data_8TKF # _model_server_result.job_id bO0xZ_VJ7QQ6M2eD9bimIg _model_server_result.datetime_utc '2024-10-19 03:47:46' _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 8tkf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":2703}' # _entry.id 8TKF # _exptl.entry_id 8TKF _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 420.096 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description D-MYO-INOSITOL-1,4,5-TRIPHOSPHATE _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 8TKF _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8TKF _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 ? 3 F N N ? 3 P N N ? 3 Y N N ? 3 HA 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 2455 A CYS 2455 1_555 A SG CYS 2461 A CYS 2461 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 A SG CYS 2538 A CYS 2538 1_555 A SG CYS 2541 A CYS 2541 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.99 ? disulf ? disulf3 B SG CYS 2455 B CYS 2455 1_555 B SG CYS 2461 B CYS 2461 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 B SG CYS 2538 B CYS 2538 1_555 B SG CYS 2541 B CYS 2541 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.99 ? disulf ? disulf5 C SG CYS 2455 C CYS 2455 1_555 C SG CYS 2461 C CYS 2461 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 C SG CYS 2538 C CYS 2538 1_555 C SG CYS 2541 C CYS 2541 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.99 ? disulf ? disulf7 D SG CYS 2455 D CYS 2455 1_555 D SG CYS 2461 D CYS 2461 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf8 D SG CYS 2538 D CYS 2538 1_555 D SG CYS 2541 D CYS 2541 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.99 ? metalc ? metalc1 A OE1 GLU 1882 A GLU 1882 1_555 G CA CA . A CA 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc2 A OE2 GLU 1882 A GLU 1882 1_555 G CA CA . A CA 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc3 A OE1 GLU 1946 A GLU 1946 1_555 G CA CA . A CA 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc4 A OE2 GLU 1946 A GLU 1946 1_555 G CA CA . A CA 3003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc5 A SG CYS 2538 A CYS 2538 1_555 E ZN ZN . A ZN 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc6 A SG CYS 2541 A CYS 2541 1_555 E ZN ZN . A ZN 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc7 A NE2 HIS 2558 A HIS 2558 1_555 E ZN ZN . A ZN 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc8 A ND1 HIS 2563 A HIS 2563 1_555 E ZN ZN . A ZN 3001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc9 B OE1 GLU 1882 B GLU 1882 1_555 Q CA CA . B CA 2704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc10 B OE2 GLU 1882 B GLU 1882 1_555 Q CA CA . B CA 2704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc11 B OE1 GLU 1946 B GLU 1946 1_555 Q CA CA . B CA 2704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc12 B OE2 GLU 1946 B GLU 1946 1_555 Q CA CA . B CA 2704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc13 B SG CYS 2538 B CYS 2538 1_555 O ZN ZN . B ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc14 B SG CYS 2541 B CYS 2541 1_555 O ZN ZN . B ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc15 B NE2 HIS 2558 B HIS 2558 1_555 O ZN ZN . B ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc16 B ND1 HIS 2563 B HIS 2563 1_555 O ZN ZN . B ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc17 C OE1 GLU 1882 C GLU 1882 1_555 Z CA CA . C CA 2704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc18 C OE2 GLU 1882 C GLU 1882 1_555 Z CA CA . C CA 2704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc19 C OE1 GLU 1946 C GLU 1946 1_555 Z CA CA . C CA 2704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc20 C OE2 GLU 1946 C GLU 1946 1_555 Z CA CA . C CA 2704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc21 C SG CYS 2538 C CYS 2538 1_555 X ZN ZN . C ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc22 C SG CYS 2541 C CYS 2541 1_555 X ZN ZN . C ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc23 C NE2 HIS 2558 C HIS 2558 1_555 X ZN ZN . C ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc24 C ND1 HIS 2563 C HIS 2563 1_555 X ZN ZN . C ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc25 D OE1 GLU 1882 D GLU 1882 1_555 IA CA CA . D CA 2704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc26 D OE2 GLU 1882 D GLU 1882 1_555 IA CA CA . D CA 2704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc27 D OE1 GLU 1946 D GLU 1946 1_555 IA CA CA . D CA 2704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc28 D OE2 GLU 1946 D GLU 1946 1_555 IA CA CA . D CA 2704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc29 D SG CYS 2538 D CYS 2538 1_555 GA ZN ZN . D ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc30 D SG CYS 2541 D CYS 2541 1_555 GA ZN ZN . D ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc31 D NE2 HIS 2558 D HIS 2558 1_555 GA ZN ZN . D ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc32 D ND1 HIS 2563 D HIS 2563 1_555 GA ZN ZN . D ZN 2702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? # _chem_comp.formula 'C6 H15 O15 P3' _chem_comp.formula_weight 420.096 _chem_comp.id I3P _chem_comp.mon_nstd_flag . _chem_comp.name D-MYO-INOSITOL-1,4,5-TRIPHOSPHATE _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 C1 C2 I3P sing 199 n n C1 C6 I3P sing 200 n n C1 O1 I3P sing 201 n n C1 H1 I3P sing 202 n n C2 C3 I3P sing 203 n n C2 O2 I3P sing 204 n n C2 H2 I3P sing 205 n n C3 C4 I3P sing 206 n n C3 O3 I3P sing 207 n n C3 H3 I3P sing 208 n n C4 C5 I3P sing 209 n n C4 O4 I3P sing 210 n n C4 H4 I3P sing 211 n n C5 C6 I3P sing 212 n n C5 O5 I3P sing 213 n n C5 H5 I3P sing 214 n n C6 O6 I3P sing 215 n n C6 H6 I3P sing 216 n n O1 P1 I3P sing 217 n n O2 HO2 I3P sing 218 n n O3 HO3 I3P sing 219 n n O4 P4 I3P sing 220 n n O5 P5 I3P sing 221 n n O6 HO6 I3P sing 222 n n P1 O11 I3P doub 223 n n P1 O12 I3P sing 224 n n P1 O13 I3P sing 225 n n O12 HO12 I3P sing 226 n n O13 HO13 I3P sing 227 n n P4 O41 I3P doub 228 n n P4 O42 I3P sing 229 n n P4 O43 I3P sing 230 n n O42 HO42 I3P sing 231 n n O43 HO43 I3P sing 232 n n P5 O51 I3P doub 233 n n P5 O52 I3P sing 234 n n P5 O53 I3P sing 235 n n O52 HO52 I3P sing 236 n n O53 HO53 I3P sing 237 n n # _atom_sites.entry_id 8TKF _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 ZN A 1 3001 3001 ZN ZN . F 3 I3P A 1 3002 3002 I3P I3P . G 4 CA A 1 3003 3003 CA CA . H 5 ATP A 1 3004 3005 ATP ATP . I 6 PCW A 1 3005 3006 PCW PCW . J 6 PCW A 1 3006 3007 PCW PCW . K 6 PCW A 1 3007 3009 PCW PCW . L 6 PCW A 1 3008 3010 PCW PCW . M 7 PT5 A 1 3009 3008 PT5 PT5 . N 7 PT5 B 1 2701 3008 PT5 PT5 . O 2 ZN B 1 2702 3001 ZN ZN . P 3 I3P B 1 2703 3002 I3P I3P . Q 4 CA B 1 2704 3003 CA CA . R 5 ATP B 1 2705 3005 ATP ATP . S 6 PCW B 1 2706 3006 PCW PCW . T 6 PCW B 1 2707 3007 PCW PCW . U 6 PCW B 1 2708 3009 PCW PCW . V 6 PCW B 1 2709 3010 PCW PCW . W 7 PT5 C 1 2701 3008 PT5 PT5 . X 2 ZN C 1 2702 3001 ZN ZN . Y 3 I3P C 1 2703 3002 I3P I3P . Z 4 CA C 1 2704 3003 CA CA . AA 5 ATP C 1 2705 3005 ATP ATP . BA 6 PCW C 1 2706 3006 PCW PCW . CA 6 PCW C 1 2707 3007 PCW PCW . DA 6 PCW C 1 2708 3009 PCW PCW . EA 6 PCW C 1 2709 3010 PCW PCW . FA 7 PT5 D 1 2701 3008 PT5 PT5 . GA 2 ZN D 1 2702 3001 ZN ZN . HA 3 I3P D 1 2703 3002 I3P I3P . IA 4 CA D 1 2704 3003 CA CA . JA 5 ATP D 1 2705 3005 ATP ATP . KA 6 PCW D 1 2706 3006 PCW PCW . LA 6 PCW D 1 2707 3007 PCW PCW . MA 6 PCW D 1 2708 3009 PCW PCW . NA 6 PCW D 1 2709 3010 PCW PCW . # 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 C C1 I3P . . . P 3 163.776 252.699 170.044 1 80.92 ? C1 I3P 2703 B 1 HETATM 2 C C2 I3P . . . P 3 165.174 253.055 169.58 1 80.57 ? C2 I3P 2703 B 1 HETATM 3 C C3 I3P . . . P 3 165.319 252.863 168.074 1 77.6 ? C3 I3P 2703 B 1 HETATM 4 C C4 I3P . . . P 3 165.188 251.398 167.658 1 80.92 ? C4 I3P 2703 B 1 HETATM 5 C C5 I3P . . . P 3 164.247 250.656 168.622 1 85.8 ? C5 I3P 2703 B 1 HETATM 6 C C6 I3P . . . P 3 163.162 251.575 169.202 1 83.79 ? C6 I3P 2703 B 1 HETATM 7 O O1 I3P . . . P 3 162.985 253.864 170.004 1 82.09 ? O1 I3P 2703 B 1 HETATM 8 O O2 I3P . . . P 3 165.469 254.386 169.949 1 88.03 ? O2 I3P 2703 B 1 HETATM 9 O O3 I3P . . . P 3 164.329 253.62 167.404 1 80.3 ? O3 I3P 2703 B 1 HETATM 10 O O4 I3P . . . P 3 166.439 250.786 167.672 1 80.96 ? O4 I3P 2703 B 1 HETATM 11 O O5 I3P . . . P 3 163.651 249.595 167.943 1 83.21 ? O5 I3P 2703 B 1 HETATM 12 O O6 I3P . . . P 3 162.263 250.799 169.947 1 86.65 ? O6 I3P 2703 B 1 HETATM 13 P P1 I3P . . . P 3 161.821 254.105 171.205 1 86.71 ? P1 I3P 2703 B 1 HETATM 14 O O11 I3P . . . P 3 161.152 255.435 170.889 1 84.22 ? O11 I3P 2703 B 1 HETATM 15 O O12 I3P . . . P 3 160.953 252.87 171.048 1 82.01 ? O12 I3P 2703 B 1 HETATM 16 O O13 I3P . . . P 3 162.649 254.138 172.508 1 80.8 ? O13 I3P 2703 B 1 HETATM 17 P P4 I3P . . . P 3 167.367 250.522 166.275 1 77.48 ? P4 I3P 2703 B 1 HETATM 18 O O41 I3P . . . P 3 166.307 250.274 165.209 1 78.91 ? O41 I3P 2703 B 1 HETATM 19 O O42 I3P . . . P 3 168.2 249.278 166.579 1 78.77 ? O42 I3P 2703 B 1 HETATM 20 O O43 I3P . . . P 3 168.203 251.785 166.066 1 83.93 ? O43 I3P 2703 B 1 HETATM 21 P P5 I3P . . . P 3 163.89 247.965 168.34 1 65.64 ? P5 I3P 2703 B 1 HETATM 22 O O51 I3P . . . P 3 163.85 247.207 167.014 1 74.3 ? O51 I3P 2703 B 1 HETATM 23 O O52 I3P . . . P 3 165.242 247.883 169.048 1 80.6 ? O52 I3P 2703 B 1 HETATM 24 O O53 I3P . . . P 3 162.681 247.669 169.223 1 78.93 ? O53 I3P 2703 B 1 HETATM 25 H H1 I3P . . . P 3 163.867 252.375 170.953 1 80.46 ? H1 I3P 2703 B 1 HETATM 26 H H2 I3P . . . P 3 165.79 252.448 170.021 1 80.08 ? H2 I3P 2703 B 1 HETATM 27 H H3 I3P . . . P 3 166.205 253.17 167.824 1 80.15 ? H3 I3P 2703 B 1 HETATM 28 H H4 I3P . . . P 3 164.802 251.366 166.769 1 80.57 ? H4 I3P 2703 B 1 HETATM 29 H H5 I3P . . . P 3 164.78 250.326 169.363 1 81.06 ? H5 I3P 2703 B 1 HETATM 30 H H6 I3P . . . P 3 162.704 251.992 168.456 1 80.62 ? H6 I3P 2703 B 1 HETATM 31 H HO2 I3P . . . P 3 164.734 254.738 170.192 1 81.32 ? HO2 I3P 2703 B 1 HETATM 32 H HO3 I3P . . . P 3 164.142 254.292 167.89 1 80.77 ? HO3 I3P 2703 B 1 HETATM 33 H HO6 I3P . . . P 3 161.721 251.299 170.369 1 81.16 ? HO6 I3P 2703 B 1 # _model_server_stats.io_time_ms 157 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 468 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 33 #