data_1BR4 # _model_server_result.job_id p7JbY2YcqvpLz_Q7ma1gpw _model_server_result.datetime_utc '2024-11-22 10:26:49' _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 1br4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":998}' # _entry.id 1BR4 # _exptl.entry_id 1BR4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 111.21 _cell.angle_beta 106.1 _cell.angle_gamma 92.58 _cell.entry_id 1BR4 _cell.length_a 95.32 _cell.length_b 144.66 _cell.length_c 147.29 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1BR4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 PISA dimeric 2 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,I,J,K,U 1 1 C,D,L,M,N,V 2 1 E,F,O,P,Q,W 3 1 G,H,R,S,T,X 4 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 ? 4 J N N ? 4 M N N ? 4 P N N ? 4 S 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 183 A THR 184 1_555 I MG MG . A MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.467 ? metalc ? metalc2 A OG SER 245 A SER 246 1_555 I MG MG . A MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.933 ? metalc ? metalc3 U O HOH . A HOH 995 1_555 I MG MG . A MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc4 I MG MG . A MG 997 1_555 J O2B ADP . A ADP 998 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc5 I MG MG . A MG 997 1_555 K F3 BEF . A BEF 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc6 J O3B ADP . A ADP 998 1_555 K BE BEF . A BEF 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.568 ? metalc ? metalc7 C OG1 THR 183 C THR 184 1_555 L MG MG . C MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc8 C OG SER 245 C SER 246 1_555 L MG MG . C MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.986 ? metalc ? metalc9 V O HOH . C HOH 995 1_555 L MG MG . C MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc10 L MG MG . C MG 997 1_555 M O2B ADP . C ADP 998 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc11 L MG MG . C MG 997 1_555 N F3 BEF . C BEF 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? metalc ? metalc12 M O3B ADP . C ADP 998 1_555 N BE BEF . C BEF 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.568 ? metalc ? metalc13 E OG1 THR 183 E THR 184 1_555 O MG MG . E MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc14 E OG SER 245 E SER 246 1_555 O MG MG . E MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.005 ? metalc ? metalc15 W O HOH . E HOH 995 1_555 O MG MG . E MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc16 O MG MG . E MG 997 1_555 P O2B ADP . E ADP 998 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? metalc ? metalc17 O MG MG . E MG 997 1_555 Q F3 BEF . E BEF 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? metalc ? metalc18 P O3B ADP . E ADP 998 1_555 Q BE BEF . E BEF 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.569 ? metalc ? metalc19 G OG1 THR 183 G THR 184 1_555 R MG MG . G MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.42 ? metalc ? metalc20 G OG SER 245 G SER 246 1_555 R MG MG . G MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.985 ? metalc ? metalc21 X O HOH . G HOH 995 1_555 R MG MG . G MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? metalc ? metalc22 R MG MG . G MG 997 1_555 S O2B ADP . G ADP 998 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? metalc ? metalc23 R MG MG . G MG 997 1_555 T F3 BEF . G BEF 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc24 S O3B ADP . G ADP 998 1_555 T BE BEF . G BEF 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.568 ? # _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 1BR4 _atom_sites.fract_transf_matrix[1][1] 0.010491 _atom_sites.fract_transf_matrix[1][2] 0.000473 _atom_sites.fract_transf_matrix[1][3] 0.003489 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00692 _atom_sites.fract_transf_matrix[2][3] 0.00293 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.007674 _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 I 3 MG A 1 997 997 MG MG . J 4 ADP A 1 998 998 ADP ADP . K 5 BEF A 1 999 999 BEF BEF . L 3 MG C 1 997 997 MG MG . M 4 ADP C 1 998 998 ADP ADP . N 5 BEF C 1 999 999 BEF BEF . O 3 MG E 1 997 997 MG MG . P 4 ADP E 1 998 998 ADP ADP . Q 5 BEF E 1 999 999 BEF BEF . R 3 MG G 1 997 997 MG MG . S 4 ADP G 1 998 998 ADP ADP . T 5 BEF G 1 999 999 BEF BEF . U 6 HOH A 1 995 995 HOH HOH . U 6 HOH A 2 996 996 HOH HOH . V 6 HOH C 1 995 995 HOH HOH . V 6 HOH C 2 996 996 HOH HOH . W 6 HOH E 1 995 995 HOH HOH . W 6 HOH E 2 996 996 HOH HOH . X 6 HOH G 1 995 995 HOH HOH . X 6 HOH G 2 996 996 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 PB ADP . . . J 4 -0.539 -4.139 5.666 1 25 ? PB ADP 998 A 1 HETATM 2 O O1B ADP . . . J 4 0.266 -2.926 5.959 1 25 ? O1B ADP 998 A 1 HETATM 3 O O2B ADP . . . J 4 -1.685 -3.874 4.711 1 25 ? O2B ADP 998 A 1 HETATM 4 O O3B ADP . . . J 4 0.355 -5.264 5.098 1 25 ? O3B ADP 998 A 1 HETATM 5 P PA ADP . . . J 4 -2.661 -4.951 7.557 1 25 ? PA ADP 998 A 1 HETATM 6 O O1A ADP . . . J 4 -3.539 -3.762 7.455 1 25 ? O1A ADP 998 A 1 HETATM 7 O O2A ADP . . . J 4 -3.24 -6.069 6.757 1 25 ? O2A ADP 998 A 1 HETATM 8 O O3A ADP . . . J 4 -1.188 -4.66 7.116 1 25 ? O3A ADP 998 A 1 HETATM 9 O O5' ADP . . . J 4 -2.448 -5.427 9.127 1 25 ? O5' ADP 998 A 1 HETATM 10 C C5' ADP . . . J 4 -1.835 -6.704 9.445 1 25 ? C5' ADP 998 A 1 HETATM 11 C C4' ADP . . . J 4 -2.637 -7.265 10.584 1 25 ? C4' ADP 998 A 1 HETATM 12 O O4' ADP . . . J 4 -2.358 -6.424 11.739 1 25 ? O4' ADP 998 A 1 HETATM 13 C C3' ADP . . . J 4 -4.128 -7.081 10.383 1 25 ? C3' ADP 998 A 1 HETATM 14 O O3' ADP . . . J 4 -4.773 -8.176 9.708 1 25 ? O3' ADP 998 A 1 HETATM 15 C C2' ADP . . . J 4 -4.625 -6.866 11.781 1 25 ? C2' ADP 998 A 1 HETATM 16 O O2' ADP . . . J 4 -4.596 -8.085 12.528 1 25 ? O2' ADP 998 A 1 HETATM 17 C C1' ADP . . . J 4 -3.541 -6.01 12.315 1 25 ? C1' ADP 998 A 1 HETATM 18 N N9 ADP . . . J 4 -3.745 -4.577 12.343 1 25 ? N9 ADP 998 A 1 HETATM 19 C C8 ADP . . . J 4 -3.127 -3.586 11.66 1 25 ? C8 ADP 998 A 1 HETATM 20 N N7 ADP . . . J 4 -3.597 -2.371 11.957 1 25 ? N7 ADP 998 A 1 HETATM 21 C C5 ADP . . . J 4 -4.595 -2.623 12.91 1 25 ? C5 ADP 998 A 1 HETATM 22 C C6 ADP . . . J 4 -5.496 -1.776 13.648 1 25 ? C6 ADP 998 A 1 HETATM 23 N N6 ADP . . . J 4 -5.6 -0.471 13.598 1 25 ? N6 ADP 998 A 1 HETATM 24 N N1 ADP . . . J 4 -6.378 -2.348 14.528 1 25 ? N1 ADP 998 A 1 HETATM 25 C C2 ADP . . . J 4 -6.348 -3.698 14.652 1 25 ? C2 ADP 998 A 1 HETATM 26 N N3 ADP . . . J 4 -5.557 -4.597 14.022 1 25 ? N3 ADP 998 A 1 HETATM 27 C C4 ADP . . . J 4 -4.692 -3.979 13.152 1 25 ? C4 ADP 998 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 55 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #