data_8SRH # _model_server_result.job_id 1SqDfRtJZQzZs-eqP9X6jg _model_server_result.datetime_utc '2024-10-18 08:44:31' _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 8srh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":1706}' # _entry.id 8SRH # _exptl.entry_id 8SRH _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 559.316 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ADENOSINE-5-DIPHOSPHORIBOSE _entity.pdbx_number_of_molecules 8 _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 8SRH _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8SRH _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 tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 J N N ? 2 N N N ? 2 S N N ? 2 W N N ? 2 BA N N ? 2 IA N N ? 2 NA 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 disulf ? disulf1 A SG CYS 997 A CYS 997 1_555 A SG CYS 1006 A CYS 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 B SG CYS 997 B CYS 997 1_555 B SG CYS 1006 B CYS 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 C SG CYS 997 C CYS 997 1_555 C SG CYS 1006 C CYS 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 D SG CYS 997 D CYS 997 1_555 D SG CYS 1006 D CYS 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc1 A OE2 GLU 850 A GLU 850 1_555 F MG MG . A MG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.702 ? metalc ? metalc2 A OE1 GLN 853 A GLN 853 1_555 F MG MG . A MG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? metalc ? metalc3 G MG MG . A MG 1703 1_555 J O1A APR . A APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? metalc ? metalc4 G MG MG . A MG 1703 1_555 J O2B APR . A APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? metalc ? metalc5 H MG MG . A MG 1704 1_555 J O1A APR . A APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc6 I MG MG . A MG 1705 1_555 J O2A APR . A APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? metalc ? metalc7 B OE2 GLU 850 B GLU 850 1_555 O MG MG . B MG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.702 ? metalc ? metalc8 B OE1 GLN 853 B GLN 853 1_555 O MG MG . B MG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? metalc ? metalc9 P MG MG . B MG 1703 1_555 S O1A APR . B APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? metalc ? metalc10 P MG MG . B MG 1703 1_555 S O2B APR . B APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? metalc ? metalc11 Q MG MG . B MG 1704 1_555 S O1A APR . B APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc12 R MG MG . B MG 1705 1_555 S O2A APR . B APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? metalc ? metalc13 C OE2 GLU 850 C GLU 850 1_555 X MG MG . C MG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.703 ? metalc ? metalc14 C OE1 GLN 853 C GLN 853 1_555 X MG MG . C MG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? metalc ? metalc15 Y MG MG . C MG 1703 1_555 BA O2B APR . C APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? metalc ? metalc16 Y MG MG . C MG 1703 1_555 BA O1A APR . C APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? metalc ? metalc17 Z MG MG . C MG 1704 1_555 BA O1A APR . C APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc18 AA MG MG . C MG 1705 1_555 BA O2A APR . C APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? metalc ? metalc19 D OE2 GLU 850 D GLU 850 1_555 JA MG MG . D MG 6005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.702 ? metalc ? metalc20 D OE1 GLN 853 D GLN 853 1_555 JA MG MG . D MG 6005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? metalc ? metalc21 KA MG MG . D MG 6006 1_555 NA O2B APR . D APR 6009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? metalc ? metalc22 KA MG MG . D MG 6006 1_555 NA O1A APR . D APR 6009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? metalc ? metalc23 LA MG MG . D MG 6007 1_555 NA O1A APR . D APR 6009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc24 MA MG MG . D MG 6008 1_555 NA O2A APR . D APR 6009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? # _chem_comp.formula 'C15 H23 N5 O14 P2' _chem_comp.formula_weight 559.316 _chem_comp.id APR _chem_comp.mon_nstd_flag . _chem_comp.name ADENOSINE-5-DIPHOSPHORIBOSE _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 N1 C2 APR sing 13 n y N1 C6 APR doub 14 n y C2 N3 APR doub 15 n y C2 H2 APR sing 16 n n N3 C4 APR sing 17 n y C4 C5 APR doub 18 n y C4 N9 APR sing 19 n y C5 C6 APR sing 20 n y C5 N7 APR sing 21 n y C6 N6 APR sing 22 n n N6 H61 APR sing 23 n n N6 H62 APR sing 24 n n N7 C8 APR doub 25 n y C8 N9 APR sing 26 n y C8 H8 APR sing 27 n n N9 C1' APR sing 28 n n C1' C2' APR sing 29 n n C1' O4' APR sing 30 n n C1' "H'1" APR sing 31 n n C2' O2' APR sing 32 n n C2' C3' APR sing 33 n n C2' "H'2" APR sing 34 n n O2' "HO'2" APR sing 35 n n C3' O3' APR sing 36 n n C3' C4' APR sing 37 n n C3' "H'3" APR sing 38 n n O3' "HO'3" APR sing 39 n n O4' C4' APR sing 40 n n C4' C5' APR sing 41 n n C4' "H'4" APR sing 42 n n C5' O5' APR sing 43 n n C5' "H5'1" APR sing 44 n n C5' "H5'2" APR sing 45 n n O5' PA APR sing 46 n n PA O1A APR doub 47 n n PA O2A APR sing 48 n n PA O3A APR sing 49 n n O2A HOA2 APR sing 50 n n O3A PB APR sing 51 n n PB O1B APR doub 52 n n PB O2B APR sing 53 n n PB O5D APR sing 54 n n O2B HOB2 APR sing 55 n n O5D C5D APR sing 56 n n C5D C4D APR sing 57 n n C5D H5R1 APR sing 58 n n C5D H5R2 APR sing 59 n n O4D C1D APR sing 60 n n O4D C4D APR sing 61 n n O1D C1D APR sing 62 n n O1D HOR1 APR sing 63 n n C1D C2D APR sing 64 n n C1D "HR'1" APR sing 65 n n O2D C2D APR sing 66 n n O2D HOR2 APR sing 67 n n C2D C3D APR sing 68 n n C2D "HR'2" APR sing 69 n n O3D C3D APR sing 70 n n O3D HOR3 APR sing 71 n n C3D C4D APR sing 72 n n C3D "HR'3" APR sing 73 n n C4D "HR'4" APR sing 74 n n # _atom_sites.entry_id 8SRH _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 E 2 APR A 1 1701 1701 APR APR . F 3 MG A 1 1702 3001 MG MG . G 3 MG A 1 1703 3101 MG MG . H 3 MG A 1 1704 3102 MG MG . I 3 MG A 1 1705 3103 MG MG . J 2 APR A 1 1706 1702 APR APR . K 4 CLR A 1 1707 6001 CLR CLR . L 4 CLR A 1 1708 6002 CLR CLR . M 4 CLR A 1 1709 6003 CLR CLR . N 2 APR B 1 1701 1701 APR APR . O 3 MG B 1 1702 3001 MG MG . P 3 MG B 1 1703 3101 MG MG . Q 3 MG B 1 1704 3102 MG MG . R 3 MG B 1 1705 3103 MG MG . S 2 APR B 1 1706 1702 APR APR . T 4 CLR B 1 1707 6001 CLR CLR . U 4 CLR B 1 1708 6002 CLR CLR . V 4 CLR B 1 1709 6003 CLR CLR . W 2 APR C 1 1701 1701 APR APR . X 3 MG C 1 1702 3001 MG MG . Y 3 MG C 1 1703 3101 MG MG . Z 3 MG C 1 1704 3102 MG MG . AA 3 MG C 1 1705 3103 MG MG . BA 2 APR C 1 1706 1702 APR APR . CA 4 CLR C 1 1707 6001 CLR CLR . DA 4 CLR C 1 1708 6002 CLR CLR . EA 4 CLR C 1 1709 6003 CLR CLR . FA 4 CLR D 1 6001 6001 CLR CLR . GA 4 CLR D 1 6002 6002 CLR CLR . HA 4 CLR D 1 6003 6003 CLR CLR . IA 2 APR D 1 6004 1701 APR APR . JA 3 MG D 1 6005 3001 MG MG . KA 3 MG D 1 6006 3101 MG MG . LA 3 MG D 1 6007 3102 MG MG . MA 3 MG D 1 6008 3103 MG MG . NA 2 APR D 1 6009 1702 APR APR . # 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 N N1 APR . . . J 2 140.023 203.933 265.403 1 166.8 ? N1 APR 1706 A 1 HETATM 2 C C2 APR . . . J 2 139.485 204.476 264.3 1 166.8 ? C2 APR 1706 A 1 HETATM 3 N N3 APR . . . J 2 138.698 203.804 263.446 1 166.8 ? N3 APR 1706 A 1 HETATM 4 C C4 APR . . . J 2 138.388 202.5 263.64 1 166.8 ? C4 APR 1706 A 1 HETATM 5 C C5 APR . . . J 2 138.94 201.841 264.834 1 166.8 ? C5 APR 1706 A 1 HETATM 6 C C6 APR . . . J 2 139.797 202.646 265.729 1 166.8 ? C6 APR 1706 A 1 HETATM 7 N N6 APR . . . J 2 140.34 202.099 266.839 1 166.8 ? N6 APR 1706 A 1 HETATM 8 N N7 APR . . . J 2 138.504 200.574 264.825 1 166.8 ? N7 APR 1706 A 1 HETATM 9 C C8 APR . . . J 2 137.736 200.429 263.723 1 166.8 ? C8 APR 1706 A 1 HETATM 10 N N9 APR . . . J 2 137.654 201.568 263.015 1 166.8 ? N9 APR 1706 A 1 HETATM 11 C C1' APR . . . J 2 136.863 201.661 261.758 1 166.8 ? C1' APR 1706 A 1 HETATM 12 C C2' APR . . . J 2 137.04 202.961 260.991 1 166.8 ? C2' APR 1706 A 1 HETATM 13 O O2' APR . . . J 2 135.769 203.566 260.757 1 166.8 ? O2' APR 1706 A 1 HETATM 14 C C3' APR . . . J 2 137.678 202.586 259.674 1 166.8 ? C3' APR 1706 A 1 HETATM 15 O O3' APR . . . J 2 136.734 202.77 258.618 1 166.8 ? O3' APR 1706 A 1 HETATM 16 O O4' APR . . . J 2 137.294 200.606 260.9 1 166.8 ? O4' APR 1706 A 1 HETATM 17 C C4' APR . . . J 2 138.034 201.119 259.794 1 166.8 ? C4' APR 1706 A 1 HETATM 18 C C5' APR . . . J 2 139.52 200.948 260.057 1 166.8 ? C5' APR 1706 A 1 HETATM 19 O O5' APR . . . J 2 140.082 200.04 259.115 1 166.8 ? O5' APR 1706 A 1 HETATM 20 P PA APR . . . J 2 141.412 199.24 259.517 1 166.8 ? PA APR 1706 A 1 HETATM 21 O O1A APR . . . J 2 141.828 198.368 258.358 1 166.8 ? O1A APR 1706 A 1 HETATM 22 O O2A APR . . . J 2 141.18 198.619 260.873 1 166.8 ? O2A APR 1706 A 1 HETATM 23 O O3A APR . . . J 2 142.483 200.422 259.715 1 166.8 ? O3A APR 1706 A 1 HETATM 24 P PB APR . . . J 2 142.958 201.394 258.525 1 166.8 ? PB APR 1706 A 1 HETATM 25 O O1B APR . . . J 2 142.537 202.799 258.872 1 166.8 ? O1B APR 1706 A 1 HETATM 26 O O2B APR . . . J 2 142.569 200.812 257.19 1 166.8 ? O2B APR 1706 A 1 HETATM 27 O O5D APR . . . J 2 144.555 201.314 258.669 1 166.8 ? O5D APR 1706 A 1 HETATM 28 C C5D APR . . . J 2 145.206 201.959 259.759 1 166.8 ? C5D APR 1706 A 1 HETATM 29 O O4D APR . . . J 2 147.394 202.937 259.435 1 166.8 ? O4D APR 1706 A 1 HETATM 30 O O1D APR . . . J 2 148.423 204.359 260.987 1 166.8 ? O1D APR 1706 A 1 HETATM 31 C C1D APR . . . J 2 148.502 203.095 260.326 1 166.8 ? C1D APR 1706 A 1 HETATM 32 O O2D APR . . . J 2 149.631 201.236 261.373 1 166.8 ? O2D APR 1706 A 1 HETATM 33 C C2D APR . . . J 2 148.42 201.995 261.364 1 166.8 ? C2D APR 1706 A 1 HETATM 34 O O3D APR . . . J 2 147.741 199.794 260.741 1 166.8 ? O3D APR 1706 A 1 HETATM 35 C C3D APR . . . J 2 147.258 201.12 260.954 1 166.8 ? C3D APR 1706 A 1 HETATM 36 C C4D APR . . . J 2 146.704 201.707 259.667 1 166.8 ? C4D APR 1706 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 125 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 36 #