data_6DRJ # _model_server_result.job_id aFE-00DDZd9mQxCDbkNTvg _model_server_result.datetime_utc '2024-12-02 05:26:00' _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 6drj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":2001}' # _entry.id 6DRJ # _exptl.entry_id 6DRJ _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 4 _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 6DRJ _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DRJ _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 _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 G N N ? 2 I N N ? 2 K 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 1011 A CYS 1012 1_555 A SG CYS 1023 A CYS 1024 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf2 B SG CYS 1011 B CYS 1012 1_555 B SG CYS 1023 B CYS 1024 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf3 C SG CYS 1011 C CYS 1012 1_555 C SG CYS 1023 C CYS 1024 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf4 D SG CYS 1011 D CYS 1012 1_555 D SG CYS 1023 D CYS 1024 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? metalc ? metalc1 A OE1 GLU 856 A GLU 857 1_555 F CA CA . A CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.817 ? metalc ? metalc2 A OE2 GLU 856 A GLU 857 1_555 F CA CA . A CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? metalc ? metalc3 A OE1 GLN 859 A GLN 860 1_555 F CA CA . A CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc4 A OD1 ASN 882 A ASN 883 1_555 F CA CA . A CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.736 ? metalc ? metalc5 A OE2 GLU 1087 A GLU 1088 1_555 F CA CA . A CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.01 ? metalc ? metalc6 B OE1 GLU 856 B GLU 857 1_555 H CA CA . B CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.817 ? metalc ? metalc7 B OE2 GLU 856 B GLU 857 1_555 H CA CA . B CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? metalc ? metalc8 B OE1 GLN 859 B GLN 860 1_555 H CA CA . B CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc9 B OD1 ASN 882 B ASN 883 1_555 H CA CA . B CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.737 ? metalc ? metalc10 B OE2 GLU 1087 B GLU 1088 1_555 H CA CA . B CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.009 ? metalc ? metalc11 C OE1 GLU 856 C GLU 857 1_555 J CA CA . C CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.817 ? metalc ? metalc12 C OE2 GLU 856 C GLU 857 1_555 J CA CA . C CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? metalc ? metalc13 C OE1 GLN 859 C GLN 860 1_555 J CA CA . C CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc14 C OD1 ASN 882 C ASN 883 1_555 J CA CA . C CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.736 ? metalc ? metalc15 C OE2 GLU 1087 C GLU 1088 1_555 J CA CA . C CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.01 ? metalc ? metalc16 D OE1 GLU 856 D GLU 857 1_555 L CA CA . D CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.817 ? metalc ? metalc17 D OE2 GLU 856 D GLU 857 1_555 L CA CA . D CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? metalc ? metalc18 D OE1 GLN 859 D GLN 860 1_555 L CA CA . D CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc19 D OD1 ASN 882 D ASN 883 1_555 L CA CA . D CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.736 ? metalc ? metalc20 D OE2 GLU 1087 D GLU 1088 1_555 L CA CA . D CA 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.01 ? # _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 6DRJ _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 2001 2001 APR APR . F 3 CA A 1 2002 2002 CA CA . G 2 APR B 1 2001 2001 APR APR . H 3 CA B 1 2002 2002 CA CA . I 2 APR C 1 2001 2001 APR APR . J 3 CA C 1 2002 2002 CA CA . K 2 APR D 1 2001 2001 APR APR . L 3 CA D 1 2002 2002 CA CA . # 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 . . . E 2 111.407 173.683 124.223 1 87.18 ? N1 APR 2001 A 1 HETATM 2 C C2 APR . . . E 2 110.975 172.426 124.438 1 87.18 ? C2 APR 2001 A 1 HETATM 3 N N3 APR . . . E 2 110.992 171.461 123.501 1 87.18 ? N3 APR 2001 A 1 HETATM 4 C C4 APR . . . E 2 111.459 171.71 122.254 1 87.18 ? C4 APR 2001 A 1 HETATM 5 C C5 APR . . . E 2 111.95 173.061 121.942 1 87.18 ? C5 APR 2001 A 1 HETATM 6 C C6 APR . . . E 2 111.899 174.071 123.026 1 87.18 ? C6 APR 2001 A 1 HETATM 7 N N6 APR . . . E 2 112.33 175.339 122.823 1 87.18 ? N6 APR 2001 A 1 HETATM 8 N N7 APR . . . E 2 112.35 173.037 120.657 1 87.18 ? N7 APR 2001 A 1 HETATM 9 C C8 APR . . . E 2 112.135 171.781 120.187 1 87.18 ? C8 APR 2001 A 1 HETATM 10 N N9 APR . . . E 2 111.605 170.991 121.139 1 87.18 ? N9 APR 2001 A 1 HETATM 11 C C1' APR . . . E 2 111.242 169.561 120.974 1 87.18 ? C1' APR 2001 A 1 HETATM 12 C C2' APR . . . E 2 110.617 169.345 119.604 1 87.18 ? C2' APR 2001 A 1 HETATM 13 O O2' APR . . . E 2 109.258 168.915 119.753 1 87.18 ? O2' APR 2001 A 1 HETATM 14 C C3' APR . . . E 2 111.489 168.315 118.898 1 87.18 ? C3' APR 2001 A 1 HETATM 15 O O3' APR . . . E 2 110.767 167.129 118.54 1 87.18 ? O3' APR 2001 A 1 HETATM 16 O O4' APR . . . E 2 112.418 168.751 121.053 1 87.18 ? O4' APR 2001 A 1 HETATM 17 C C4' APR . . . E 2 112.601 167.962 119.875 1 87.18 ? C4' APR 2001 A 1 HETATM 18 C C5' APR . . . E 2 113.974 168.24 119.277 1 87.18 ? C5' APR 2001 A 1 HETATM 19 O O5' APR . . . E 2 114.931 168.353 120.327 1 87.18 ? O5' APR 2001 A 1 HETATM 20 P PA APR . . . E 2 116.455 168.763 120.008 1 87.18 ? PA APR 2001 A 1 HETATM 21 O O1A APR . . . E 2 117.352 168.043 120.986 1 87.18 ? O1A APR 2001 A 1 HETATM 22 O O2A APR . . . E 2 116.683 168.612 118.523 1 87.18 ? O2A APR 2001 A 1 HETATM 23 O O3A APR . . . E 2 116.477 170.333 120.365 1 87.18 ? O3A APR 2001 A 1 HETATM 24 P PB APR . . . E 2 116.489 171.438 119.194 1 87.18 ? PB APR 2001 A 1 HETATM 25 O O1B APR . . . E 2 115.392 171.1 118.213 1 87.18 ? O1B APR 2001 A 1 HETATM 26 O O2B APR . . . E 2 117.91 171.596 118.708 1 87.18 ? O2B APR 2001 A 1 HETATM 27 O O5D APR . . . E 2 116.07 172.783 119.973 1 87.18 ? O5D APR 2001 A 1 HETATM 28 C C5D APR . . . E 2 116.933 173.352 120.956 1 87.18 ? C5D APR 2001 A 1 HETATM 29 O O4D APR . . . E 2 117.07 175.058 122.662 1 87.18 ? O4D APR 2001 A 1 HETATM 30 O O1D APR . . . E 2 118.587 176.767 122.165 1 87.18 ? O1D APR 2001 A 1 HETATM 31 C C1D APR . . . E 2 117.216 176.463 122.438 1 87.18 ? C1D APR 2001 A 1 HETATM 32 O O2D APR . . . E 2 115.394 177.825 121.623 1 87.18 ? O2D APR 2001 A 1 HETATM 33 C C2D APR . . . E 2 116.359 176.837 121.238 1 87.18 ? C2D APR 2001 A 1 HETATM 34 O O3D APR . . . E 2 114.284 175.597 120.762 1 87.18 ? O3D APR 2001 A 1 HETATM 35 C C3D APR . . . E 2 115.717 175.543 120.756 1 87.18 ? C3D APR 2001 A 1 HETATM 36 C C4D APR . . . E 2 116.195 174.454 121.705 1 87.18 ? C4D APR 2001 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 88 _model_server_stats.query_time_ms 244 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 36 #