data_6U2G # _model_server_result.job_id ZC5bmIquJEUKpTZASnu5MA _model_server_result.datetime_utc '2024-12-05 00:23:58' _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 6u2g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":901}' # _entry.id 6U2G # _exptl.entry_id 6U2G _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 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 120 _cell.entry_id 6U2G _cell.length_a 117.42 _cell.length_b 117.42 _cell.length_c 130.273 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6U2G _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,F,G,H,I _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 G 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 196 A ASN 195 1_555 D MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? metalc ? metalc2 A OD2 ASP 209 A ASP 208 1_555 D MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.72 ? metalc ? metalc3 C O2B ACP . A ACP 901 1_555 D MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? metalc ? metalc4 C O1A ACP . A ACP 901 1_555 D MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc5 D MG MG . A MG 902 1_555 H O HOH . A HOH 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc6 D MG MG . A MG 902 1_555 H O HOH . A HOH 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc7 B OD1 ASN 162 B ASN 581 1_555 F MG MG . B MG 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.731 ? metalc ? metalc8 B OD2 ASP 175 B ASP 594 1_555 F MG MG . B MG 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc9 F MG MG . B MG 900 1_555 G O2G ACP . B ACP 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.922 ? metalc ? metalc10 F MG MG . B MG 900 1_555 G O2B ACP . B ACP 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.912 ? metalc ? metalc11 F MG MG . B MG 900 1_555 G O1A ACP . B ACP 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.436 ? metalc ? metalc12 F MG MG . B MG 900 1_555 I O HOH . B HOH 1009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? # _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 6U2G _atom_sites.fract_transf_matrix[1][1] 0.008516 _atom_sites.fract_transf_matrix[1][2] 0.004917 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009834 _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] 0.007676 _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 3 ACP A 1 901 901 ACP ACP . D 4 MG A 1 902 902 MG MG . E 5 SO4 A 1 903 1 SO4 SO4 . F 4 MG B 1 900 900 MG MG . G 3 ACP B 1 901 901 ACP ACP . H 6 HOH A 1 1001 15 HOH HOH . H 6 HOH A 2 1002 14 HOH HOH . H 6 HOH A 3 1003 36 HOH HOH . H 6 HOH A 4 1004 12 HOH HOH . H 6 HOH A 5 1005 23 HOH HOH . H 6 HOH A 6 1006 6 HOH HOH . H 6 HOH A 7 1007 7 HOH HOH . H 6 HOH A 8 1008 19 HOH HOH . H 6 HOH A 9 1009 8 HOH HOH . H 6 HOH A 10 1010 18 HOH HOH . H 6 HOH A 11 1011 31 HOH HOH . H 6 HOH A 12 1012 25 HOH HOH . H 6 HOH A 13 1013 27 HOH HOH . H 6 HOH A 14 1014 22 HOH HOH . H 6 HOH A 15 1015 24 HOH HOH . H 6 HOH A 16 1016 13 HOH HOH . H 6 HOH A 17 1017 11 HOH HOH . H 6 HOH A 18 1018 40 HOH HOH . H 6 HOH A 19 1019 39 HOH HOH . H 6 HOH A 20 1020 26 HOH HOH . H 6 HOH A 21 1021 34 HOH HOH . H 6 HOH A 22 1022 35 HOH HOH . I 6 HOH B 1 1001 1 HOH HOH . I 6 HOH B 2 1002 3 HOH HOH . I 6 HOH B 3 1003 30 HOH HOH . I 6 HOH B 4 1004 2 HOH HOH . I 6 HOH B 5 1005 38 HOH HOH . I 6 HOH B 6 1006 28 HOH HOH . I 6 HOH B 7 1007 20 HOH HOH . I 6 HOH B 8 1008 32 HOH HOH . I 6 HOH B 9 1009 5 HOH HOH . I 6 HOH B 10 1010 16 HOH HOH . I 6 HOH B 11 1011 17 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 . . . C 3 51.813 -40.8 -11.961 1 66.66 ? PG ACP 901 A 1 HETATM 2 O O1G ACP . . . C 3 51.525 -42.295 -12.1 1 69.57 ? O1G ACP 901 A 1 HETATM 3 O O2G ACP . . . C 3 52.888 -40.29 -12.966 1 67.15 ? O2G ACP 901 A 1 HETATM 4 O O3G ACP . . . C 3 50.515 -40.079 -12.283 1 63.13 ? O3G ACP 901 A 1 HETATM 5 P PB ACP . . . C 3 52.527 -38.837 -9.715 1 52.58 ? PB ACP 901 A 1 HETATM 6 O O1B ACP . . . C 3 53.203 -38.85 -8.363 1 52.84 ? O1B ACP 901 A 1 HETATM 7 O O2B ACP . . . C 3 51.265 -38.014 -9.834 1 52.93 ? O2B ACP 901 A 1 HETATM 8 C C3B ACP . . . C 3 52.405 -40.59 -10.248 1 58.96 ? C3B ACP 901 A 1 HETATM 9 P PA ACP . . . C 3 53.583 -36.499 -10.988 1 52.62 ? PA ACP 901 A 1 HETATM 10 O O1A ACP . . . C 3 52.196 -36.014 -11.096 1 52.87 -1 O1A ACP 901 A 1 HETATM 11 O O2A ACP . . . C 3 54.371 -36.415 -12.235 1 52.83 ? O2A ACP 901 A 1 HETATM 12 O O3A ACP . . . C 3 53.616 -38.096 -10.684 1 53.66 ? O3A ACP 901 A 1 HETATM 13 O O5' ACP . . . C 3 54.386 -35.685 -9.756 1 54.09 ? O5' ACP 901 A 1 HETATM 14 C C5' ACP . . . C 3 55.332 -36.368 -8.967 1 55.08 ? C5' ACP 901 A 1 HETATM 15 C C4' ACP . . . C 3 55.472 -35.587 -7.65 1 58.18 ? C4' ACP 901 A 1 HETATM 16 O O4' ACP . . . C 3 55.701 -34.35 -7.932 1 58.27 ? O4' ACP 901 A 1 HETATM 17 C C3' ACP . . . C 3 54.112 -35.543 -6.874 1 60.89 ? C3' ACP 901 A 1 HETATM 18 O O3' ACP . . . C 3 54.002 -36.574 -5.98 1 62.09 ? O3' ACP 901 A 1 HETATM 19 C C2' ACP . . . C 3 54.207 -34.242 -6.109 1 62.12 ? C2' ACP 901 A 1 HETATM 20 O O2' ACP . . . C 3 54.792 -34.609 -4.776 1 68.68 ? O2' ACP 901 A 1 HETATM 21 C C1' ACP . . . C 3 55.059 -33.462 -6.755 1 56.56 ? C1' ACP 901 A 1 HETATM 22 N N9 ACP . . . C 3 54.306 -32.349 -7.291 1 56.01 ? N9 ACP 901 A 1 HETATM 23 C C8 ACP . . . C 3 53.552 -32.321 -8.409 1 51.66 ? C8 ACP 901 A 1 HETATM 24 N N7 ACP . . . C 3 52.973 -31.114 -8.531 1 51.83 ? N7 ACP 901 A 1 HETATM 25 C C5 ACP . . . C 3 53.36 -30.382 -7.495 1 50.6 ? C5 ACP 901 A 1 HETATM 26 C C6 ACP . . . C 3 53.05 -29.088 -7.125 1 54.97 ? C6 ACP 901 A 1 HETATM 27 N N6 ACP . . . C 3 52.204 -27.965 -7.709 1 54.22 ? N6 ACP 901 A 1 HETATM 28 N N1 ACP . . . C 3 53.574 -28.594 -5.985 1 54.32 ? N1 ACP 901 A 1 HETATM 29 C C2 ACP . . . C 3 54.391 -29.354 -5.206 1 53.18 ? C2 ACP 901 A 1 HETATM 30 N N3 ACP . . . C 3 54.685 -30.64 -5.547 1 53.05 ? N3 ACP 901 A 1 HETATM 31 C C4 ACP . . . C 3 54.179 -31.151 -6.699 1 52.94 ? C4 ACP 901 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 31 #