data_1T5S # _model_server_result.job_id ISQIA8QQV9zRXA22Rcfyog _model_server_result.datetime_utc '2024-11-24 03:02:25' _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 1t5s # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1001}' # _entry.id 1T5S # _exptl.entry_id 1T5S _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _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 108.7 _cell.angle_gamma 90 _cell.entry_id 1T5S _cell.length_a 162.439 _cell.length_b 76.259 _cell.length_c 151.164 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1T5S _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 5 _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 O VAL 304 A VAL 304 1_555 B CA CA . A CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.636 ? metalc ? metalc2 A O ALA 305 A ALA 305 1_555 B CA CA . A CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc3 A O ILE 307 A ILE 307 1_555 B CA CA . A CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.542 ? metalc ? metalc4 A OE1 GLU 309 A GLU 309 1_555 B CA CA . A CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.712 ? metalc ? metalc5 A OE2 GLU 309 A GLU 309 1_555 B CA CA . A CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc6 A OD2 ASP 351 A ASP 351 1_555 D MG MG . A MG 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc7 A O THR 353 A THR 353 1_555 D MG MG . A MG 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? metalc ? metalc8 A OD2 ASP 703 A ASP 703 1_555 D MG MG . A MG 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? metalc ? metalc9 A O LEU 711 A LEU 711 1_555 E K K . A K 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.711 ? metalc ? metalc10 A O LYS 712 A LYS 712 1_555 E K K . A K 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.902 ? metalc ? metalc11 A O ALA 714 A ALA 714 1_555 E K K . A K 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.621 ? metalc ? metalc12 A OE1 GLU 732 A GLU 732 1_555 E K K . A K 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? metalc ? metalc13 A OE2 GLU 732 A GLU 732 1_555 E K K . A K 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.389 ? metalc ? metalc14 A OD1 ASN 768 A ASN 768 1_555 C CA CA . A CA 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc15 A OE2 GLU 771 A GLU 771 1_555 C CA CA . A CA 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc16 A OD1 ASN 796 A ASN 796 1_555 B CA CA . A CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc17 A OG1 THR 799 A THR 799 1_555 C CA CA . A CA 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.457 ? metalc ? metalc18 A OD2 ASP 800 A ASP 800 1_555 B CA CA . A CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc19 A OD1 ASP 800 A ASP 800 1_555 C CA CA . A CA 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc20 A OE2 GLU 908 A GLU 908 1_555 C CA CA . A CA 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? metalc ? metalc21 F O3G ACP . A ACP 1001 1_555 D MG MG . A MG 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc22 C CA CA . A CA 1004 1_555 G O HOH . A HOH 1045 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? metalc ? metalc23 D MG MG . A MG 1005 1_555 G O HOH . A HOH 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? metalc ? metalc24 D MG MG . A MG 1005 1_555 G O HOH . A HOH 1046 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? # _chem_comp.formula 'C11 H18 N5 O12 P3' _chem_comp.formula_weight 505.208 _chem_comp.id ACP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE" # 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 ACP doub 1 n n PG O2G ACP sing 2 n n PG O3G ACP sing 3 n n PG C3B ACP sing 4 n n O2G HOG2 ACP sing 5 n n O3G HOG3 ACP sing 6 n n PB O1B ACP doub 7 n n PB O2B ACP sing 8 n n PB C3B ACP sing 9 n n PB O3A ACP sing 10 n n O2B HOB2 ACP sing 11 n n C3B H3B1 ACP sing 12 n n C3B H3B2 ACP sing 13 n n PA O1A ACP doub 14 n n PA O2A ACP sing 15 n n PA O3A ACP sing 16 n n PA O5' ACP sing 17 n n O2A HOA2 ACP sing 18 n n O5' C5' ACP sing 19 n n C5' C4' ACP sing 20 n n C5' "H5'1" ACP sing 21 n n C5' "H5'2" ACP sing 22 n n C4' O4' ACP sing 23 n n C4' C3' ACP sing 24 n n C4' H4' ACP sing 25 n n O4' C1' ACP sing 26 n n C3' O3' ACP sing 27 n n C3' C2' ACP sing 28 n n C3' H3' ACP sing 29 n n O3' HO3' ACP sing 30 n n C2' O2' ACP sing 31 n n C2' C1' ACP sing 32 n n C2' H2' ACP sing 33 n n O2' HO2' ACP sing 34 n n C1' N9 ACP sing 35 n n C1' H1' ACP sing 36 n n N9 C8 ACP sing 37 n y N9 C4 ACP sing 38 n y C8 N7 ACP doub 39 n y C8 H8 ACP sing 40 n n N7 C5 ACP sing 41 n y C5 C6 ACP sing 42 n y C5 C4 ACP doub 43 n y C6 N6 ACP sing 44 n n C6 N1 ACP doub 45 n y N6 HN61 ACP sing 46 n n N6 HN62 ACP sing 47 n n N1 C2 ACP sing 48 n y C2 N3 ACP doub 49 n y C2 H2 ACP sing 50 n n N3 C4 ACP sing 51 n y # _atom_sites.entry_id 1T5S _atom_sites.fract_transf_matrix[1][1] 0.006156 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002084 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013113 _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] 0.006984 _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 B 2 CA A 1 1003 1003 CA CA . C 2 CA A 1 1004 1004 CA CA . D 3 MG A 1 1005 1005 MG MG . E 4 K A 1 1006 1006 K K . F 5 ACP A 1 1001 1001 ACP ACP . G 6 HOH A 1 1007 5 HOH HOH . G 6 HOH A 2 1008 6 HOH HOH . G 6 HOH A 3 1009 7 HOH HOH . G 6 HOH A 4 1010 8 HOH HOH . G 6 HOH A 5 1011 9 HOH HOH . G 6 HOH A 6 1012 10 HOH HOH . G 6 HOH A 7 1013 11 HOH HOH . G 6 HOH A 8 1014 12 HOH HOH . G 6 HOH A 9 1015 13 HOH HOH . G 6 HOH A 10 1016 14 HOH HOH . G 6 HOH A 11 1017 15 HOH HOH . G 6 HOH A 12 1018 16 HOH HOH . G 6 HOH A 13 1019 17 HOH HOH . G 6 HOH A 14 1020 18 HOH HOH . G 6 HOH A 15 1021 19 HOH HOH . G 6 HOH A 16 1022 21 HOH HOH . G 6 HOH A 17 1023 22 HOH HOH . G 6 HOH A 18 1024 23 HOH HOH . G 6 HOH A 19 1025 24 HOH HOH . G 6 HOH A 20 1026 25 HOH HOH . G 6 HOH A 21 1027 26 HOH HOH . G 6 HOH A 22 1028 27 HOH HOH . G 6 HOH A 23 1029 28 HOH HOH . G 6 HOH A 24 1030 29 HOH HOH . G 6 HOH A 25 1031 30 HOH HOH . G 6 HOH A 26 1032 31 HOH HOH . G 6 HOH A 27 1033 32 HOH HOH . G 6 HOH A 28 1034 33 HOH HOH . G 6 HOH A 29 1035 34 HOH HOH . G 6 HOH A 30 1036 35 HOH HOH . G 6 HOH A 31 1037 36 HOH HOH . G 6 HOH A 32 1038 37 HOH HOH . G 6 HOH A 33 1039 38 HOH HOH . G 6 HOH A 34 1040 39 HOH HOH . G 6 HOH A 35 1041 40 HOH HOH . G 6 HOH A 36 1042 41 HOH HOH . G 6 HOH A 37 1043 42 HOH HOH . G 6 HOH A 38 1044 44 HOH HOH . G 6 HOH A 39 1045 45 HOH HOH . G 6 HOH A 40 1046 61 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 ACP . . . F 5 -15.79 2.758 15.389 1 46.81 ? PG ACP 1001 A 1 HETATM 2 O O1G ACP . . . F 5 -16.163 4.213 15.229 1 39.75 ? O1G ACP 1001 A 1 HETATM 3 O O2G ACP . . . F 5 -14.304 2.556 15.185 1 39.91 ? O2G ACP 1001 A 1 HETATM 4 O O3G ACP . . . F 5 -16.421 2.201 16.674 1 44.13 ? O3G ACP 1001 A 1 HETATM 5 P PB ACP . . . F 5 -16.411 1.999 12.499 1 44.03 ? PB ACP 1001 A 1 HETATM 6 O O1B ACP . . . F 5 -16.482 3.457 12.021 1 44.62 ? O1B ACP 1001 A 1 HETATM 7 O O2B ACP . . . F 5 -17.24 0.96 11.849 1 43.85 ? O2B ACP 1001 A 1 HETATM 8 C C3B ACP . . . F 5 -16.561 1.92 14.146 1 45.53 ? C3B ACP 1001 A 1 HETATM 9 P PA ACP . . . F 5 -14.518 0.033 11.613 1 44.26 ? PA ACP 1001 A 1 HETATM 10 O O1A ACP . . . F 5 -15.286 -1.046 12.319 1 39.55 ? O1A ACP 1001 A 1 HETATM 11 O O2A ACP . . . F 5 -13.002 -0.127 11.539 1 42.58 ? O2A ACP 1001 A 1 HETATM 12 O O3A ACP . . . F 5 -14.897 1.533 12.126 1 43.7 ? O3A ACP 1001 A 1 HETATM 13 O O5' ACP . . . F 5 -15.02 0.203 10.08 1 42.04 ? O5' ACP 1001 A 1 HETATM 14 C C5' ACP . . . F 5 -14.242 0.933 9.124 1 40.95 ? C5' ACP 1001 A 1 HETATM 15 C C4' ACP . . . F 5 -15.165 1.602 8.113 1 42.21 ? C4' ACP 1001 A 1 HETATM 16 O O4' ACP . . . F 5 -15.759 0.545 7.344 1 41.12 ? O4' ACP 1001 A 1 HETATM 17 C C3' ACP . . . F 5 -16.347 2.414 8.67 1 42.66 ? C3' ACP 1001 A 1 HETATM 18 O O3' ACP . . . F 5 -16.055 3.742 9.097 1 43.87 ? O3' ACP 1001 A 1 HETATM 19 C C2' ACP . . . F 5 -17.291 2.395 7.486 1 41.88 ? C2' ACP 1001 A 1 HETATM 20 O O2' ACP . . . F 5 -16.823 3.305 6.508 1 37.86 ? O2' ACP 1001 A 1 HETATM 21 C C1' ACP . . . F 5 -17.02 1.008 6.893 1 42.57 ? C1' ACP 1001 A 1 HETATM 22 N N9 ACP . . . F 5 -17.916 -0.033 7.367 1 39.84 ? N9 ACP 1001 A 1 HETATM 23 C C8 ACP . . . F 5 -18.278 -0.29 8.609 1 38.87 ? C8 ACP 1001 A 1 HETATM 24 N N7 ACP . . . F 5 -19.096 -1.383 8.633 1 43.67 ? N7 ACP 1001 A 1 HETATM 25 C C5 ACP . . . F 5 -19.257 -1.836 7.394 1 43.97 ? C5 ACP 1001 A 1 HETATM 26 C C6 ACP . . . F 5 -19.989 -2.906 6.707 1 44.34 ? C6 ACP 1001 A 1 HETATM 27 N N6 ACP . . . F 5 -20.758 -3.792 7.379 1 46.25 ? N6 ACP 1001 A 1 HETATM 28 N N1 ACP . . . F 5 -19.87 -2.995 5.371 1 44.7 ? N1 ACP 1001 A 1 HETATM 29 C C2 ACP . . . F 5 -19.114 -2.154 4.655 1 43.67 ? C2 ACP 1001 A 1 HETATM 30 N N3 ACP . . . F 5 -18.43 -1.158 5.216 1 45.67 ? N3 ACP 1001 A 1 HETATM 31 C C4 ACP . . . F 5 -18.47 -0.924 6.55 1 45.56 ? C4 ACP 1001 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 333 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #