data_5UHN # _model_server_result.job_id E64FP5KPo-VjGelJvXH9Bg _model_server_result.datetime_utc '2024-11-22 22:05:48' _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 5uhn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":802}' # _entry.id 5UHN # _exptl.entry_id 5UHN _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 90 _cell.entry_id 5UHN _cell.length_a 67.334 _cell.length_b 78.557 _cell.length_c 116.546 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5UHN _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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,C,D,E,I 1 1 B,F,G,H,J 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 D 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 187 A ASN 631 1_555 E MG MG . A MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? metalc ? metalc2 A OD1 ASP 200 A ASP 644 1_555 E MG MG . A MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.976 ? metalc ? metalc3 D O2B ACP . A ACP 802 1_555 E MG MG . A MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc4 D O2A ACP . A ACP 802 1_555 E MG MG . A MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.729 ? metalc ? metalc5 B O ARG 186 B ARG 630 1_555 H MG MG . B MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.687 ? metalc ? metalc6 G O1B ACP . B ACP 802 1_555 H MG MG . B MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.893 ? metalc ? metalc7 G O1A ACP . B ACP 802 1_555 H MG MG . B MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.85 ? # _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 5UHN _atom_sites.fract_transf_matrix[1][1] 0.014851 _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] 0.01273 _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] 0.00858 _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 SO4 A 1 801 1 SO4 SO4 . D 3 ACP A 1 802 1 ACP ACP . E 4 MG A 1 803 1 MG MG . F 2 SO4 B 1 801 2 SO4 SO4 . G 3 ACP B 1 802 2 ACP ACP . H 4 MG B 1 803 1 MG MG . I 5 HOH A 1 901 2 HOH HOH . J 5 HOH B 1 901 1 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 . . . D 3 29.111 38.216 20.151 1 68.04 ? PG ACP 802 A 1 HETATM 2 O O1G ACP . . . D 3 29.217 39.777 20.105 1 68.36 ? O1G ACP 802 A 1 HETATM 3 O O2G ACP . . . D 3 30.559 37.613 20.211 1 68.12 ? O2G ACP 802 A 1 HETATM 4 O O3G ACP . . . D 3 28.346 37.8 21.374 1 68.37 ? O3G ACP 802 A 1 HETATM 5 P PB ACP . . . D 3 26.43 37.736 18.747 1 63.75 ? PB ACP 802 A 1 HETATM 6 O O1B ACP . . . D 3 25.811 36.299 18.799 1 63.63 ? O1B ACP 802 A 1 HETATM 7 O O2B ACP . . . D 3 26.059 38.491 19.992 1 64.07 ? O2B ACP 802 A 1 HETATM 8 C C3B ACP . . . D 3 28.268 37.608 18.624 1 65.91 ? C3B ACP 802 A 1 HETATM 9 P PA ACP . . . D 3 24.357 38.939 17.332 1 58.98 ? PA ACP 802 A 1 HETATM 10 O O1A ACP . . . D 3 23.589 37.831 16.637 1 59.27 ? O1A ACP 802 A 1 HETATM 11 O O2A ACP . . . D 3 23.742 39.195 18.684 1 58.91 ? O2A ACP 802 A 1 HETATM 12 O O3A ACP . . . D 3 25.881 38.509 17.47 1 61.59 ? O3A ACP 802 A 1 HETATM 13 O O5' ACP . . . D 3 24.274 40.28 16.443 1 56.31 ? O5' ACP 802 A 1 HETATM 14 C C5' ACP . . . D 3 25.25 41.279 16.61 1 54.28 ? C5' ACP 802 A 1 HETATM 15 C C4' ACP . . . D 3 24.612 42.545 17.012 1 52.43 ? C4' ACP 802 A 1 HETATM 16 O O4' ACP . . . D 3 23.445 42.813 16.15 1 51.27 ? O4' ACP 802 A 1 HETATM 17 C C3' ACP . . . D 3 24.157 42.489 18.395 1 51.62 ? C3' ACP 802 A 1 HETATM 18 O O3' ACP . . . D 3 24.675 43.584 19.149 1 51.55 ? O3' ACP 802 A 1 HETATM 19 C C2' ACP . . . D 3 22.738 42.568 18.376 1 50.75 ? C2' ACP 802 A 1 HETATM 20 O O2' ACP . . . D 3 22.291 43.37 19.483 1 50.9 ? O2' ACP 802 A 1 HETATM 21 C C1' ACP . . . D 3 22.389 43.194 17.12 1 50 ? C1' ACP 802 A 1 HETATM 22 N N9 ACP . . . D 3 21.128 42.775 16.692 1 48.22 ? N9 ACP 802 A 1 HETATM 23 C C8 ACP . . . D 3 20.718 41.518 16.486 1 47.61 ? C8 ACP 802 A 1 HETATM 24 N N7 ACP . . . D 3 19.448 41.518 16.086 1 47.54 ? N7 ACP 802 A 1 HETATM 25 C C5 ACP . . . D 3 19.001 42.77 16.025 1 47.29 ? C5 ACP 802 A 1 HETATM 26 C C6 ACP . . . D 3 17.78 43.365 15.681 1 46.64 ? C6 ACP 802 A 1 HETATM 27 N N6 ACP . . . D 3 16.654 42.54 15.276 1 45.99 ? N6 ACP 802 A 1 HETATM 28 N N1 ACP . . . D 3 17.649 44.699 15.724 1 46.84 ? N1 ACP 802 A 1 HETATM 29 C C2 ACP . . . D 3 18.677 45.5 16.097 1 46.86 ? C2 ACP 802 A 1 HETATM 30 N N3 ACP . . . D 3 19.877 44.955 16.44 1 47.1 ? N3 ACP 802 A 1 HETATM 31 C C4 ACP . . . D 3 20.065 43.609 16.413 1 47.51 ? C4 ACP 802 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 31 #