data_4RH7 # _model_server_result.job_id NULcoqziUGJGhrPzbdFePw _model_server_result.datetime_utc '2024-11-22 12:53:20' _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 4rh7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":4406}' # _entry.id 4RH7 # _exptl.entry_id 4RH7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 4RH7 _cell.length_a 136.03 _cell.length_b 487.15 _cell.length_c 276.46 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4RH7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,G _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 ? 5 F N N ? 5 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 OG1 THR 838 A THR 1696 1_555 C MG MG . A MG 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? metalc ? metalc2 A OD1 ASP 883 A ASP 1741 1_555 C MG MG . A MG 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.513 ? metalc ? metalc3 A OD2 ASP 883 A ASP 1741 1_555 C MG MG . A MG 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.686 ? metalc ? metalc4 A OG SER 1128 A SER 1986 1_555 E MG MG . A MG 4404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc5 A OE2 GLU 1237 A GLU 2095 1_555 E MG MG . A MG 4404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.519 ? metalc ? metalc6 B O4G AOV . A AOV 4401 1_555 C MG MG . A MG 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? metalc ? metalc7 B O2B AOV . A AOV 4401 1_555 C MG MG . A MG 4402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? metalc ? metalc8 D O3G ATP . A ATP 4403 1_555 E MG MG . A MG 4404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? metalc ? metalc9 D O2B ATP . A ATP 4403 1_555 E MG MG . A MG 4404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? # _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 4RH7 _atom_sites.fract_transf_matrix[1][1] 0.007351 _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] 0.002053 _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] 0.003617 _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 AOV A 1 4401 100 AOV AV5 . C 3 MG A 1 4402 101 MG MG . D 4 ATP A 1 4403 200 ATP ATP . E 3 MG A 1 4404 201 MG MG . F 5 ADP A 1 4405 300 ADP ADP . G 5 ADP A 1 4406 400 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 . . . G 5 7.472 336.922 43.855 1 78.81 ? PB ADP 4406 A 1 HETATM 2 O O1B ADP . . . G 5 7.595 337.003 42.259 1 71.68 ? O1B ADP 4406 A 1 HETATM 3 O O2B ADP . . . G 5 8.468 337.812 44.54 1 75.19 ? O2B ADP 4406 A 1 HETATM 4 O O3B ADP . . . G 5 6.006 337.067 44.212 1 85.7 ? O3B ADP 4406 A 1 HETATM 5 P PA ADP . . . G 5 8.499 335.01 45.631 1 76.26 ? PA ADP 4406 A 1 HETATM 6 O O1A ADP . . . G 5 9.894 335.576 45.779 1 66.52 ? O1A ADP 4406 A 1 HETATM 7 O O2A ADP . . . G 5 7.427 335.104 46.683 1 78.51 ? O2A ADP 4406 A 1 HETATM 8 O O3A ADP . . . G 5 7.889 335.418 44.199 1 77.67 ? O3A ADP 4406 A 1 HETATM 9 O O5' ADP . . . G 5 8.636 333.464 45.436 1 73.11 ? O5' ADP 4406 A 1 HETATM 10 C C5' ADP . . . G 5 9.417 332.823 46.394 1 76.72 ? C5' ADP 4406 A 1 HETATM 11 C C4' ADP . . . G 5 8.979 331.402 46.312 1 85.1 ? C4' ADP 4406 A 1 HETATM 12 O O4' ADP . . . G 5 9.241 330.853 45.005 1 87.1 ? O4' ADP 4406 A 1 HETATM 13 C C3' ADP . . . G 5 9.75 330.622 47.354 1 89.78 ? C3' ADP 4406 A 1 HETATM 14 O O3' ADP . . . G 5 9.025 330.478 48.58 1 92.43 ? O3' ADP 4406 A 1 HETATM 15 C C2' ADP . . . G 5 9.953 329.314 46.627 1 93.07 ? C2' ADP 4406 A 1 HETATM 16 O O2' ADP . . . G 5 8.836 328.432 46.794 1 99.61 ? O2' ADP 4406 A 1 HETATM 17 C C1' ADP . . . G 5 10.05 329.692 45.155 1 89.13 ? C1' ADP 4406 A 1 HETATM 18 N N9 ADP . . . G 5 11.465 329.976 44.841 1 85.73 ? N9 ADP 4406 A 1 HETATM 19 C C8 ADP . . . G 5 11.981 331.136 44.429 1 82.85 ? C8 ADP 4406 A 1 HETATM 20 N N7 ADP . . . G 5 13.31 331.037 44.241 1 77.98 ? N7 ADP 4406 A 1 HETATM 21 C C5 ADP . . . G 5 13.662 329.793 44.572 1 86.95 ? C5 ADP 4406 A 1 HETATM 22 C C6 ADP . . . G 5 14.914 329.001 44.621 1 100.39 ? C6 ADP 4406 A 1 HETATM 23 N N6 ADP . . . G 5 16.105 329.538 44.272 1 111.98 ? N6 ADP 4406 A 1 HETATM 24 N N1 ADP . . . G 5 14.846 327.709 45.016 1 104.93 ? N1 ADP 4406 A 1 HETATM 25 C C2 ADP . . . G 5 13.679 327.146 45.372 1 103.56 ? C2 ADP 4406 A 1 HETATM 26 N N3 ADP . . . G 5 12.511 327.813 45.347 1 95.68 ? N3 ADP 4406 A 1 HETATM 27 C C4 ADP . . . G 5 12.443 329.102 44.961 1 86.63 ? C4 ADP 4406 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 27 #