data_6JRR # _model_server_result.job_id y-6Qk288khX7VMORaCQOGw _model_server_result.datetime_utc '2024-11-04 20:35:23' _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 6jrr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"X","auth_seq_id":6003}' # _entry.id 6JRR # _exptl.entry_id 6JRR _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 194.191 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description CAFFEINE _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 6JRR _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6JRR _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 octameric _pdbx_struct_assembly.oligomeric_count 8 _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 _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 ? 6 L N N ? 6 P N N ? 6 T N N ? 6 X 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 OE1 GLU 3849 A GLU 3849 1_555 J CA CA . A CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc2 A OE2 GLU 3849 A GLU 3849 1_555 J CA CA . A CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc3 A OE1 GLU 3923 A GLU 3923 1_555 J CA CA . A CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? metalc ? metalc4 A OE2 GLU 3923 A GLU 3923 1_555 J CA CA . A CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc5 A SG CYS 4889 A CYS 4889 1_555 I ZN ZN . A ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? metalc ? metalc6 A SG CYS 4892 A CYS 4892 1_555 I ZN ZN . A ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc7 A NE2 HIS 4909 A HIS 4909 1_555 I ZN ZN . A ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc8 A NE2 HIS 4914 A HIS 4914 1_555 I ZN ZN . A ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc9 A O THR 4932 A THR 4932 1_555 J CA CA . A CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? metalc ? metalc10 C OE1 GLU 3849 C GLU 3849 1_555 N CA CA . C CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc11 C OE2 GLU 3849 C GLU 3849 1_555 N CA CA . C CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc12 C OE1 GLU 3923 C GLU 3923 1_555 N CA CA . C CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? metalc ? metalc13 C OE2 GLU 3923 C GLU 3923 1_555 N CA CA . C CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc14 C SG CYS 4889 C CYS 4889 1_555 M ZN ZN . C ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? metalc ? metalc15 C SG CYS 4892 C CYS 4892 1_555 M ZN ZN . C ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc16 C NE2 HIS 4909 C HIS 4909 1_555 M ZN ZN . C ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc17 C NE2 HIS 4914 C HIS 4914 1_555 M ZN ZN . C ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc18 C O THR 4932 C THR 4932 1_555 N CA CA . C CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? metalc ? metalc19 E OE1 GLU 3849 E GLU 3849 1_555 R CA CA . E CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc20 E OE2 GLU 3849 E GLU 3849 1_555 R CA CA . E CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc21 E OE1 GLU 3923 E GLU 3923 1_555 R CA CA . E CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? metalc ? metalc22 E OE2 GLU 3923 E GLU 3923 1_555 R CA CA . E CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc23 E SG CYS 4889 E CYS 4889 1_555 Q ZN ZN . E ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? metalc ? metalc24 E SG CYS 4892 E CYS 4892 1_555 Q ZN ZN . E ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc25 E NE2 HIS 4909 E HIS 4909 1_555 Q ZN ZN . E ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc26 E NE2 HIS 4914 E HIS 4914 1_555 Q ZN ZN . E ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc27 E O THR 4932 E THR 4932 1_555 R CA CA . E CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.502 ? metalc ? metalc28 G OE1 GLU 3849 G GLU 3849 1_555 V CA CA . G CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc29 G OE2 GLU 3849 G GLU 3849 1_555 V CA CA . G CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc30 G OE1 GLU 3923 G GLU 3923 1_555 V CA CA . G CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? metalc ? metalc31 G OE2 GLU 3923 G GLU 3923 1_555 V CA CA . G CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc32 G SG CYS 4889 G CYS 4889 1_555 U ZN ZN . G ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.449 ? metalc ? metalc33 G SG CYS 4892 G CYS 4892 1_555 U ZN ZN . G ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc34 G NE2 HIS 4909 G HIS 4909 1_555 U ZN ZN . G ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc35 G NE2 HIS 4914 G HIS 4914 1_555 U ZN ZN . G ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc36 G O THR 4932 G THR 4932 1_555 V CA CA . G CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? # _chem_comp.formula 'C8 H10 N4 O2' _chem_comp.formula_weight 194.191 _chem_comp.id CFF _chem_comp.mon_nstd_flag . _chem_comp.name CAFFEINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 3,7-DIHYDRO-1,3,7-TRIMETHYL-1H-PURINE-2,6-DIONE # 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 CFF sing 119 n y N1 C10 CFF sing 120 n n N1 C6 CFF sing 121 n y C2 N3 CFF sing 122 n y C2 O11 CFF doub 123 n n C10 H101 CFF sing 124 n n C10 H102 CFF sing 125 n n C10 H103 CFF sing 126 n n C6 C5 CFF sing 127 n y C6 O13 CFF doub 128 n n N3 C12 CFF sing 129 n n N3 C4 CFF sing 130 n y C12 H121 CFF sing 131 n n C12 H122 CFF sing 132 n n C12 H123 CFF sing 133 n n C4 C5 CFF doub 134 n y C4 N9 CFF sing 135 n y C5 N7 CFF sing 136 n y N9 C8 CFF doub 137 n y N7 C8 CFF sing 138 n y N7 C14 CFF sing 139 n n C8 H81 CFF sing 140 n n C14 H141 CFF sing 141 n n C14 H142 CFF sing 142 n n C14 H143 CFF sing 143 n n # _atom_sites.entry_id 6JRR _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 I 3 ZN A 1 6000 6000 ZN ZN . J 4 CA A 1 6001 6001 CA CA . K 5 ATP A 1 6002 6002 ATP ATP . L 6 CFF A 1 6003 6003 CFF CFF . M 3 ZN C 1 6000 6000 ZN ZN . N 4 CA C 1 6001 6001 CA CA . O 5 ATP C 1 6002 6002 ATP ATP . P 6 CFF C 1 6003 6003 CFF CFF . Q 3 ZN E 1 6000 6000 ZN ZN . R 4 CA E 1 6001 6001 CA CA . S 5 ATP E 1 6002 6002 ATP ATP . T 6 CFF E 1 6003 6003 CFF CFF . U 3 ZN G 1 6000 6000 ZN ZN . V 4 CA G 1 6001 6001 CA CA . W 5 ATP G 1 6002 6002 ATP ATP . X 6 CFF G 1 6003 6003 CFF CFF . # 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 CFF . . . X 6 198.086 259.416 171.345 1 46.48 ? N1 CFF 6003 G 1 HETATM 2 C C2 CFF . . . X 6 197.873 258.538 170.356 1 46.48 ? C2 CFF 6003 G 1 HETATM 3 C C10 CFF . . . X 6 197.279 260.615 171.409 1 46.48 ? C10 CFF 6003 G 1 HETATM 4 C C6 CFF . . . X 6 199.018 259.185 172.242 1 46.48 ? C6 CFF 6003 G 1 HETATM 5 N N3 CFF . . . X 6 198.616 257.427 170.292 1 46.48 ? N3 CFF 6003 G 1 HETATM 6 O O11 CFF . . . X 6 197.036 258.746 169.551 1 46.48 ? O11 CFF 6003 G 1 HETATM 7 C C12 CFF . . . X 6 198.417 256.458 169.247 1 46.48 ? C12 CFF 6003 G 1 HETATM 8 C C4 CFF . . . X 6 199.547 257.191 171.195 1 46.48 ? C4 CFF 6003 G 1 HETATM 9 C C5 CFF . . . X 6 199.769 258.051 172.167 1 46.48 ? C5 CFF 6003 G 1 HETATM 10 N N9 CFF . . . X 6 200.389 256.18 171.315 1 46.48 ? N9 CFF 6003 G 1 HETATM 11 O O13 CFF . . . X 6 199.204 259.96 173.108 1 46.48 ? O13 CFF 6003 G 1 HETATM 12 N N7 CFF . . . X 6 200.757 257.565 172.91 1 46.48 ? N7 CFF 6003 G 1 HETATM 13 C C8 CFF . . . X 6 201.134 256.408 172.383 1 46.48 ? C8 CFF 6003 G 1 HETATM 14 C C14 CFF . . . X 6 201.531 257.893 174.089 1 46.48 ? C14 CFF 6003 G 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 139 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 14 #