data_6RH0 # _model_server_result.job_id swkBqJjN7k0txlUH5A0CDw _model_server_result.datetime_utc '2024-11-08 18:22:39' _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 6rh0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":501}' # _entry.id 6RH0 # _exptl.entry_id 6RH0 _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 93.49 _cell.angle_gamma 90 _cell.entry_id 6RH0 _cell.length_a 68.616 _cell.length_b 92.933 _cell.length_c 174.337 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RH0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,K,L,M,N,O,P,Q,R,S,T,U,V,W,X _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 ? 3 E N N ? 3 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 disulf ? disulf1 B SG CYS 99 B CYS 330 1_555 B SG CYS 128 B CYS 359 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 C C LEU 52 C LEU 52 1_555 C N BFD 53 C BFD 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale2 C C BFD 53 C BFD 53 1_555 C N ILE 54 C ILE 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale3 D C LEU 52 D LEU 52 1_555 D N BFD 53 D BFD 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale4 D C BFD 53 D BFD 53 1_555 D N ILE 54 D ILE 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? metalc ? metalc1 C OD1 ASP 10 C ASP 10 1_555 K MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.576 ? metalc ? metalc2 C OD2 BFD 53 C BFD 53 1_555 K MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.811 ? metalc ? metalc3 C O MET 55 C MET 55 1_555 K MG MG . C MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc4 D OD1 ASP 10 D ASP 10 1_555 Q MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? metalc ? metalc5 D OD2 BFD 53 D BFD 53 1_555 Q MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? metalc ? metalc6 D O MET 55 D MET 55 1_555 Q MG MG . D MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc7 Q MG MG . D MG 201 1_555 X O HOH . D HOH 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? # _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 6RH0 _atom_sites.fract_transf_matrix[1][1] 0.014574 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000889 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01076 _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] 0.005747 _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 3 ADP A 1 501 1 ADP ADP . F 4 SO4 A 1 502 10 SO4 SO4 . G 4 SO4 A 1 503 11 SO4 SO4 . H 3 ADP B 1 501 2 ADP ADP . I 4 SO4 B 1 502 6 SO4 SO4 . J 4 SO4 B 1 503 9 SO4 SO4 . K 5 MG C 1 201 1 MG MG . L 4 SO4 C 1 202 1 SO4 SO4 . M 4 SO4 C 1 203 3 SO4 SO4 . N 4 SO4 C 1 204 5 SO4 SO4 . O 4 SO4 C 1 205 7 SO4 SO4 . P 4 SO4 C 1 206 12 SO4 SO4 . Q 5 MG D 1 201 2 MG MG . R 4 SO4 D 1 202 2 SO4 SO4 . S 4 SO4 D 1 203 4 SO4 SO4 . T 4 SO4 D 1 204 8 SO4 SO4 . U 6 HOH A 1 601 129 HOH HOH . U 6 HOH A 2 602 15 HOH HOH . U 6 HOH A 3 603 175 HOH HOH . U 6 HOH A 4 604 11 HOH HOH . U 6 HOH A 5 605 131 HOH HOH . U 6 HOH A 6 606 151 HOH HOH . U 6 HOH A 7 607 43 HOH HOH . U 6 HOH A 8 608 38 HOH HOH . U 6 HOH A 9 609 44 HOH HOH . U 6 HOH A 10 610 37 HOH HOH . U 6 HOH A 11 611 36 HOH HOH . U 6 HOH A 12 612 34 HOH HOH . U 6 HOH A 13 613 21 HOH HOH . U 6 HOH A 14 614 26 HOH HOH . U 6 HOH A 15 615 40 HOH HOH . U 6 HOH A 16 616 30 HOH HOH . U 6 HOH A 17 617 153 HOH HOH . U 6 HOH A 18 618 3 HOH HOH . U 6 HOH A 19 619 23 HOH HOH . U 6 HOH A 20 620 174 HOH HOH . U 6 HOH A 21 621 107 HOH HOH . U 6 HOH A 22 622 130 HOH HOH . U 6 HOH A 23 623 22 HOH HOH . U 6 HOH A 24 624 39 HOH HOH . U 6 HOH A 25 625 25 HOH HOH . U 6 HOH A 26 626 41 HOH HOH . U 6 HOH A 27 627 13 HOH HOH . U 6 HOH A 28 628 154 HOH HOH . U 6 HOH A 29 629 192 HOH HOH . U 6 HOH A 30 630 5 HOH HOH . U 6 HOH A 31 631 19 HOH HOH . U 6 HOH A 32 632 8 HOH HOH . U 6 HOH A 33 633 12 HOH HOH . U 6 HOH A 34 634 176 HOH HOH . U 6 HOH A 35 635 180 HOH HOH . U 6 HOH A 36 636 7 HOH HOH . U 6 HOH A 37 637 35 HOH HOH . U 6 HOH A 38 638 1 HOH HOH . U 6 HOH A 39 639 183 HOH HOH . U 6 HOH A 40 640 4 HOH HOH . U 6 HOH A 41 641 188 HOH HOH . U 6 HOH A 42 642 155 HOH HOH . U 6 HOH A 43 643 28 HOH HOH . U 6 HOH A 44 644 179 HOH HOH . V 6 HOH B 1 601 84 HOH HOH . V 6 HOH B 2 602 132 HOH HOH . V 6 HOH B 3 603 76 HOH HOH . V 6 HOH B 4 604 68 HOH HOH . V 6 HOH B 5 605 78 HOH HOH . V 6 HOH B 6 606 75 HOH HOH . V 6 HOH B 7 607 81 HOH HOH . V 6 HOH B 8 608 79 HOH HOH . V 6 HOH B 9 609 66 HOH HOH . V 6 HOH B 10 610 72 HOH HOH . V 6 HOH B 11 611 59 HOH HOH . V 6 HOH B 12 612 63 HOH HOH . V 6 HOH B 13 613 139 HOH HOH . V 6 HOH B 14 614 138 HOH HOH . V 6 HOH B 15 615 58 HOH HOH . V 6 HOH B 16 616 71 HOH HOH . V 6 HOH B 17 617 77 HOH HOH . V 6 HOH B 18 618 62 HOH HOH . V 6 HOH B 19 619 61 HOH HOH . V 6 HOH B 20 620 67 HOH HOH . V 6 HOH B 21 621 46 HOH HOH . V 6 HOH B 22 622 160 HOH HOH . V 6 HOH B 23 623 170 HOH HOH . V 6 HOH B 24 624 146 HOH HOH . V 6 HOH B 25 625 69 HOH HOH . V 6 HOH B 26 626 163 HOH HOH . V 6 HOH B 27 627 86 HOH HOH . V 6 HOH B 28 628 85 HOH HOH . V 6 HOH B 29 629 70 HOH HOH . V 6 HOH B 30 630 83 HOH HOH . V 6 HOH B 31 631 64 HOH HOH . V 6 HOH B 32 632 52 HOH HOH . V 6 HOH B 33 633 161 HOH HOH . V 6 HOH B 34 634 168 HOH HOH . V 6 HOH B 35 635 51 HOH HOH . V 6 HOH B 36 636 50 HOH HOH . V 6 HOH B 37 637 140 HOH HOH . V 6 HOH B 38 638 73 HOH HOH . V 6 HOH B 39 639 65 HOH HOH . V 6 HOH B 40 640 156 HOH HOH . V 6 HOH B 41 641 54 HOH HOH . V 6 HOH B 42 642 60 HOH HOH . V 6 HOH B 43 643 48 HOH HOH . V 6 HOH B 44 644 162 HOH HOH . W 6 HOH C 1 301 103 HOH HOH . W 6 HOH C 2 302 143 HOH HOH . W 6 HOH C 3 303 99 HOH HOH . W 6 HOH C 4 304 93 HOH HOH . W 6 HOH C 5 305 97 HOH HOH . W 6 HOH C 6 306 92 HOH HOH . W 6 HOH C 7 307 9 HOH HOH . W 6 HOH C 8 308 101 HOH HOH . W 6 HOH C 9 309 104 HOH HOH . W 6 HOH C 10 310 159 HOH HOH . W 6 HOH C 11 311 95 HOH HOH . W 6 HOH C 12 312 133 HOH HOH . W 6 HOH C 13 313 98 HOH HOH . W 6 HOH C 14 314 158 HOH HOH . W 6 HOH C 15 315 100 HOH HOH . W 6 HOH C 16 316 42 HOH HOH . W 6 HOH C 17 317 16 HOH HOH . W 6 HOH C 18 318 17 HOH HOH . W 6 HOH C 19 319 106 HOH HOH . W 6 HOH C 20 320 96 HOH HOH . W 6 HOH C 21 321 135 HOH HOH . W 6 HOH C 22 322 191 HOH HOH . W 6 HOH C 23 323 157 HOH HOH . W 6 HOH C 24 324 45 HOH HOH . W 6 HOH C 25 325 94 HOH HOH . W 6 HOH C 26 326 108 HOH HOH . W 6 HOH C 27 327 102 HOH HOH . W 6 HOH C 28 328 18 HOH HOH . W 6 HOH C 29 329 147 HOH HOH . W 6 HOH C 30 330 105 HOH HOH . X 6 HOH D 1 301 141 HOH HOH . X 6 HOH D 2 302 120 HOH HOH . X 6 HOH D 3 303 117 HOH HOH . X 6 HOH D 4 304 24 HOH HOH . X 6 HOH D 5 305 118 HOH HOH . X 6 HOH D 6 306 56 HOH HOH . X 6 HOH D 7 307 119 HOH HOH . X 6 HOH D 8 308 184 HOH HOH . X 6 HOH D 9 309 152 HOH HOH . X 6 HOH D 10 310 126 HOH HOH . X 6 HOH D 11 311 142 HOH HOH . X 6 HOH D 12 312 127 HOH HOH . X 6 HOH D 13 313 149 HOH HOH . X 6 HOH D 14 314 171 HOH HOH . X 6 HOH D 15 315 172 HOH HOH . X 6 HOH D 16 316 136 HOH HOH . X 6 HOH D 17 317 124 HOH HOH . X 6 HOH D 18 318 137 HOH HOH . X 6 HOH D 19 319 121 HOH HOH . X 6 HOH D 20 320 123 HOH HOH . X 6 HOH D 21 321 112 HOH HOH . X 6 HOH D 22 322 125 HOH HOH . X 6 HOH D 23 323 113 HOH HOH . X 6 HOH D 24 324 116 HOH HOH . X 6 HOH D 25 325 122 HOH HOH . X 6 HOH D 26 326 185 HOH HOH . X 6 HOH D 27 327 110 HOH HOH . X 6 HOH D 28 328 109 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 . . . H 3 24.797 -22.57 -47.873 1 44.56 ? PB ADP 501 B 1 HETATM 2 O O1B ADP . . . H 3 23.932 -21.692 -48.744 1 44.63 ? O1B ADP 501 B 1 HETATM 3 O O2B ADP . . . H 3 24.039 -23.637 -47.12 1 44.43 ? O2B ADP 501 B 1 HETATM 4 O O3B ADP . . . H 3 26.043 -23.069 -48.56 1 44.48 ? O3B ADP 501 B 1 HETATM 5 P PA ADP . . . H 3 24.695 -20.297 -46.12 1 43.78 ? PA ADP 501 B 1 HETATM 6 O O1A ADP . . . H 3 24.498 -19.285 -47.223 1 43.68 ? O1A ADP 501 B 1 HETATM 7 O O2A ADP . . . H 3 25.482 -19.903 -44.894 1 43.84 ? O2A ADP 501 B 1 HETATM 8 O O3A ADP . . . H 3 25.41 -21.611 -46.726 1 44.36 ? O3A ADP 501 B 1 HETATM 9 O O5' ADP . . . H 3 23.249 -20.821 -45.637 1 44.26 ? O5' ADP 501 B 1 HETATM 10 C C5' ADP . . . H 3 23.121 -21.691 -44.511 1 44.55 ? C5' ADP 501 B 1 HETATM 11 C C4' ADP . . . H 3 21.658 -22.053 -44.264 1 44.85 ? C4' ADP 501 B 1 HETATM 12 O O4' ADP . . . H 3 20.876 -20.869 -44.079 1 44.85 ? O4' ADP 501 B 1 HETATM 13 C C3' ADP . . . H 3 21.026 -22.833 -45.41 1 44.96 ? C3' ADP 501 B 1 HETATM 14 O O3' ADP . . . H 3 20.975 -24.234 -45.118 1 45.42 ? O3' ADP 501 B 1 HETATM 15 C C2' ADP . . . H 3 19.641 -22.232 -45.596 1 44.92 ? C2' ADP 501 B 1 HETATM 16 O O2' ADP . . . H 3 18.599 -23.113 -45.156 1 45.29 ? O2' ADP 501 B 1 HETATM 17 C C1' ADP . . . H 3 19.625 -20.951 -44.772 1 44.52 ? C1' ADP 501 B 1 HETATM 18 N N9 ADP . . . H 3 19.418 -19.772 -45.656 1 44.06 ? N9 ADP 501 B 1 HETATM 19 C C8 ADP . . . H 3 20.349 -18.864 -46.013 1 43.97 ? C8 ADP 501 B 1 HETATM 20 N N7 ADP . . . H 3 19.814 -17.918 -46.825 1 43.81 ? N7 ADP 501 B 1 HETATM 21 C C5 ADP . . . H 3 18.518 -18.215 -47.006 1 43.67 ? C5 ADP 501 B 1 HETATM 22 C C6 ADP . . . H 3 17.375 -17.628 -47.751 1 43.77 ? C6 ADP 501 B 1 HETATM 23 N N6 ADP . . . H 3 17.529 -16.502 -48.49 1 43.98 ? N6 ADP 501 B 1 HETATM 24 N N1 ADP . . . H 3 16.176 -18.257 -47.667 1 43.93 ? N1 ADP 501 B 1 HETATM 25 C C2 ADP . . . H 3 16.002 -19.383 -46.935 1 44.03 ? C2 ADP 501 B 1 HETATM 26 N N3 ADP . . . H 3 17.002 -19.964 -46.235 1 43.88 ? N3 ADP 501 B 1 HETATM 27 C C4 ADP . . . H 3 18.258 -19.44 -46.229 1 43.9 ? C4 ADP 501 B 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 340 _model_server_stats.encode_time_ms 18 _model_server_stats.element_count 27 #