 46 HOH TIP . G 4 HOH A 26 405 47 HOH TIP . G 4 HOH A 27 406 48 HOH TIP . G 4 HOH A 28 407 49 HOH TIP . G 4 HOH A 29 408 51 HOH TIP . G 4 HOH A 30 409 52 HOH TIP . G 4 HOH A 31 410 53 HOH TIP . G 4 HOH A 32 411 55 HOH TIP . G 4 HOH A 33 412 57 HOH TIP . G 4 HOH A 34 413 58 HOH TIP . G 4 HOH A 35 414 59 HOH TIP . G 4 HOH A 36 415 63 HOH TIP . G 4 HOH A 37 416 65 HOH TIP . G 4 HOH A 38 417 68 HOH TIP . G 4 HOH A 39 419 72 HOH TIP . G 4 HOH A 40 420 73 HOH TIP . G 4 HOH A 41 421 74 HOH TIP . G 4 HOH A 42 422 76 HOH TIP . G 4 HOH A 43 423 80 HOH TIP . G 4 HOH A 44 424 81 HOH TIP . G 4 HOH A 45 425 82 HOH TIP . G 4 HOH A 46 426 83 HOH TIP . G 4 HOH A 47 427 84 HOH TIP . G 4 HOH A 48 428 85 HOH TIP . G 4 HOH A 49 429 86 HOH TIP . G 4 HOH A 50 430 87 HOH TIP . G 4 HOH A 51 431 88 HOH TIP . G 4 HOH A 52 432 89 HOH TIP . G 4 HOH A 53 433 90 HOH TIP . G 4 HOH A 54 434 91 HOH TIP . G 4 HOH A 55 435 92 HOH TIP . G 4 HOH A 56 436 93 HOH TIP . G 4 HOH A 57 437 109 HOH TIP . G 4 HOH A 58 438 114 HOH TIP . G 4 HOH A 59 439 115 HOH TIP . G 4 HOH A 60 440 116 HOH TIP . G 4 HOH A 61 441 117 HOH TIP . G 4 HOH A 62 442 118 HOH TIP . G 4 HOH A 63 443 119 HOH TIP . G 4 HOH A 64 444 120 HOH TIP . G 4 HOH A 65 445 121 HOH TIP . G 4 HOH A 66 446 122 HOH TIP . G 4 HOH A 67 447 123 HOH TIP . G 4 HOH A 68 448 124 HOH TIP . G 4 HOH A 69 449 125 HOH TIP . G 4 HOH A 70 450 126 HOH TIP . G 4 HOH A 71 451 132 HOH TIP . G 4 HOH A 72 452 133 HOH TIP . G 4 HOH A 73 453 134 HOH TIP . G 4 HOH A 74 454 135 HOH TIP . G 4 HOH A 75 455 136 HOH TIP . G 4 HOH A 76 456 137 HOH TIP . H 4 HOH B 1 3 3 HOH TIP . H 4 HOH B 2 4 4 HOH TIP . H 4 HOH B 3 5 5 HOH TIP . H 4 HOH B 4 6 6 HOH TIP . H 4 HOH B 5 8 8 HOH TIP . H 4 HOH B 6 11 11 HOH TIP . H 4 HOH B 7 12 12 HOH TIP . H 4 HOH B 8 14 14 HOH TIP . H 4 HOH B 9 21 21 HOH TIP . H 4 HOH B 10 24 24 HOH TIP . H 4 HOH B 11 29 29 HOH TIP . H 4 HOH B 12 398 32 HOH TIP . H 4 HOH B 13 399 33 HOH TIP . H 4 HOH B 14 400 34 HOH TIP . H 4 HOH B 15 401 36 HOH TIP . H 4 HOH B 16 402 38 HOH TIP . H 4 HOH B 17 403 39 HOH TIP . H 4 HOH B 18 404 41 HOH TIP . H 4 HOH B 19 405 42 HOH TIP . H 4 HOH B 20 406 44 HOH TIP . H 4 HOH B 21 407 45 HOH TIP . H 4 HOH B 22 408 50 HOH TIP . H 4 HOH B 23 409 54 HOH TIP . H 4 HOH B 24 410 56 HOH TIP . H 4 HOH B 25 411 60 HOH TIP . H 4 HOH B 26 412 61 HOH TIP . H 4 HOH B 27 413 62 HOH TIP . H 4 HOH B 28 414 64 HOH TIP . H 4 HOH B 29 415 66 HOH TIP . H 4 HOH B 30 416 67 HOH TIP . H 4 HOH B 31 417 70 HOH TIP . H 4 HOH B 32 418 69 HOH TIP . H 4 HOH B 33 419 75 HOH TIP . H 4 HOH B 34 420 77 HOH TIP . H 4 HOH B 35 421 78 HOH TIP . H 4 HOH B 36 422 79 HOH TIP . H 4 HOH B 37 423 94 HOH TIP . H 4 HOH B 38 424 95 HOH TIP . H 4 HOH B 39 425 96 HOH TIP . H 4 HOH B 40 426 97 HOH TIP . H 4 HOH B 41 427 98 HOH TIP . H 4 HOH B 42 428 99 HOH TIP . H 4 HOH B 43 429 100 HOH TIP . H 4 HOH B 44 430 101 HOH TIP . H 4 HOH B 45 431 102 HOH TIP . H 4 HOH B 46 432 103 HOH TIP . H 4 HOH B 47 433 104 HOH TIP . H 4 HOH B 48 434 105 HOH TIP . H 4 HOH B 49 435 106 HOH TIP . H 4 HOH B 50 436 107 HOH TIP . H 4 HOH B 51 437 108 HOH TIP . H 4 HOH B 52 438 110 HOH TIP . H 4 HOH B 53 439 111 HOH TIP . H 4 HOH B 54 440 112 HOH TIP . H 4 HOH B 55 441 113 HOH TIP . H 4 HOH B 56 442 127 HOH TIP . H 4 HOH B 57 443 128 HOH TIP . H 4 HOH B 58 444 129 HOH TIP . H 4 HOH B 59 445 130 HOH TIP . H 4 HOH B 60 446 131 HOH TIP . H 4 HOH B 61 447 138 HOH TIP . H 4 HOH B 62 448 139 HOH TIP . H 4 HOH B 63 449 140 HOH TIP . H 4 HOH B 64 450 141 HOH TIP . H 4 HOH B 65 451 71 HOH TIP . # 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 . . . C 2 40.204 6.716 14.779 1 37.76 ? PG ANP 397 A 1 HETATM 2 O O1G ANP . . . C 2 38.855 6.169 14.646 1 36.83 ? O1G ANP 397 A 1 HETATM 3 O O2G ANP . . . C 2 40.989 6.595 13.569 1 34.75 ? O2G ANP 397 A 1 HETATM 4 O O3G ANP . . . C 2 40.251 8.121 15.284 1 36.37 ? O3G ANP 397 A 1 HETATM 5 P PB ANP . . . C 2 40.897 4.217 16.031 1 35.55 ? PB ANP 397 A 1 HETATM 6 O O1B ANP . . . C 2 41.968 3.814 16.975 1 36.08 ? O1B ANP 397 A 1 HETATM 7 O O2B ANP . . . C 2 40.874 3.488 14.767 1 32.95 ? O2B ANP 397 A 1 HETATM 8 N N3B ANP . . . C 2 40.956 5.819 15.892 1 34.41 ? N3B ANP 397 A 1 HETATM 9 P PA ANP . . . C 2 38.207 3.109 16.42 1 37.83 ? PA ANP 397 A 1 HETATM 10 O O1A ANP . . . C 2 37.853 3.379 15.032 1 40.61 ? O1A ANP 397 A 1 HETATM 11 O O2A ANP . . . C 2 37.161 3.202 17.468 1 40.92 ? O2A ANP 397 A 1 HETATM 12 O O3A ANP . . . C 2 39.513 3.976 16.794 1 35.51 ? O3A ANP 397 A 1 HETATM 13 O O5' ANP . . . C 2 38.599 1.549 16.619 1 36.57 ? O5' ANP 397 A 1 HETATM 14 C C5' ANP . . . C 2 39.796 1.33 17.312 1 38.7 ? C5' ANP 397 A 1 HETATM 15 C C4' ANP . . . C 2 40.502 0.067 17.667 1 36.98 ? C4' ANP 397 A 1 HETATM 16 O O4' ANP . . . C 2 39.726 -1.079 17.307 1 37.19 ? O4' ANP 397 A 1 HETATM 17 C C3' ANP . . . C 2 41.63 0.182 16.709 1 37.33 ? C3' ANP 397 A 1 HETATM 18 O O3' ANP . . . C 2 42.645 1.047 17.253 1 39.2 ? O3' ANP 397 A 1 HETATM 19 C C2' ANP . . . C 2 41.975 -1.276 16.435 1 36.22 ? C2' ANP 397 A 1 HETATM 20 O O2' ANP . . . C 2 42.944 -1.721 17.368 1 37.49 ? O2' ANP 397 A 1 HETATM 21 C C1' ANP . . . C 2 40.579 -1.937 16.548 1 34.22 ? C1' ANP 397 A 1 HETATM 22 N N9 ANP . . . C 2 39.844 -2.205 15.276 1 34.22 ? N9 ANP 397 A 1 HETATM 23 C C8 ANP . . . C 2 38.664 -1.676 14.758 1 33.21 ? C8 ANP 397 A 1 HETATM 24 N N7 ANP . . . C 2 38.281 -2.123 13.602 1 31.24 ? N7 ANP 397 A 1 HETATM 25 C C5 ANP . . . C 2 39.271 -3.039 13.303 1 30.62 ? C5 ANP 397 A 1 HETATM 26 C C6 ANP . . . C 2 39.531 -3.916 12.184 1 31.91 ? C6 ANP 397 A 1 HETATM 27 N N6 ANP . . . C 2 38.699 -3.98 11.146 1 29.57 ? N6 ANP 397 A 1 HETATM 28 N N1 ANP . . . C 2 40.658 -4.743 12.173 1 32.83 ? N1 ANP 397 A 1 HETATM 29 C C2 ANP . . . C 2 41.535 -4.706 13.23 1 32.97 ? C2 ANP 397 A 1 HETATM 30 N N3 ANP . . . C 2 41.379 -3.91 14.328 1 29.61 ? N3 ANP 397 A 1 HETATM 31 C C4 ANP . . . C 2 40.255 -3.101 14.307 1 31.7 ? C4 ANP 397 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #