data_7SSI # _model_server_result.job_id iFOqxka2eG78a96NfMdW-g _model_server_result.datetime_utc '2024-11-27 22:49:37' _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 7ssi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":401}' # _entry.id 7SSI # _exptl.entry_id 7SSI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC 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 116.74 _cell.angle_gamma 90 _cell.entry_id 7SSI _cell.length_a 88.067 _cell.length_b 115.634 _cell.length_c 91.374 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7SSI _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 trimeric 3 author_and_software_defined_assembly 1 PISA trimeric 3 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,B,C,G,H,I,J,K,Q,R 1 1 D,E,F,L,M,N,O,P,S,T,U 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 G N N ? 3 I N N ? 3 L 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 OE2 GLU 137 A GLU 289 1_555 H MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc2 A OD1 ASN 141 A ASN 293 1_555 H MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc3 G O3G ACP . A ACP 401 1_555 H MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc4 G O2B ACP . A ACP 401 1_555 H MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc5 G O1A ACP . A ACP 401 1_555 H MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc6 B OE2 GLU 137 B GLU 289 1_555 J MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? metalc ? metalc7 B OD1 ASN 141 B ASN 293 1_555 J MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? metalc ? metalc8 I O3G ACP . B ACP 401 1_555 J MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? metalc ? metalc9 I O2B ACP . B ACP 401 1_555 J MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.144 ? metalc ? metalc10 I O1A ACP . B ACP 401 1_555 J MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? metalc ? metalc11 J MG MG . B MG 402 1_555 Q O HOH . B HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.945 ? metalc ? metalc12 C OD2 ASP 58 C ASP 54 1_555 K MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.869 ? metalc ? metalc13 C O GLU 60 C GLU 56 1_555 K MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.966 ? metalc ? metalc14 K MG MG . C MG 201 1_555 R O HOH . C HOH 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.722 ? metalc ? metalc15 D OE2 GLU 137 D GLU 289 1_555 M MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.218 ? metalc ? metalc16 D OD1 ASN 141 D ASN 293 1_555 M MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc17 L O3G ACP . D ACP 401 1_555 M MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? metalc ? metalc18 L O2B ACP . D ACP 401 1_555 M MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc19 L O1A ACP . D ACP 401 1_555 M MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc20 M MG MG . D MG 402 1_555 S O HOH . D HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.932 ? metalc ? metalc21 E OE2 GLU 137 E GLU 289 1_555 O MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc22 E OD1 ASN 141 E ASN 293 1_555 O MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? metalc ? metalc23 N O3G ACP . E ACP 401 1_555 O MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc24 N O2B ACP . E ACP 401 1_555 O MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc25 N O1A ACP . E ACP 401 1_555 O MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? metalc ? metalc26 O MG MG . E MG 402 1_555 T O HOH . E HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.942 ? # _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 7SSI _atom_sites.fract_transf_matrix[1][1] 0.011355 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005721 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008648 _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] 0.012255 _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 G 3 ACP A 1 401 401 ACP ACP . H 4 MG A 1 402 402 MG MG . I 3 ACP B 1 401 401 ACP ACP . J 4 MG B 1 402 402 MG MG . K 4 MG C 1 201 201 MG MG . L 3 ACP D 1 401 401 ACP ACP . M 4 MG D 1 402 402 MG MG . N 3 ACP E 1 401 401 ACP ACP . O 4 MG E 1 402 402 MG MG . P 4 MG F 1 201 201 MG MG . Q 5 HOH B 1 501 501 HOH HOH . Q 5 HOH B 2 502 6 HOH HOH . R 5 HOH C 1 301 3 HOH HOH . R 5 HOH C 2 302 1 HOH HOH . R 5 HOH C 3 303 4 HOH HOH . S 5 HOH D 1 501 501 HOH HOH . S 5 HOH D 2 502 5 HOH HOH . T 5 HOH E 1 501 501 HOH HOH . T 5 HOH E 2 502 7 HOH HOH . U 5 HOH F 1 301 2 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 . . . L 3 -75.906 -1.104 -4.722 1 168.07 ? PG ACP 401 D 1 HETATM 2 O O1G ACP . . . L 3 -76.671 -1.194 -3.44 1 168.08 ? O1G ACP 401 D 1 HETATM 3 O O2G ACP . . . L 3 -74.393 -1.357 -4.531 1 167.97 ? O2G ACP 401 D 1 HETATM 4 O O3G ACP . . . L 3 -76.065 0.285 -5.384 1 168.22 ? O3G ACP 401 D 1 HETATM 5 P PB ACP . . . L 3 -76.575 -1.802 -7.646 1 168.1 ? PB ACP 401 D 1 HETATM 6 O O1B ACP . . . L 3 -76.991 -2.81 -8.695 1 167.99 ? O1B ACP 401 D 1 HETATM 7 O O2B ACP . . . L 3 -75.161 -1.26 -8.03 1 168.16 ? O2B ACP 401 D 1 HETATM 8 C C3B ACP . . . L 3 -76.47 -2.318 -5.924 1 168.04 ? C3B ACP 401 D 1 HETATM 9 P PA ACP . . . L 3 -77.508 0.876 -8.395 1 167.96 ? PA ACP 401 D 1 HETATM 10 O O1A ACP . . . L 3 -76.238 1.518 -7.986 1 168.11 ? O1A ACP 401 D 1 HETATM 11 O O2A ACP . . . L 3 -78.688 1.762 -7.952 1 168.02 ? O2A ACP 401 D 1 HETATM 12 O O3A ACP . . . L 3 -77.587 -0.544 -7.673 1 168.08 ? O3A ACP 401 D 1 HETATM 13 O O5' ACP . . . L 3 -77.593 0.656 -10.008 1 167.34 ? O5' ACP 401 D 1 HETATM 14 C C5' ACP . . . L 3 -78.797 0.194 -10.66 1 166.63 ? C5' ACP 401 D 1 HETATM 15 C C4' ACP . . . L 3 -78.451 -0.558 -11.922 1 165.91 ? C4' ACP 401 D 1 HETATM 16 O O4' ACP . . . L 3 -77.969 0.356 -12.932 1 165.6 ? O4' ACP 401 D 1 HETATM 17 C C3' ACP . . . L 3 -77.352 -1.597 -11.781 1 165.6 ? C3' ACP 401 D 1 HETATM 18 O O3' ACP . . . L 3 -77.874 -2.82 -11.272 1 165.59 ? O3' ACP 401 D 1 HETATM 19 C C2' ACP . . . L 3 -76.835 -1.715 -13.217 1 165.35 ? C2' ACP 401 D 1 HETATM 20 O O2' ACP . . . L 3 -77.665 -2.58 -13.981 1 165.19 ? O2' ACP 401 D 1 HETATM 21 C C1' ACP . . . L 3 -76.973 -0.272 -13.723 1 165.4 ? C1' ACP 401 D 1 HETATM 22 N N9 ACP . . . L 3 -75.746 0.527 -13.661 1 165.37 ? N9 ACP 401 D 1 HETATM 23 C C8 ACP . . . L 3 -75.418 1.46 -12.712 1 165.37 ? C8 ACP 401 D 1 HETATM 24 N N7 ACP . . . L 3 -74.27 2.059 -12.92 1 165.35 ? N7 ACP 401 D 1 HETATM 25 C C5 ACP . . . L 3 -73.806 1.48 -14.092 1 165.36 ? C5 ACP 401 D 1 HETATM 26 C C6 ACP . . . L 3 -72.635 1.679 -14.85 1 165.44 ? C6 ACP 401 D 1 HETATM 27 N N6 ACP . . . L 3 -71.675 2.555 -14.528 1 165.51 ? N6 ACP 401 D 1 HETATM 28 N N1 ACP . . . L 3 -72.476 0.935 -15.965 1 165.49 ? N1 ACP 401 D 1 HETATM 29 C C2 ACP . . . L 3 -73.428 0.054 -16.289 1 165.48 ? C2 ACP 401 D 1 HETATM 30 N N3 ACP . . . L 3 -74.572 -0.22 -15.656 1 165.43 ? N3 ACP 401 D 1 HETATM 31 C C4 ACP . . . L 3 -74.704 0.531 -14.559 1 165.37 ? C4 ACP 401 D 1 # _model_server_stats.io_time_ms 40 _model_server_stats.parse_time_ms 38 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 870 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #