data_4AN9 # _model_server_result.job_id DERglqyFan7tUmbM9OpbFg _model_server_result.datetime_utc '2024-11-13 02:12:53' _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 4an9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1382}' # _entry.id 4AN9 # _exptl.entry_id 4AN9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 2 _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 90 _cell.angle_gamma 120 _cell.entry_id 4AN9 _cell.length_a 108.653 _cell.length_b 108.653 _cell.length_c 49.394 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4AN9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 2 _struct_asym.id B _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 OD1 ASN 138 A ASN 195 1_555 C MG MG . A MG 1383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? metalc ? metalc2 A OD2 ASP 151 A ASP 208 1_555 C MG MG . A MG 1383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? metalc ? metalc3 B O1B ACP . A ACP 1382 1_555 C MG MG . A MG 1383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? metalc ? metalc4 B O1A ACP . A ACP 1382 1_555 C MG MG . A MG 1383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? metalc ? metalc5 C MG MG . A MG 1383 1_555 E O HOH . A HOH 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? # _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 39 n n PG O2G ACP sing 40 n n PG O3G ACP sing 41 n n PG C3B ACP sing 42 n n O2G HOG2 ACP sing 43 n n O3G HOG3 ACP sing 44 n n PB O1B ACP doub 45 n n PB O2B ACP sing 46 n n PB C3B ACP sing 47 n n PB O3A ACP sing 48 n n O2B HOB2 ACP sing 49 n n C3B H3B1 ACP sing 50 n n C3B H3B2 ACP sing 51 n n PA O1A ACP doub 52 n n PA O2A ACP sing 53 n n PA O3A ACP sing 54 n n PA O5' ACP sing 55 n n O2A HOA2 ACP sing 56 n n O5' C5' ACP sing 57 n n C5' C4' ACP sing 58 n n C5' "H5'1" ACP sing 59 n n C5' "H5'2" ACP sing 60 n n C4' O4' ACP sing 61 n n C4' C3' ACP sing 62 n n C4' H4' ACP sing 63 n n O4' C1' ACP sing 64 n n C3' O3' ACP sing 65 n n C3' C2' ACP sing 66 n n C3' H3' ACP sing 67 n n O3' HO3' ACP sing 68 n n C2' O2' ACP sing 69 n n C2' C1' ACP sing 70 n n C2' H2' ACP sing 71 n n O2' HO2' ACP sing 72 n n C1' N9 ACP sing 73 n n C1' H1' ACP sing 74 n n N9 C8 ACP sing 75 n y N9 C4 ACP sing 76 n y C8 N7 ACP doub 77 n y C8 H8 ACP sing 78 n n N7 C5 ACP sing 79 n y C5 C6 ACP sing 80 n y C5 C4 ACP doub 81 n y C6 N6 ACP sing 82 n n C6 N1 ACP doub 83 n y N6 HN61 ACP sing 84 n n N6 HN62 ACP sing 85 n n N1 C2 ACP sing 86 n y C2 N3 ACP doub 87 n y C2 H2 ACP sing 88 n n N3 C4 ACP sing 89 n y # _atom_sites.entry_id 4AN9 _atom_sites.fract_transf_matrix[1][1] 0.009204 _atom_sites.fract_transf_matrix[1][2] 0.005314 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010627 _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] 0.020245 _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 ACP A 1 1382 1382 ACP ACP . C 3 MG A 1 1383 1383 MG MG . D 4 2P7 A 1 1384 1384 2P7 2P7 . E 5 HOH A 1 2001 2001 HOH HOH . E 5 HOH A 2 2002 2002 HOH HOH . E 5 HOH A 3 2003 2003 HOH HOH . E 5 HOH A 4 2004 2004 HOH HOH . E 5 HOH A 5 2005 2005 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 . . . B 2 -29.374 -12.468 -7.784 1 39.58 ? PG ACP 1382 A 1 HETATM 2 O O1G ACP . . . B 2 -28.749 -12.895 -9.109 1 44.24 ? O1G ACP 1382 A 1 HETATM 3 O O2G ACP . . . B 2 -29.046 -13.314 -6.573 1 40.18 ? O2G ACP 1382 A 1 HETATM 4 O O3G ACP . . . B 2 -29.147 -11.007 -7.549 1 40.67 ? O3G ACP 1382 A 1 HETATM 5 P PB ACP . . . B 2 -31.865 -14.217 -8.603 1 41.21 ? PB ACP 1382 A 1 HETATM 6 O O1B ACP . . . B 2 -31.811 -15.131 -7.383 1 39.25 ? O1B ACP 1382 A 1 HETATM 7 O O2B ACP . . . B 2 -33.171 -13.868 -9.285 1 38.14 ? O2B ACP 1382 A 1 HETATM 8 C C3B ACP . . . B 2 -31.164 -12.611 -8.066 1 41.12 ? C3B ACP 1382 A 1 HETATM 9 P PA ACP . . . B 2 -31.006 -16.524 -9.81 1 37.43 ? PA ACP 1382 A 1 HETATM 10 O O1A ACP . . . B 2 -30.776 -17.21 -8.459 1 33.06 ? O1A ACP 1382 A 1 HETATM 11 O O2A ACP . . . B 2 -30.208 -16.951 -10.99 1 39.47 ? O2A ACP 1382 A 1 HETATM 12 O O3A ACP . . . B 2 -30.987 -14.923 -9.749 1 38.68 ? O3A ACP 1382 A 1 HETATM 13 O O5' ACP . . . B 2 -32.494 -16.682 -10.329 1 38.33 ? O5' ACP 1382 A 1 HETATM 14 C C5' ACP . . . B 2 -32.832 -16.173 -11.604 1 41.8 ? C5' ACP 1382 A 1 HETATM 15 C C4' ACP . . . B 2 -34.356 -16.251 -11.741 1 45.65 ? C4' ACP 1382 A 1 HETATM 16 O O4' ACP . . . B 2 -34.61 -17.466 -12.457 1 45.29 ? O4' ACP 1382 A 1 HETATM 17 C C3' ACP . . . B 2 -35.142 -16.381 -10.417 1 47.68 ? C3' ACP 1382 A 1 HETATM 18 O O3' ACP . . . B 2 -35.725 -15.2 -9.858 1 48.98 ? O3' ACP 1382 A 1 HETATM 19 C C2' ACP . . . B 2 -36.291 -17.255 -10.807 1 46.83 ? C2' ACP 1382 A 1 HETATM 20 O O2' ACP . . . B 2 -37.282 -16.407 -11.362 1 46.56 ? O2' ACP 1382 A 1 HETATM 21 C C1' ACP . . . B 2 -35.714 -18.157 -11.887 1 45.02 ? C1' ACP 1382 A 1 HETATM 22 N N9 ACP . . . B 2 -35.42 -19.433 -11.175 1 44.74 ? N9 ACP 1382 A 1 HETATM 23 C C8 ACP . . . B 2 -34.386 -19.772 -10.38 1 44.64 ? C8 ACP 1382 A 1 HETATM 24 N N7 ACP . . . B 2 -34.55 -21.027 -9.881 1 44.33 ? N7 ACP 1382 A 1 HETATM 25 C C5 ACP . . . B 2 -35.71 -21.509 -10.358 1 43.57 ? C5 ACP 1382 A 1 HETATM 26 C C6 ACP . . . B 2 -36.508 -22.754 -10.253 1 43.14 ? C6 ACP 1382 A 1 HETATM 27 N N6 ACP . . . B 2 -36.076 -23.805 -9.528 1 43.91 ? N6 ACP 1382 A 1 HETATM 28 N N1 ACP . . . B 2 -37.699 -22.827 -10.91 1 44.73 ? N1 ACP 1382 A 1 HETATM 29 C C2 ACP . . . B 2 -38.192 -21.821 -11.685 1 45.39 ? C2 ACP 1382 A 1 HETATM 30 N N3 ACP . . . B 2 -37.511 -20.656 -11.845 1 46.88 ? N3 ACP 1382 A 1 HETATM 31 C C4 ACP . . . B 2 -36.292 -20.451 -11.203 1 45.78 ? C4 ACP 1382 A 1 # _model_server_stats.io_time_ms 56 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 31 #