data_1W1W # _model_server_result.job_id Im86-FQSM7k-wuqKeatC-Q _model_server_result.datetime_utc '2024-11-06 04:33:37' _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 1w1w # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":2224}' # _entry.id 1W1W # _exptl.entry_id 1W1W _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.247 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' _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 1W1W _cell.length_a 138.465 _cell.length_b 138.465 _cell.length_c 284.074 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1W1W _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 2' # 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 dimeric 2 software_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 PISA dimeric 2 software_defined_assembly 3 PISA dimeric 2 software_defined_assembly 4 ? tetrameric 4 author_defined_assembly 5 ? tetrameric 4 author_defined_assembly 6 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression B,F,K,L 1 1 A,E,I,J 2 1 D,H,O,P 3 1 C,G,M,N 4 1 A,B,E,F,I,J,K,L 5 1 C,D,G,H,M,N,O,P 6 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 ? 4 J N N ? 4 L N N ? 4 N N N ? 4 P 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 OG SER 40 A SER 40 1_555 I MG MG . A MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc2 A OE1 GLN 151 A GLN 151 1_555 I MG MG . A MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.903 ? metalc ? metalc3 I MG MG . A MG 2001 1_555 J O3G AGS . A AGS 2224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc4 I MG MG . A MG 2001 1_555 J O2B AGS . A AGS 2224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc5 B OG SER 40 B SER 40 1_555 K MG MG . B MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? metalc ? metalc6 B OE1 GLN 151 B GLN 151 1_555 K MG MG . B MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? metalc ? metalc7 K MG MG . B MG 2001 1_555 L O2B AGS . B AGS 2224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? metalc ? metalc8 K MG MG . B MG 2001 1_555 L O3G AGS . B AGS 2224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.919 ? metalc ? metalc9 C OG SER 40 C SER 40 1_555 M MG MG . C MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.97 ? metalc ? metalc10 C OE1 GLN 151 C GLN 151 1_555 M MG MG . C MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? metalc ? metalc11 M MG MG . C MG 2001 1_555 N O2B AGS . C AGS 2224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc12 M MG MG . C MG 2001 1_555 N O3G AGS . C AGS 2224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc13 D OG SER 40 D SER 40 1_555 O MG MG . D MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc14 D OE1 GLN 151 D GLN 151 1_555 O MG MG . D MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? metalc ? metalc15 O MG MG . D MG 2001 1_555 P O3G AGS . D AGS 2224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.978 ? metalc ? metalc16 O MG MG . D MG 2001 1_555 P O2B AGS . D AGS 2224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? # _chem_comp.formula 'C10 H16 N5 O12 P3 S' _chem_comp.formula_weight 523.247 _chem_comp.id AGS _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ATP-GAMMA-S;ADENOSINE 5'-(3-THIOTRIPHOSPHATE);ADENOSINE 5'-(GAMMA-THIOTRIPHOSPHATE);ADENOSINE-5'-DIPHOSPHATE MONOTHIOPHOSPHATE" # 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 PG S1G AGS doub 1 n n PG O2G AGS sing 2 n n PG O3G AGS sing 3 n n PG O3B AGS sing 4 n n PB O1B AGS doub 5 n n PB O2B AGS sing 6 n n PB O3B AGS sing 7 n n PB O3A AGS sing 8 n n PA O1A AGS doub 9 n n PA O2A AGS sing 10 n n PA O3A AGS sing 11 n n PA O5' AGS sing 12 n n O5' C5' AGS sing 13 n n C5' C4' AGS sing 14 n n C4' O4' AGS sing 15 n n C4' C3' AGS sing 16 n n O4' C1' AGS sing 17 n n C3' O3' AGS sing 18 n n C3' C2' AGS sing 19 n n C2' O2' AGS sing 20 n n C2' C1' AGS sing 21 n n C1' N9 AGS sing 22 n n N9 C8 AGS sing 23 n y N9 C4 AGS sing 24 n y C8 N7 AGS doub 25 n y N7 C5 AGS sing 26 n y C5 C6 AGS sing 27 n y C5 C4 AGS doub 28 n y C6 N6 AGS sing 29 n n C6 N1 AGS doub 30 n y N1 C2 AGS sing 31 n y C2 N3 AGS doub 32 n y N3 C4 AGS sing 33 n y O2G HOG2 AGS sing 34 n n O3G H21 AGS sing 35 n n O2B HOB2 AGS sing 36 n n O2A HOA2 AGS sing 37 n n C5' "H5'1" AGS sing 38 n n C5' "H5'2" AGS sing 39 n n C4' H4' AGS sing 40 n n C3' H3' AGS sing 41 n n O3' HO3' AGS sing 42 n n C2' H2' AGS sing 43 n n O2' HO2' AGS sing 44 n n C1' H1' AGS sing 45 n n C8 H8 AGS sing 46 n n N6 HN61 AGS sing 47 n n N6 HN62 AGS sing 48 n n C2 H2 AGS sing 49 n n # _atom_sites.entry_id 1W1W _atom_sites.fract_transf_matrix[1][1] 0.007222 _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] 0.007222 _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] 0.00352 _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 MG A 1 2001 2001 MG MG . J 4 AGS A 1 2224 2224 AGS AGS . K 3 MG B 1 2001 2001 MG MG . L 4 AGS B 1 2224 2224 AGS AGS . M 3 MG C 1 2001 2001 MG MG . N 4 AGS C 1 2224 2224 AGS AGS . O 3 MG D 1 2001 2001 MG MG . P 4 AGS D 1 2224 2224 AGS AGS . # 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 PG AGS . . . J 4 -81.217 81.047 24.554 1 46.98 ? PG AGS 2224 A 1 HETATM 2 S S1G AGS . . . J 4 -82.528 81.723 25.606 1 52.24 ? S1G AGS 2224 A 1 HETATM 3 O O2G AGS . . . J 4 -81.668 80.197 23.443 1 42.82 ? O2G AGS 2224 A 1 HETATM 4 O O3G AGS . . . J 4 -80.237 80.388 25.486 1 48.86 ? O3G AGS 2224 A 1 HETATM 5 P PB AGS . . . J 4 -79.215 83.108 24.094 1 46.93 ? PB AGS 2224 A 1 HETATM 6 O O1B AGS . . . J 4 -79.732 84.497 24.119 1 48.3 ? O1B AGS 2224 A 1 HETATM 7 O O2B AGS . . . J 4 -78.595 82.621 25.354 1 46.01 ? O2B AGS 2224 A 1 HETATM 8 O O3B AGS . . . J 4 -80.432 82.168 23.674 1 45.74 ? O3B AGS 2224 A 1 HETATM 9 P PA AGS . . . J 4 -76.482 82.974 23.255 1 49.32 ? PA AGS 2224 A 1 HETATM 10 O O1A AGS . . . J 4 -75.829 84.085 23.969 1 53.91 ? O1A AGS 2224 A 1 HETATM 11 O O2A AGS . . . J 4 -76.404 81.565 23.742 1 50.93 ? O2A AGS 2224 A 1 HETATM 12 O O3A AGS . . . J 4 -78.097 83.241 23.047 1 46.33 ? O3A AGS 2224 A 1 HETATM 13 O O5' AGS . . . J 4 -76.101 83.181 21.734 1 45.92 ? O5' AGS 2224 A 1 HETATM 14 C C5' AGS . . . J 4 -76.073 82.125 20.814 1 52.32 ? C5' AGS 2224 A 1 HETATM 15 C C4' AGS . . . J 4 -75.814 82.803 19.457 1 56.44 ? C4' AGS 2224 A 1 HETATM 16 O O4' AGS . . . J 4 -74.625 83.524 19.489 1 52.73 ? O4' AGS 2224 A 1 HETATM 17 C C3' AGS . . . J 4 -75.738 81.874 18.239 1 58.86 ? C3' AGS 2224 A 1 HETATM 18 O O3' AGS . . . J 4 -76.988 81.928 17.568 1 58.65 ? O3' AGS 2224 A 1 HETATM 19 C C2' AGS . . . J 4 -74.634 82.48 17.355 1 57.11 ? C2' AGS 2224 A 1 HETATM 20 O O2' AGS . . . J 4 -75.091 83.03 16.089 1 60.51 ? O2' AGS 2224 A 1 HETATM 21 C C1' AGS . . . J 4 -73.986 83.539 18.267 1 54.06 ? C1' AGS 2224 A 1 HETATM 22 N N9 AGS . . . J 4 -72.53 83.3 18.457 1 55.2 ? N9 AGS 2224 A 1 HETATM 23 C C8 AGS . . . J 4 -71.797 82.509 19.341 1 56.59 ? C8 AGS 2224 A 1 HETATM 24 N N7 AGS . . . J 4 -70.467 82.541 19.276 1 50.16 ? N7 AGS 2224 A 1 HETATM 25 C C5 AGS . . . J 4 -70.308 83.432 18.248 1 49.91 ? C5 AGS 2224 A 1 HETATM 26 C C6 AGS . . . J 4 -69.167 83.98 17.607 1 50.03 ? C6 AGS 2224 A 1 HETATM 27 N N6 AGS . . . J 4 -67.824 83.63 18.043 1 46.77 ? N6 AGS 2224 A 1 HETATM 28 N N1 AGS . . . J 4 -69.341 84.862 16.562 1 51.13 ? N1 AGS 2224 A 1 HETATM 29 C C2 AGS . . . J 4 -70.606 85.226 16.137 1 52.46 ? C2 AGS 2224 A 1 HETATM 30 N N3 AGS . . . J 4 -71.774 84.801 16.669 1 52.13 ? N3 AGS 2224 A 1 HETATM 31 C C4 AGS . . . J 4 -71.564 83.901 17.721 1 52.51 ? C4 AGS 2224 A 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 46 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 31 #