data_3K30 # _model_server_result.job_id hW-gagEc1CGjrkA7X1CzVA _model_server_result.datetime_utc '2024-11-22 14:48:32' _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 3k30 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":803}' # _entry.id 3K30 # _exptl.entry_id 3K30 _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 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 3K30 _cell.length_a 101.141 _cell.length_b 107.035 _cell.length_c 153.352 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3K30 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _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 ? 4 E N N ? 4 H 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 SG CYS 348 A CYS 348 1_555 C FE4 SF4 . A SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? metalc ? metalc2 A SG CYS 351 A CYS 351 1_555 C FE3 SF4 . A SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? metalc ? metalc3 A SG CYS 354 A CYS 354 1_555 C FE1 SF4 . A SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc4 A SG CYS 366 A CYS 366 1_555 C FE2 SF4 . A SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? metalc ? metalc5 B SG CYS 348 B CYS 348 1_555 F FE4 SF4 . B SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc6 B SG CYS 351 B CYS 351 1_555 F FE2 SF4 . B SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.261 ? metalc ? metalc7 B SG CYS 354 B CYS 354 1_555 F FE3 SF4 . B SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc8 B SG CYS 366 B CYS 366 1_555 F FE1 SF4 . B SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? # _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 3K30 _atom_sites.fract_transf_matrix[1][1] 0.009887 _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] 0.009343 _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] 0.006521 _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 C 2 SF4 A 1 801 801 SF4 SF4 . D 3 FMN A 1 802 802 FMN FMN . E 4 ADP A 1 803 803 ADP ADP . F 2 SF4 B 1 801 801 SF4 SF4 . G 3 FMN B 1 802 802 FMN FMN . H 4 ADP B 1 803 803 ADP ADP . I 5 HOH A 1 902 902 HOH HOH . I 5 HOH A 2 905 905 HOH HOH . J 5 HOH B 1 901 901 HOH HOH . J 5 HOH B 2 902 902 HOH HOH . J 5 HOH B 3 903 903 HOH HOH . J 5 HOH B 4 904 904 HOH HOH . J 5 HOH B 5 905 905 HOH HOH . J 5 HOH B 6 906 906 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 . . . E 4 48.642 25.368 7.212 1 12.84 ? PB ADP 803 A 1 HETATM 2 O O1B ADP . . . E 4 47.484 26.316 7.232 1 15.04 ? O1B ADP 803 A 1 HETATM 3 O O2B ADP . . . E 4 48.737 24.38 8.337 1 17.12 ? O2B ADP 803 A 1 HETATM 4 O O3B ADP . . . E 4 48.78 24.783 5.845 1 16.61 ? O3B ADP 803 A 1 HETATM 5 P PA ADP . . . E 4 51.488 25.75 7.392 1 15.17 ? PA ADP 803 A 1 HETATM 6 O O1A ADP . . . E 4 51.649 24.307 7.1 1 17.13 ? O1A ADP 803 A 1 HETATM 7 O O2A ADP . . . E 4 52.26 26.361 8.538 1 14.81 ? O2A ADP 803 A 1 HETATM 8 O O3A ADP . . . E 4 49.951 26.255 7.37 1 14.64 ? O3A ADP 803 A 1 HETATM 9 O O5' ADP . . . E 4 51.952 26.478 6.057 1 16.72 ? O5' ADP 803 A 1 HETATM 10 C C5' ADP . . . E 4 52.029 27.883 5.949 1 16.68 ? C5' ADP 803 A 1 HETATM 11 C C4' ADP . . . E 4 53.036 28.135 4.846 1 17.59 ? C4' ADP 803 A 1 HETATM 12 O O4' ADP . . . E 4 52.884 29.464 4.36 1 19.57 ? O4' ADP 803 A 1 HETATM 13 C C3' ADP . . . E 4 54.476 27.961 5.309 1 17.38 ? C3' ADP 803 A 1 HETATM 14 O O3' ADP . . . E 4 55.154 27.007 4.475 1 17.1 ? O3' ADP 803 A 1 HETATM 15 C C2' ADP . . . E 4 55.114 29.323 5.126 1 19.07 ? C2' ADP 803 A 1 HETATM 16 O O2' ADP . . . E 4 56.428 29.194 4.585 1 18.59 ? O2' ADP 803 A 1 HETATM 17 C C1' ADP . . . E 4 54.197 29.975 4.117 1 21.66 ? C1' ADP 803 A 1 HETATM 18 N N9 ADP . . . E 4 54.13 31.431 4.258 1 25.58 ? N9 ADP 803 A 1 HETATM 19 C C8 ADP . . . E 4 53.935 32.125 5.393 1 26.44 ? C8 ADP 803 A 1 HETATM 20 N N7 ADP . . . E 4 53.899 33.458 5.142 1 27.35 ? N7 ADP 803 A 1 HETATM 21 C C5 ADP . . . E 4 54.053 33.618 3.817 1 27.25 ? C5 ADP 803 A 1 HETATM 22 C C6 ADP . . . E 4 54.111 34.76 2.888 1 26.15 ? C6 ADP 803 A 1 HETATM 23 N N6 ADP . . . E 4 53.99 36.02 3.331 1 25.7 ? N6 ADP 803 A 1 HETATM 24 N N1 ADP . . . E 4 54.278 34.487 1.585 1 27.22 ? N1 ADP 803 A 1 HETATM 25 C C2 ADP . . . E 4 54.41 33.223 1.116 1 28.97 ? C2 ADP 803 A 1 HETATM 26 N N3 ADP . . . E 4 54.37 32.128 1.9 1 28.69 ? N3 ADP 803 A 1 HETATM 27 C C4 ADP . . . E 4 54.199 32.271 3.236 1 27.25 ? C4 ADP 803 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #