data_2F43 # _model_server_result.job_id WQwWalAe-vAnv4SyFV-sAw _model_server_result.datetime_utc '2025-02-05 18:01:33' _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 2f43 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":604}' # _entry.id 2F43 # _exptl.entry_id 2F43 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 2F43 _cell.length_a 144.567 _cell.length_b 144.567 _cell.length_c 362.982 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2F43 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details heptameric _pdbx_struct_assembly.oligomeric_count 7 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,D,E,F,G,H 1 1,2 A,B,C,D,E,F,G,H 1 3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'crystal symmetry operation' 2_765 -y+2,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 216.8505 125.198695 0 2 'crystal symmetry operation' 3_675 -x+y+1,-x+2,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 250.397389 0 3 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id H _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 OG1 THR 176 A THR 176 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.494 ? metalc ? metalc2 D MG MG . A MG 602 1_555 E O2G ATP . A ATP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.725 ? metalc ? metalc3 D MG MG . A MG 602 1_555 E O3B ATP . A ATP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.998 ? metalc ? metalc4 B OG1 THR 163 B THR 163 1_555 G MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.611 ? metalc ? metalc5 B NH1 ARG 189 B ARG 189 1_555 G MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.136 ? metalc ? metalc6 F V VO4 . B VO4 601 1_555 H O1B ADP . B ADP 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.018 ? metalc ? metalc7 F O2 VO4 . B VO4 601 1_555 G MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.93 ? metalc ? metalc8 H O2B ADP . B ADP 604 1_555 G MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.136 ? metalc ? metalc9 H O3B ADP . B ADP 604 1_555 G MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 2F43 _atom_sites.fract_transf_matrix[1][1] 0.006917 _atom_sites.fract_transf_matrix[1][2] 0.003994 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007987 _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] 0.002755 _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 MG A 1 602 602 MG MG . E 5 ATP A 1 603 603 ATP ATP . F 6 VO4 B 1 601 601 VO4 VO4 . G 4 MG B 1 605 605 MG MG . H 7 ADP B 1 604 604 ADP ADP . # 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 PB ADP . . . H 7 64.313 99.17 88.98 1 97.94 ? PB ADP 604 B 1 HETATM 2 O O1B ADP . . . H 7 65.469 100.013 88.76 1 97.25 ? O1B ADP 604 B 1 HETATM 3 O O2B ADP . . . H 7 63.023 99.758 88.667 1 97.38 ? O2B ADP 604 B 1 HETATM 4 O O3B ADP . . . H 7 64.424 97.738 88.42 1 98.65 ? O3B ADP 604 B 1 HETATM 5 P PA ADP . . . H 7 64.533 97.762 91.467 1 101.94 ? PA ADP 604 B 1 HETATM 6 O O1A ADP . . . H 7 63.196 97.423 91.987 1 101.74 ? O1A ADP 604 B 1 HETATM 7 O O2A ADP . . . H 7 65.226 96.61 90.77 1 102.32 ? O2A ADP 604 B 1 HETATM 8 O O3A ADP . . . H 7 64.292 99.02 90.56 1 99.83 ? O3A ADP 604 B 1 HETATM 9 O O5' ADP . . . H 7 65.288 98.268 92.754 1 102.22 ? O5' ADP 604 B 1 HETATM 10 C C5' ADP . . . H 7 66.693 98.649 92.845 1 102.3 ? C5' ADP 604 B 1 HETATM 11 C C4' ADP . . . H 7 67.422 98.138 94.113 1 102.43 ? C4' ADP 604 B 1 HETATM 12 O O4' ADP . . . H 7 66.684 98.719 95.245 1 102.29 ? O4' ADP 604 B 1 HETATM 13 C C3' ADP . . . H 7 67.437 96.617 94.42 1 102.53 ? C3' ADP 604 B 1 HETATM 14 O O3' ADP . . . H 7 68.67 96.086 93.885 1 102.31 ? O3' ADP 604 B 1 HETATM 15 C C2' ADP . . . H 7 67.336 96.533 95.989 1 102.27 ? C2' ADP 604 B 1 HETATM 16 O O2' ADP . . . H 7 68.586 96.715 96.695 1 101.65 ? O2' ADP 604 B 1 HETATM 17 C C1' ADP . . . H 7 66.467 97.771 96.321 1 101.72 ? C1' ADP 604 B 1 HETATM 18 N N9 ADP . . . H 7 64.992 97.314 96.466 1 100.93 ? N9 ADP 604 B 1 HETATM 19 C C8 ADP . . . H 7 63.988 97.291 95.486 1 100.24 ? C8 ADP 604 B 1 HETATM 20 N N7 ADP . . . H 7 62.757 96.904 95.962 1 99.93 ? N7 ADP 604 B 1 HETATM 21 C C5 ADP . . . H 7 63.013 96.636 97.316 1 100.04 ? C5 ADP 604 B 1 HETATM 22 C C6 ADP . . . H 7 62.119 96.206 98.405 1 99.4 ? C6 ADP 604 B 1 HETATM 23 N N6 ADP . . . H 7 60.838 95.998 98.299 1 98.66 ? N6 ADP 604 B 1 HETATM 24 N N1 ADP . . . H 7 62.76 96.056 99.646 1 99.89 ? N1 ADP 604 B 1 HETATM 25 C C2 ADP . . . H 7 64.127 96.297 99.853 1 100.07 ? C2 ADP 604 B 1 HETATM 26 N N3 ADP . . . H 7 64.98 96.681 98.874 1 100.18 ? N3 ADP 604 B 1 HETATM 27 C C4 ADP . . . H 7 64.39 96.862 97.639 1 100.59 ? C4 ADP 604 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #