data_7BSP # _model_server_result.job_id 9fkNJtgnBRbVITK0GDr6lg _model_server_result.datetime_utc '2025-01-03 07:53:23' _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 7bsp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1101}' # _entry.id 7BSP # _exptl.entry_id 7BSP _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 505.208 _entity.id 4 _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 90 _cell.entry_id 7BSP _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7BSP _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? _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 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O3 _pdbx_entity_branch_link.leaving_atom_id_2 HO3 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C NAG 1 B 1 NAG C 401 NAG 3 n C NAG 2 B 2 NAG C 402 NAG # 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 disulf ? disulf1 B SG CYS 91 C CYS 91 1_555 B SG CYS 104 C CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 B SG CYS 94 C CYS 94 1_555 B SG CYS 102 C CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 B SG CYS 157 C CYS 157 1_555 B SG CYS 171 C CYS 171 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 B ND2 ASN 107 C ASN 107 1_555 F C1 NAG . C NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale2 B ND2 ASN 180 C ASN 180 1_555 C C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 B ND2 ASN 294 C ASN 294 1_555 E C1 NAG . C NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale4 C O3 NAG . B NAG 1 1_555 C C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? # _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 7BSP _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 D 4 ACP A 1 1101 1101 ACP ACP . E 5 NAG C 1 403 404 NAG NAG . F 5 NAG C 1 404 405 NAG NAG . # 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 4 96.693 113.494 144.03 1 61.86 ? PG ACP 1101 A 1 HETATM 2 O O1G ACP . . . D 4 96.396 114.92 143.776 1 61.86 ? O1G ACP 1101 A 1 HETATM 3 O O2G ACP . . . D 4 95.55 112.889 144.986 1 61.86 ? O2G ACP 1101 A 1 HETATM 4 O O3G ACP . . . D 4 96.704 112.693 142.638 1 61.86 ? O3G ACP 1101 A 1 HETATM 5 P PB ACP . . . D 4 98.274 114.072 146.472 1 61.86 ? PB ACP 1101 A 1 HETATM 6 O O1B ACP . . . D 4 98.865 113.1 147.412 1 61.86 ? O1B ACP 1101 A 1 HETATM 7 O O2B ACP . . . D 4 96.77 114.38 146.955 1 61.86 ? O2B ACP 1101 A 1 HETATM 8 C C3B ACP . . . D 4 98.321 113.359 144.811 1 61.86 ? C3B ACP 1101 A 1 HETATM 9 P PA ACP . . . D 4 98.413 116.779 146.927 1 61.86 ? PA ACP 1101 A 1 HETATM 10 O O1A ACP . . . D 4 97.186 116.933 146.067 1 61.86 ? O1A ACP 1101 A 1 HETATM 11 O O2A ACP . . . D 4 99.388 117.928 146.985 1 61.86 ? O2A ACP 1101 A 1 HETATM 12 O O3A ACP . . . D 4 99.149 115.419 146.492 1 61.86 ? O3A ACP 1101 A 1 HETATM 13 O O5' ACP . . . D 4 97.936 116.43 148.415 1 61.86 ? O5' ACP 1101 A 1 HETATM 14 C C5' ACP . . . D 4 96.615 116.766 148.795 1 61.86 ? C5' ACP 1101 A 1 HETATM 15 C C4' ACP . . . D 4 96.634 117.395 150.177 1 61.86 ? C4' ACP 1101 A 1 HETATM 16 O O4' ACP . . . D 4 95.335 117.877 150.517 1 61.86 ? O4' ACP 1101 A 1 HETATM 17 C C3' ACP . . . D 4 97.048 116.409 151.251 1 61.86 ? C3' ACP 1101 A 1 HETATM 18 O O3' ACP . . . D 4 98.341 116.737 151.753 1 61.86 ? O3' ACP 1101 A 1 HETATM 19 C C2' ACP . . . D 4 96.01 116.533 152.343 1 61.86 ? C2' ACP 1101 A 1 HETATM 20 O O2' ACP . . . D 4 96.63 116.906 153.572 1 61.86 ? O2' ACP 1101 A 1 HETATM 21 C C1' ACP . . . D 4 95.045 117.609 151.887 1 61.86 ? C1' ACP 1101 A 1 HETATM 22 N N9 ACP . . . D 4 93.641 117.16 152.026 1 61.86 ? N9 ACP 1101 A 1 HETATM 23 C C8 ACP . . . D 4 92.835 116.806 151.015 1 61.86 ? C8 ACP 1101 A 1 HETATM 24 N N7 ACP . . . D 4 91.61 116.454 151.474 1 61.86 ? N7 ACP 1101 A 1 HETATM 25 C C5 ACP . . . D 4 91.628 116.589 152.806 1 61.86 ? C5 ACP 1101 A 1 HETATM 26 C C6 ACP . . . D 4 90.668 116.386 153.906 1 61.86 ? C6 ACP 1101 A 1 HETATM 27 N N6 ACP . . . D 4 89.413 115.956 153.654 1 61.86 ? N6 ACP 1101 A 1 HETATM 28 N N1 ACP . . . D 4 91.085 116.643 155.163 1 61.86 ? N1 ACP 1101 A 1 HETATM 29 C C2 ACP . . . D 4 92.334 117.072 155.424 1 61.86 ? C2 ACP 1101 A 1 HETATM 30 N N3 ACP . . . D 4 93.253 117.275 154.465 1 61.86 ? N3 ACP 1101 A 1 HETATM 31 C C4 ACP . . . D 4 92.967 117.058 153.165 1 61.86 ? C4 ACP 1101 A 1 HETATM 32 H HOG2 ACP . . . D 4 94.621 112.95 144.721 1 61.86 ? HOG2 ACP 1101 A 1 HETATM 33 H HOG3 ACP . . . D 4 97.309 112.961 141.937 1 61.86 ? HOG3 ACP 1101 A 1 HETATM 34 H HOB2 ACP . . . D 4 96.197 114.962 146.444 1 61.86 ? HOB2 ACP 1101 A 1 HETATM 35 H H3B1 ACP . . . D 4 98.618 112.313 144.869 1 61.86 ? H3B1 ACP 1101 A 1 HETATM 36 H H3B2 ACP . . . D 4 99.061 113.884 144.208 1 61.86 ? H3B2 ACP 1101 A 1 HETATM 37 H "H5'1" ACP . . . D 4 96.003 115.863 148.795 1 61.86 ? "H5'1" ACP 1101 A 1 HETATM 38 H "H5'2" ACP . . . D 4 96.194 117.469 148.077 1 61.86 ? "H5'2" ACP 1101 A 1 HETATM 39 H H4' ACP . . . D 4 97.351 118.224 150.172 1 61.86 ? H4' ACP 1101 A 1 HETATM 40 H H3' ACP . . . D 4 97.037 115.395 150.837 1 61.86 ? H3' ACP 1101 A 1 HETATM 41 H HO3' ACP . . . D 4 98.646 116.024 152.328 1 61.86 ? HO3' ACP 1101 A 1 HETATM 42 H H2' ACP . . . D 4 95.468 115.587 152.451 1 61.86 ? H2' ACP 1101 A 1 HETATM 43 H HO2' ACP . . . D 4 97.2 116.186 153.868 1 61.86 ? HO2' ACP 1101 A 1 HETATM 44 H H1' ACP . . . D 4 95.212 118.508 152.489 1 61.86 ? H1' ACP 1101 A 1 HETATM 45 H H8 ACP . . . D 4 93.127 116.8 149.976 1 61.86 ? H8 ACP 1101 A 1 HETATM 46 H HN61 ACP . . . D 4 88.764 115.819 154.414 1 61.86 ? HN61 ACP 1101 A 1 HETATM 47 H HN62 ACP . . . D 4 89.127 115.771 152.704 1 61.86 ? HN62 ACP 1101 A 1 HETATM 48 H H2 ACP . . . D 4 92.613 117.263 156.453 1 61.86 ? H2 ACP 1101 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 73 _model_server_stats.query_time_ms 396 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 48 #