data_5LW1 # _model_server_result.job_id 4rI4c_6PdIEVM4TiQ7lCsw _model_server_result.datetime_utc '2024-11-08 01:34:17' _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 5lw1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"W","auth_seq_id":401}' # _entry.id 5LW1 # _exptl.entry_id 5LW1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 267.241 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ADENOSINE _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 97.83 _cell.angle_gamma 90 _cell.entry_id 5LW1 _cell.length_a 219.99 _cell.length_b 141.76 _cell.length_c 119.85 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5LW1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 trimeric 3 author_and_software_defined_assembly 1 PISA trimeric 3 author_and_software_defined_assembly 2 PISA tetrameric 4 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,K,L,M,N,O,P,Q,R 1 1 D,E,F,S,T,U,V,W,X,Y,Z,AA 2 1 G,H,I,J,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA 3 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 ? 6 M N N ? 6 W N N ? 6 FA 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 covale ? covale1 J C IVA 1 L IVA 1 1_555 J N VAL 2 L VAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.36 ? covale ? covale2 J C VAL 3 L VAL 3 1_555 J N STA 4 L STA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.35 ? covale ? covale3 J C STA 4 L STA 4 1_555 J N ALA 5 L ALA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.367 ? covale ? covale4 J C ALA 5 L ALA 5 1_555 J N STA 6 L STA 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 ? # _chem_comp.formula 'C10 H13 N5 O4' _chem_comp.formula_weight 267.241 _chem_comp.id ADN _chem_comp.mon_nstd_flag . _chem_comp.name ADENOSINE _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 O5' C5' ADN sing 1 n n O5' HO5' ADN sing 2 n n C5' C4' ADN sing 3 n n C5' "H5'1" ADN sing 4 n n C5' "H5'2" ADN sing 5 n n C4' O4' ADN sing 6 n n C4' C3' ADN sing 7 n n C4' H4' ADN sing 8 n n O4' C1' ADN sing 9 n n C3' O3' ADN sing 10 n n C3' C2' ADN sing 11 n n C3' H3' ADN sing 12 n n O3' HO3' ADN sing 13 n n C2' O2' ADN sing 14 n n C2' C1' ADN sing 15 n n C2' H2' ADN sing 16 n n O2' HO2' ADN sing 17 n n C1' N9 ADN sing 18 n n C1' H1' ADN sing 19 n n N9 C8 ADN sing 20 n y N9 C4 ADN sing 21 n y C8 N7 ADN doub 22 n y C8 H8 ADN sing 23 n n N7 C5 ADN sing 24 n y C5 C6 ADN sing 25 n y C5 C4 ADN doub 26 n y C6 N6 ADN sing 27 n n C6 N1 ADN doub 28 n y N6 HN61 ADN sing 29 n n N6 HN62 ADN sing 30 n n N1 C2 ADN sing 31 n y C2 N3 ADN doub 32 n y C2 H2 ADN sing 33 n n N3 C4 ADN sing 34 n y # _atom_sites.entry_id 5LW1 _atom_sites.fract_transf_matrix[1][1] 0.004546 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000625 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007054 _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] 0.008422 _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 K 5 SO4 A 1 401 5 SO4 SO4 . L 5 SO4 A 1 402 19 SO4 SO4 . M 6 ADN B 1 401 1 ADN ADN . N 5 SO4 B 1 402 3 SO4 SO4 . O 5 SO4 B 1 403 13 SO4 SO4 . P 5 SO4 B 1 404 18 SO4 SO4 . Q 5 SO4 B 1 405 21 SO4 SO4 . R 5 SO4 B 1 406 24 SO4 SO4 . S 5 SO4 D 1 401 8 SO4 SO4 . T 5 SO4 D 1 402 10 SO4 SO4 . U 5 SO4 D 1 403 14 SO4 SO4 . V 5 SO4 D 1 404 15 SO4 SO4 . W 6 ADN E 1 401 3 ADN ADN . X 5 SO4 E 1 402 2 SO4 SO4 . Y 5 SO4 E 1 403 9 SO4 SO4 . Z 5 SO4 E 1 404 20 SO4 SO4 . AA 5 SO4 E 1 405 22 SO4 SO4 . BA 5 SO4 G 1 401 6 SO4 SO4 . CA 5 SO4 G 1 402 11 SO4 SO4 . DA 5 SO4 G 1 403 12 SO4 SO4 . EA 5 SO4 G 1 404 16 SO4 SO4 . FA 6 ADN H 1 401 2 ADN ADN . GA 5 SO4 H 1 402 1 SO4 SO4 . HA 5 SO4 H 1 403 7 SO4 SO4 . IA 5 SO4 H 1 404 17 SO4 SO4 . JA 5 SO4 H 1 405 23 SO4 SO4 . KA 5 SO4 I 1 201 4 SO4 SO4 . # 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 O O5' ADN . . . W 6 296.063 -27.49 9.696 1 89.5 ? O5' ADN 401 E 1 HETATM 2 C C5' ADN . . . W 6 297.173 -27.381 10.573 1 85.9 ? C5' ADN 401 E 1 HETATM 3 C C4' ADN . . . W 6 298.087 -28.577 10.461 1 78.95 ? C4' ADN 401 E 1 HETATM 4 O O4' ADN . . . W 6 298.179 -29.015 9.087 1 79.12 ? O4' ADN 401 E 1 HETATM 5 C C3' ADN . . . W 6 299.529 -28.381 10.936 1 82.85 ? C3' ADN 401 E 1 HETATM 6 O O3' ADN . . . W 6 299.927 -29.321 11.918 1 86.07 ? O3' ADN 401 E 1 HETATM 7 C C2' ADN . . . W 6 300.4 -28.396 9.666 1 85.15 ? C2' ADN 401 E 1 HETATM 8 O O2' ADN . . . W 6 301.305 -29.494 9.692 1 88.37 ? O2' ADN 401 E 1 HETATM 9 C C1' ADN . . . W 6 299.401 -28.622 8.531 1 82.68 ? C1' ADN 401 E 1 HETATM 10 N N9 ADN . . . W 6 299.214 -27.415 7.696 1 85.74 ? N9 ADN 401 E 1 HETATM 11 C C8 ADN . . . W 6 298.111 -26.612 7.561 1 87 ? C8 ADN 401 E 1 HETATM 12 N N7 ADN . . . W 6 298.4 -25.643 6.692 1 84.76 ? N7 ADN 401 E 1 HETATM 13 C C5 ADN . . . W 6 299.666 -25.829 6.271 1 85.93 ? C5 ADN 401 E 1 HETATM 14 C C6 ADN . . . W 6 300.449 -25.14 5.392 1 82.25 ? C6 ADN 401 E 1 HETATM 15 N N6 ADN . . . W 6 300.281 -23.919 4.526 1 74.9 ? N6 ADN 401 E 1 HETATM 16 N N1 ADN . . . W 6 301.677 -25.54 5.152 1 84.76 ? N1 ADN 401 E 1 HETATM 17 C C2 ADN . . . W 6 302.164 -26.639 5.78 1 82.97 ? C2 ADN 401 E 1 HETATM 18 N N3 ADN . . . W 6 301.383 -27.325 6.655 1 81.01 ? N3 ADN 401 E 1 HETATM 19 C C4 ADN . . . W 6 300.159 -26.932 6.899 1 85.6 ? C4 ADN 401 E 1 # _model_server_stats.io_time_ms 36 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 34 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 19 #