data_4BLO # _model_server_result.job_id X6ADmT2-0TwwHh7zFUgcpw _model_server_result.datetime_utc '2024-12-15 18:42:34' _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 4blo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":401}' # _entry.id 4BLO # _exptl.entry_id 4BLO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 12 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 82.46 _cell.angle_beta 86.17 _cell.angle_gamma 64.85 _cell.entry_id 4BLO _cell.length_a 93.84 _cell.length_b 95.26 _cell.length_c 98.33 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4BLO _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 hexameric 6 author_and_software_defined_assembly 1 PISA hexameric 6 author_and_software_defined_assembly 2 # 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,L,M,N,O,P,CA,DA,EA,FA,GA,HA,IA,JA 1 1 C,D,E,F,G,H,Q,R,S,T,U,V,W,X,Y,Z,AA,BA 2 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 ? 3 N N N ? 3 P N N ? 3 R N N ? 3 T N N ? 3 V N N ? 3 X N N ? 3 Z N N ? 3 BA N N ? 3 DA N N ? 3 FA N N ? 3 HA N N ? 3 JA 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 OG SER 133 A SER 133 1_555 M CA CA . A CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc2 M CA CA . A CA 400 1_555 N O2B ADP . A ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc3 B OG SER 133 B SER 133 1_555 O CA CA . B CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc4 B OE1 GLU 150 B GLU 150 1_555 O CA CA . B CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.161 ? metalc ? metalc5 O CA CA . B CA 400 1_555 P O2B ADP . B ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.65 ? metalc ? metalc6 C OG SER 133 C SER 133 1_555 Q CA CA . C CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc7 Q CA CA . C CA 400 1_555 R O2B ADP . C ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc8 D OG SER 133 D SER 133 1_555 S CA CA . D CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? metalc ? metalc9 D OE1 GLU 150 D GLU 150 1_555 S CA CA . D CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.005 ? metalc ? metalc10 S CA CA . D CA 400 1_555 T O2B ADP . D ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.636 ? metalc ? metalc11 E OG SER 133 E SER 133 1_555 U CA CA . E CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc12 U CA CA . E CA 400 1_555 V O2B ADP . E ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc13 F OG SER 133 F SER 133 1_555 W CA CA . F CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.639 ? metalc ? metalc14 W CA CA . F CA 400 1_555 X O2B ADP . F ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? metalc ? metalc15 G OG SER 133 G SER 133 1_555 Y CA CA . G CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.54 ? metalc ? metalc16 Y CA CA . G CA 400 1_555 Z O2B ADP . G ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc17 Y CA CA . G CA 400 1_555 Z O3B ADP . G ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.181 ? metalc ? metalc18 H OG SER 133 H SER 133 1_555 AA CA CA . H CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? metalc ? metalc19 AA CA CA . H CA 400 1_555 BA O2B ADP . H ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? metalc ? metalc20 I OG SER 133 I SER 133 1_555 CA CA CA . I CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc21 I OE1 GLU 150 I GLU 150 1_555 CA CA CA . I CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.148 ? metalc ? metalc22 CA CA CA . I CA 400 1_555 DA O2B ADP . I ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc23 J OG SER 133 J SER 133 1_555 EA CA CA . J CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc24 EA CA CA . J CA 400 1_555 FA O2B ADP . J ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.576 ? metalc ? metalc25 K OG SER 133 K SER 133 1_555 GA CA CA . K CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? metalc ? metalc26 K OE1 GLU 150 K GLU 150 1_555 GA CA CA . K CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.114 ? metalc ? metalc27 GA CA CA . K CA 400 1_555 HA O2B ADP . K ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.629 ? metalc ? metalc28 L OG SER 133 L SER 133 1_555 IA CA CA . L CA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc29 IA CA CA . L CA 400 1_555 JA O2B ADP . L ADP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.513 ? # _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 4BLO _atom_sites.fract_transf_matrix[1][1] 0.010656 _atom_sites.fract_transf_matrix[1][2] -0.005003 _atom_sites.fract_transf_matrix[1][3] -0.000145 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011597 _atom_sites.fract_transf_matrix[2][3] -0.001329 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.010259 _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 M 2 CA A 1 400 400 CA CA . N 3 ADP A 1 401 401 ADP ADP . O 2 CA B 1 400 400 CA CA . P 3 ADP B 1 401 401 ADP ADP . Q 2 CA C 1 400 400 CA CA . R 3 ADP C 1 401 401 ADP ADP . S 2 CA D 1 400 400 CA CA . T 3 ADP D 1 401 401 ADP ADP . U 2 CA E 1 400 400 CA CA . V 3 ADP E 1 401 401 ADP ADP . W 2 CA F 1 400 400 CA CA . X 3 ADP F 1 401 401 ADP ADP . Y 2 CA G 1 400 400 CA CA . Z 3 ADP G 1 401 401 ADP ADP . AA 2 CA H 1 400 400 CA CA . BA 3 ADP H 1 401 401 ADP ADP . CA 2 CA I 1 400 400 CA CA . DA 3 ADP I 1 401 401 ADP ADP . EA 2 CA J 1 400 400 CA CA . FA 3 ADP J 1 401 401 ADP ADP . GA 2 CA K 1 400 400 CA CA . HA 3 ADP K 1 401 401 ADP ADP . IA 2 CA L 1 400 400 CA CA . JA 3 ADP L 1 401 401 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 . . . N 3 1.016 56.663 69.105 1 37.26 ? PB ADP 401 A 1 HETATM 2 O O1B ADP . . . N 3 1.937 55.558 69.678 1 37.68 ? O1B ADP 401 A 1 HETATM 3 O O2B ADP . . . N 3 1.428 58.023 69.696 1 38.76 ? O2B ADP 401 A 1 HETATM 4 O O3B ADP . . . N 3 1.131 56.716 67.62 1 33.43 ? O3B ADP 401 A 1 HETATM 5 P PA ADP . . . N 3 -1.646 57.238 70.189 1 48.98 ? PA ADP 401 A 1 HETATM 6 O O1A ADP . . . N 3 -1.787 58.546 69.391 1 45.89 ? O1A ADP 401 A 1 HETATM 7 O O2A ADP . . . N 3 -1.271 57.54 71.595 1 50.06 ? O2A ADP 401 A 1 HETATM 8 O O3A ADP . . . N 3 -0.499 56.341 69.514 1 43.47 ? O3A ADP 401 A 1 HETATM 9 O O5' ADP . . . N 3 -3.007 56.439 70.169 1 52.11 ? O5' ADP 401 A 1 HETATM 10 C C5' ADP . . . N 3 -3.017 55.015 70.364 1 54.46 ? C5' ADP 401 A 1 HETATM 11 C C4' ADP . . . N 3 -4.431 54.504 70.437 1 58.32 ? C4' ADP 401 A 1 HETATM 12 O O4' ADP . . . N 3 -5.096 54.727 69.174 1 57.78 ? O4' ADP 401 A 1 HETATM 13 C C3' ADP . . . N 3 -4.516 53.002 70.675 1 61.2 ? C3' ADP 401 A 1 HETATM 14 O O3' ADP . . . N 3 -4.443 52.715 72.067 1 62.85 ? O3' ADP 401 A 1 HETATM 15 C C2' ADP . . . N 3 -5.848 52.636 70.017 1 61.43 ? C2' ADP 401 A 1 HETATM 16 O O2' ADP . . . N 3 -6.957 52.831 70.887 1 63.68 ? O2' ADP 401 A 1 HETATM 17 C C1' ADP . . . N 3 -5.881 53.599 68.825 1 59.47 ? C1' ADP 401 A 1 HETATM 18 N N9 ADP . . . N 3 -5.391 53.031 67.566 1 58.14 ? N9 ADP 401 A 1 HETATM 19 C C8 ADP . . . N 3 -4.198 53.296 66.937 1 52.82 ? C8 ADP 401 A 1 HETATM 20 N N7 ADP . . . N 3 -4.015 52.632 65.826 1 53.95 ? N7 ADP 401 A 1 HETATM 21 C C5 ADP . . . N 3 -5.176 51.865 65.704 1 59.38 ? C5 ADP 401 A 1 HETATM 22 C C6 ADP . . . N 3 -5.594 50.927 64.743 1 61.83 ? C6 ADP 401 A 1 HETATM 23 N N6 ADP . . . N 3 -4.879 50.59 63.667 1 62.37 ? N6 ADP 401 A 1 HETATM 24 N N1 ADP . . . N 3 -6.798 50.331 64.931 1 63.14 ? N1 ADP 401 A 1 HETATM 25 C C2 ADP . . . N 3 -7.523 50.667 66.003 1 62.84 ? C2 ADP 401 A 1 HETATM 26 N N3 ADP . . . N 3 -7.23 51.542 66.97 1 61.19 ? N3 ADP 401 A 1 HETATM 27 C C4 ADP . . . N 3 -6.025 52.112 66.768 1 60.3 ? C4 ADP 401 A 1 # _model_server_stats.io_time_ms 40 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 102 _model_server_stats.query_time_ms 439 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 27 #