data_6S6V
#
_model_server_result.job_id            DjFocNRZmHOaJ92jZy7GjQ 
_model_server_result.datetime_utc      '2025-03-05 02:43:14' 
_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          6s6v 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":1101}' 
#
_entry.id    6S6V 
#
_exptl.entry_id    6S6V 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_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    2 
_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            6S6V 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6S6V 
_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        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_and_software_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 
_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
? 4 I N N 
? 4 K 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 OD1 ASP 8 A ASP 8 1_555 E MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.88 ? 
metalc ? metalc2 A NE2 HIS 10 A HIS 10 1_555 E MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.703 ? 
metalc ? metalc3 A OD2 ASP 48 A ASP 48 1_555 E MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.951 ? 
metalc ? metalc4 A OD2 ASP 48 A ASP 48 1_555 F MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.827 ? 
metalc ? metalc5 A OD1 ASN 83 A ASN 83 1_555 F MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? 
metalc ? metalc6 A NE2 HIS 184 A HIS 184 1_555 F MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.437 ? 
metalc ? metalc7 A ND1 HIS 222 A HIS 222 1_555 F MN MN . A MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.187 ? 
metalc ? metalc8 A NE2 HIS 224 A HIS 224 1_555 E MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.717 ? 
metalc ? metalc9 B OD1 ASP 8 B ASP 8 1_555 G MN MN . B MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.958 ? 
metalc ? metalc10 B NE2 HIS 10 B HIS 10 1_555 G MN MN . B MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.634 ? 
metalc ? metalc11 B OD2 ASP 48 B ASP 48 1_555 G MN MN . B MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.901 ? 
metalc ? metalc12 B OD2 ASP 48 B ASP 48 1_555 H MN MN . B MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.835 ? 
metalc ? metalc13 B OD1 ASN 83 B ASN 83 1_555 H MN MN . B MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? 
metalc ? metalc14 B NE2 HIS 184 B HIS 184 1_555 H MN MN . B MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? 
metalc ? metalc15 B ND1 HIS 222 B HIS 222 1_555 H MN MN . B MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.458 ? 
metalc ? metalc16 B NE2 HIS 224 B HIS 224 1_555 G MN MN . B MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? 
metalc ? metalc17 C OG1 THR 44 C THR 44 1_555 J MG MG . C MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? 
metalc ? metalc18 C OE1 GLN 155 C GLN 155 1_555 J MG MG . C MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
covale ? covale1 C NH2 ARG 946 C ARG 946 1_555 I O2' AGS . C AGS 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.3 ? 
covale ? covale2 D OD1 ASN 12 D ASN 12 1_555 I C8 AGS . C AGS 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.378 ? 
covale ? covale3 D NZ LYS 43 D LYS 43 1_555 I S1G AGS . C AGS 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.629 ? 
metalc ? metalc19 D OG1 THR 44 D THR 44 1_555 L MG MG . D MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
metalc ? metalc20 D OE1 GLN 155 D GLN 155 1_555 L MG MG . D MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
covale ? covale4 D NH2 ARG 946 D ARG 946 1_555 K O2' AGS . D AGS 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.3 ? 
metalc ? metalc21 I O3G AGS . C AGS 1101 1_555 L MG MG . D MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
metalc ? metalc22 I O2B AGS . C AGS 1101 1_555 L MG MG . D MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? 
metalc ? metalc23 J MG MG . C MG 1102 1_555 K O3G AGS . D AGS 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
metalc ? metalc24 J MG MG . C MG 1102 1_555 K O2B AGS . D AGS 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? 
#
_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" 
#
_atom_sites.entry_id                     6S6V 
_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 3 MN A 1 501 404 MN MN . 
F 3 MN A 1 502 501 MN MN . 
G 3 MN B 1 501 402 MN MN . 
H 3 MN B 1 502 501 MN MN . 
I 4 AGS C 1 1101 1101 AGS AGS . 
J 5 MG C 1 1102 2 MG MG . 
K 4 AGS D 1 1101 1101 AGS AGS . 
L 5 MG D 1 1102 1 MG MG . 
#
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 . . . K 4 156.993 168.824 170.859 1 52.56 ? PG AGS 1101 D 1 
HETATM 2 S S1G AGS . . . K 4 156.779 167.747 169.264 1 52.56 ? S1G AGS 1101 D 1 
HETATM 3 O O2G AGS . . . K 4 158.499 168.903 171.191 1 52.56 ? O2G AGS 1101 D 1 
HETATM 4 O O3G AGS . . . K 4 156.266 168.149 172.044 1 52.56 ? O3G AGS 1101 D 1 
HETATM 5 P PB AGS . . . K 4 155.614 170.989 171.762 1 52.56 ? PB AGS 1101 D 1 
HETATM 6 O O1B AGS . . . K 4 154.549 171.793 171.151 1 52.56 ? O1B AGS 1101 D 1 
HETATM 7 O O2B AGS . . . K 4 155.125 169.911 172.72 1 52.56 ? O2B AGS 1101 D 1 
HETATM 8 O O3B AGS . . . K 4 156.457 170.26 170.659 1 52.56 ? O3B AGS 1101 D 1 
HETATM 9 P PA AGS . . . K 4 156.029 172.822 173.78 1 52.56 ? PA AGS 1101 D 1 
HETATM 10 O O1A AGS . . . K 4 154.751 173.424 173.496 1 52.56 ? O1A AGS 1101 D 1 
HETATM 11 O O2A AGS . . . K 4 156.042 172.018 175.075 1 52.56 ? O2A AGS 1101 D 1 
HETATM 12 O O3A AGS . . . K 4 156.555 171.88 172.632 1 52.56 ? O3A AGS 1101 D 1 
HETATM 13 O O5' AGS . . . K 4 157.067 173.986 173.84 1 52.56 ? O5' AGS 1101 D 1 
HETATM 14 C C5' AGS . . . K 4 156.768 175.251 173.248 1 52.56 ? C5' AGS 1101 D 1 
HETATM 15 C C4' AGS . . . K 4 157.984 176.135 173.318 1 52.56 ? C4' AGS 1101 D 1 
HETATM 16 O O4' AGS . . . K 4 157.751 177.193 174.261 1 52.56 ? O4' AGS 1101 D 1 
HETATM 17 C C3' AGS . . . K 4 159.275 175.446 173.758 1 52.56 ? C3' AGS 1101 D 1 
HETATM 18 O O3' AGS . . . K 4 160.213 175.442 172.694 1 52.56 ? O3' AGS 1101 D 1 
HETATM 19 C C2' AGS . . . K 4 159.779 176.29 174.936 1 52.56 ? C2' AGS 1101 D 1 
HETATM 20 O O2' AGS . . . K 4 161.167 176.607 174.9 1 52.56 ? O2' AGS 1101 D 1 
HETATM 21 C C1' AGS . . . K 4 159 177.58 174.771 1 52.56 ? C1' AGS 1101 D 1 
HETATM 22 N N9 AGS . . . K 4 158.798 178.272 176.027 1 52.56 ? N9 AGS 1101 D 1 
HETATM 23 C C8 AGS . . . K 4 158.909 177.739 177.28 1 52.56 ? C8 AGS 1101 D 1 
HETATM 24 N N7 AGS . . . K 4 158.679 178.594 178.245 1 52.56 ? N7 AGS 1101 D 1 
HETATM 25 C C5 AGS . . . K 4 158.408 179.775 177.577 1 52.56 ? C5 AGS 1101 D 1 
HETATM 26 C C6 AGS . . . K 4 158.072 181.06 178.031 1 52.56 ? C6 AGS 1101 D 1 
HETATM 27 N N6 AGS . . . K 4 157.964 181.386 179.319 1 52.56 ? N6 AGS 1101 D 1 
HETATM 28 N N1 AGS . . . K 4 157.859 182.015 177.102 1 52.56 ? N1 AGS 1101 D 1 
HETATM 29 C C2 AGS . . . K 4 157.963 181.692 175.811 1 52.56 ? C2 AGS 1101 D 1 
HETATM 30 N N3 AGS . . . K 4 158.268 180.515 175.267 1 52.56 ? N3 AGS 1101 D 1 
HETATM 31 C C4 AGS . . . K 4 158.478 179.591 176.21 1 52.56 ? C4 AGS 1101 D 1 
#
_model_server_stats.io_time_ms              70 
_model_server_stats.parse_time_ms           26 
_model_server_stats.create_model_time_ms    13 
_model_server_stats.query_time_ms           334 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           31 
#