data_5J9Y # _model_server_result.job_id 9S6g7Ei-SAfylK2hoKqoMA _model_server_result.datetime_utc '2024-12-21 18:37:47' _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 5j9y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1101}' # _entry.id 5J9Y # _exptl.entry_id 5J9Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.46 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (R)-1-(3-(4-amino-3-(naphthalen-1-yl)-1H-pyrazolo[3,4-d]pyrimidin-1-yl)piperidin-1-yl)prop-2-en-1-one _entity.pdbx_number_of_molecules 1 _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 5J9Y _cell.length_a 144.39 _cell.length_b 144.39 _cell.length_c 144.39 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5J9Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 197 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 101 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 797 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id CBC _struct_conn.ptnr2_label_comp_id 6HL _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id 6HL _struct_conn.ptnr2_auth_seq_id 1101 _struct_conn.ptnr2_symmetry 1_555 _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 1.571 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C23 H22 N6 O' _chem_comp.formula_weight 398.46 _chem_comp.id 6HL _chem_comp.mon_nstd_flag . _chem_comp.name (R)-1-(3-(4-amino-3-(naphthalen-1-yl)-1H-pyrazolo[3,4-d]pyrimidin-1-yl)piperidin-1-yl)prop-2-en-1-one _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 CAJ CAI 6HL doub 1 n y CAJ CAE 6HL sing 2 n y CAF CAE 6HL doub 3 n y CAF CAA 6HL sing 4 n y CAI CAH 6HL sing 5 n y CAE CAD 6HL sing 6 n y CAA CAB 6HL doub 7 n y CAH CAG 6HL doub 8 n y CAD CAG 6HL sing 9 n y CAD CAC 6HL doub 10 n y CAB CAC 6HL sing 11 n y CAC CAO 6HL sing 12 n n CAO NAN 6HL doub 13 n y CAO C5 6HL sing 14 n y NBD C6 6HL sing 15 n n NAN NAM 6HL sing 16 n y C5 C6 6HL doub 17 n y C5 C4 6HL sing 18 n y C6 N1 6HL sing 19 n y NAM C4 6HL sing 20 n y NAM CAY 6HL sing 21 n n C4 N3 6HL doub 22 n y N1 C2 6HL doub 23 n y CAX CAY 6HL sing 24 n n CAX NAW 6HL sing 25 n n CAY CAT 6HL sing 26 n n CAT CAU 6HL sing 27 n n CAV NAW 6HL sing 28 n n CAV CAU 6HL sing 29 n n NAW CAZ 6HL sing 30 n n N3 C2 6HL sing 31 n y CAZ CBB 6HL sing 32 n n CAZ OBA 6HL doub 33 n n CBB CBC 6HL doub 34 n n CBC H1 6HL sing 35 n n CBC H2 6HL sing 36 n n CBB H4 6HL sing 37 n n CAX H6 6HL sing 38 n n CAX H7 6HL sing 39 n n CAV H8 6HL sing 40 n n CAV H9 6HL sing 41 n n CAU H10 6HL sing 42 n n CAU H11 6HL sing 43 n n CAT H12 6HL sing 44 n n CAT H13 6HL sing 45 n n CAY H14 6HL sing 46 n n C2 H15 6HL sing 47 n n NBD H16 6HL sing 48 n n NBD H17 6HL sing 49 n n CAG H18 6HL sing 50 n n CAH H19 6HL sing 51 n n CAI H20 6HL sing 52 n n CAJ H21 6HL sing 53 n n CAF H22 6HL sing 54 n n CAA H23 6HL sing 55 n n CAB H24 6HL sing 56 n n # _atom_sites.entry_id 5J9Y _atom_sites.fract_transf_matrix[1][1] 0.006926 _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] 0.006926 _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] 0.006926 _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 B 2 6HL A 1 1101 1 6HL DRG . C 3 HOH A 1 1201 5 HOH HOH . C 3 HOH A 2 1202 20 HOH HOH . C 3 HOH A 3 1203 7 HOH HOH . C 3 HOH A 4 1204 28 HOH HOH . C 3 HOH A 5 1205 33 HOH HOH . C 3 HOH A 6 1206 13 HOH HOH . C 3 HOH A 7 1207 8 HOH HOH . C 3 HOH A 8 1208 31 HOH HOH . C 3 HOH A 9 1209 2 HOH HOH . C 3 HOH A 10 1210 30 HOH HOH . C 3 HOH A 11 1211 34 HOH HOH . C 3 HOH A 12 1212 29 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 C C4 6HL . . . B 2 0.32 51.376 -21.183 1 55.3 ? C4 6HL 1101 A 1 HETATM 2 C C5 6HL . . . B 2 0.67 52.052 -22.297 1 54.04 ? C5 6HL 1101 A 1 HETATM 3 C C6 6HL . . . B 2 1.62 53.043 -22.175 1 55.02 ? C6 6HL 1101 A 1 HETATM 4 N N1 6HL . . . B 2 2.187 53.342 -20.986 1 50.34 ? N1 6HL 1101 A 1 HETATM 5 N N3 6HL . . . B 2 0.854 51.646 -19.969 1 51.77 ? N3 6HL 1101 A 1 HETATM 6 C CBC 6HL . . . B 2 -6.034 50.108 -18.134 1 82.51 ? CBC 6HL 1101 A 1 HETATM 7 C CBB 6HL . . . B 2 -5.288 50.184 -19.409 1 89.61 ? CBB 6HL 1101 A 1 HETATM 8 C CAZ 6HL . . . B 2 -4.706 48.791 -19.499 1 86.89 ? CAZ 6HL 1101 A 1 HETATM 9 O OBA 6HL . . . B 2 -5.293 47.877 -18.926 1 100.17 ? OBA 6HL 1101 A 1 HETATM 10 N NAW 6HL . . . B 2 -3.574 48.588 -20.166 1 83.65 ? NAW 6HL 1101 A 1 HETATM 11 C CAX 6HL . . . B 2 -2.813 49.586 -20.959 1 83.09 ? CAX 6HL 1101 A 1 HETATM 12 C CAV 6HL . . . B 2 -3.039 47.253 -20.174 1 84.44 ? CAV 6HL 1101 A 1 HETATM 13 C CAU 6HL . . . B 2 -1.663 47.346 -19.584 1 79.19 ? CAU 6HL 1101 A 1 HETATM 14 C CAT 6HL . . . B 2 -0.771 48.054 -20.584 1 77.6 ? CAT 6HL 1101 A 1 HETATM 15 C CAY 6HL . . . B 2 -1.288 49.522 -20.626 1 76.05 ? CAY 6HL 1101 A 1 HETATM 16 N NAM 6HL . . . B 2 -0.579 50.461 -21.536 1 63.85 ? NAM 6HL 1101 A 1 HETATM 17 N NAN 6HL . . . B 2 -0.815 50.523 -22.714 1 59.86 ? NAN 6HL 1101 A 1 HETATM 18 C C2 6HL . . . B 2 1.823 52.658 -19.839 1 47.07 ? C2 6HL 1101 A 1 HETATM 19 N NBD 6HL . . . B 2 2.024 53.787 -23.231 1 54.76 ? NBD 6HL 1101 A 1 HETATM 20 C CAO 6HL . . . B 2 -0.085 51.467 -23.28 1 54.04 ? CAO 6HL 1101 A 1 HETATM 21 C CAC 6HL . . . B 2 -0.165 51.728 -24.62 1 50.76 ? CAC 6HL 1101 A 1 HETATM 22 C CAD 6HL . . . B 2 0.948 51.631 -25.484 1 47.18 ? CAD 6HL 1101 A 1 HETATM 23 C CAG 6HL . . . B 2 2.197 51.227 -25.026 1 50.84 ? CAG 6HL 1101 A 1 HETATM 24 C CAH 6HL . . . B 2 3.327 51.132 -25.85 1 51.59 ? CAH 6HL 1101 A 1 HETATM 25 C CAI 6HL . . . B 2 3.222 51.417 -27.201 1 47.9 ? CAI 6HL 1101 A 1 HETATM 26 C CAJ 6HL . . . B 2 1.972 51.823 -27.693 1 48.61 ? CAJ 6HL 1101 A 1 HETATM 27 C CAE 6HL . . . B 2 0.855 51.929 -26.85 1 48.63 ? CAE 6HL 1101 A 1 HETATM 28 C CAF 6HL . . . B 2 -0.361 52.314 -27.392 1 49.29 ? CAF 6HL 1101 A 1 HETATM 29 C CAA 6HL . . . B 2 -1.482 52.407 -26.571 1 48.06 ? CAA 6HL 1101 A 1 HETATM 30 C CAB 6HL . . . B 2 -1.387 52.113 -25.207 1 49.52 ? CAB 6HL 1101 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 30 #