data_6ZWM
#
_model_server_result.job_id            BJPWQwsys5A_vZMcdQxorA 
_model_server_result.datetime_utc      '2025-07-07 20:02:01' 
_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          6zwm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":2601}' 
#
_entry.id    6ZWM 
#
_exptl.entry_id    6ZWM 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              523.247 
_entity.id                          5 
_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            6ZWM 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6ZWM 
_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    octameric 
_pdbx_struct_assembly.oligomeric_count      8 
_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,M,N,O,P,Q,R 
_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
? 5 I N N 
? 5 K N N 
? 5 N N N 
? 5 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
covale ? covale1 G N ALA 2 G ALA 2 1_555 Q C ACE . G ACE 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale2 H N ALA 2 H ALA 2 1_555 R C ACE . H ACE 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
metalc ? metalc1 E NE2 HIS 1515 E HIS 1515 1_555 M ZN ZN . E ZN 4801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.19 ? 
metalc ? metalc2 E SG CYS 1520 E CYS 1520 1_555 M ZN ZN . E ZN 4801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? 
metalc ? metalc3 E SG CYS 1523 E CYS 1523 1_555 M ZN ZN . E ZN 4801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? 
metalc ? metalc4 E SG CYS 1651 E CYS 1651 1_555 M ZN ZN . E ZN 4801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? 
metalc ? metalc5 F NE2 HIS 1515 F HIS 1515 1_555 O ZN ZN . F ZN 4801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? 
metalc ? metalc6 F SG CYS 1520 F CYS 1520 1_555 O ZN ZN . F ZN 4801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? 
metalc ? metalc7 F SG CYS 1523 F CYS 1523 1_555 O ZN ZN . F ZN 4801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? 
metalc ? metalc8 F SG CYS 1651 F CYS 1651 1_555 O ZN ZN . F ZN 4801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? 
#
_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 7 n n 
PG O2G AGS sing 8 n n 
PG O3G AGS sing 9 n n 
PG O3B AGS sing 10 n n 
PB O1B AGS doub 11 n n 
PB O2B AGS sing 12 n n 
PB O3B AGS sing 13 n n 
PB O3A AGS sing 14 n n 
PA O1A AGS doub 15 n n 
PA O2A AGS sing 16 n n 
PA O3A AGS sing 17 n n 
PA O5' AGS sing 18 n n 
O5' C5' AGS sing 19 n n 
C5' C4' AGS sing 20 n n 
C4' O4' AGS sing 21 n n 
C4' C3' AGS sing 22 n n 
O4' C1' AGS sing 23 n n 
C3' O3' AGS sing 24 n n 
C3' C2' AGS sing 25 n n 
C2' O2' AGS sing 26 n n 
C2' C1' AGS sing 27 n n 
C1' N9 AGS sing 28 n n 
N9 C8 AGS sing 29 n y 
N9 C4 AGS sing 30 n y 
C8 N7 AGS doub 31 n y 
N7 C5 AGS sing 32 n y 
C5 C6 AGS sing 33 n y 
C5 C4 AGS doub 34 n y 
C6 N6 AGS sing 35 n n 
C6 N1 AGS doub 36 n y 
N1 C2 AGS sing 37 n y 
C2 N3 AGS doub 38 n y 
N3 C4 AGS sing 39 n y 
O2G HOG2 AGS sing 40 n n 
O3G H21 AGS sing 41 n n 
O2B HOB2 AGS sing 42 n n 
O2A HOA2 AGS sing 43 n n 
C5' "H5'1" AGS sing 44 n n 
C5' "H5'2" AGS sing 45 n n 
C4' H4' AGS sing 46 n n 
C3' H3' AGS sing 47 n n 
O3' HO3' AGS sing 48 n n 
C2' H2' AGS sing 49 n n 
O2' HO2' AGS sing 50 n n 
C1' H1' AGS sing 51 n n 
C8 H8 AGS sing 52 n n 
N6 HN61 AGS sing 53 n n 
N6 HN62 AGS sing 54 n n 
C2 H2 AGS sing 55 n n 
#
_atom_sites.entry_id                     6ZWM 
_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 5 AGS A 1 2601 3000 AGS AGS . 
J 6 IHP A 1 2602 2601 IHP IHP . 
K 5 AGS B 1 2601 3000 AGS AGS . 
L 6 IHP B 1 2602 2601 IHP IHP . 
M 7 ZN E 1 4801 4801 ZN ZN . 
N 5 AGS E 1 4802 3001 AGS AGS . 
O 7 ZN F 1 4801 4801 ZN ZN . 
P 5 AGS F 1 4802 3001 AGS AGS . 
Q 8 ACE G 1 601 1 ACE ACE . 
R 8 ACE H 1 601 1 ACE ACE . 
#
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 . . . I 5 173.428 233.955 198.546 1 73.41 0 PG AGS 2601 A 1 
HETATM 2 S S1G AGS . . . I 5 171.563 233.994 198.09 1 73.41 0 S1G AGS 2601 A 1 
HETATM 3 O O2G AGS . . . I 5 173.866 235.484 198.861 1 73.41 0 O2G AGS 2601 A 1 
HETATM 4 O O3G AGS . . . I 5 174.279 233.331 197.503 1 73.41 0 O3G AGS 2601 A 1 
HETATM 5 P PB AGS . . . I 5 172.23 232.848 200.819 1 73.41 0 PB AGS 2601 A 1 
HETATM 6 O O1B AGS . . . I 5 171.657 231.589 200.3 1 73.41 -1 O1B AGS 2601 A 1 
HETATM 7 O O2B AGS . . . I 5 171.399 234.068 200.867 1 73.41 0 O2B AGS 2601 A 1 
HETATM 8 O O3B AGS . . . I 5 173.549 233.18 199.962 1 73.41 0 O3B AGS 2601 A 1 
HETATM 9 P PA AGS . . . I 5 174.409 232.604 202.578 1 73.41 0 PA AGS 2601 A 1 
HETATM 10 O O1A AGS . . . I 5 174.917 233.98 202.392 1 73.41 -1 O1A AGS 2601 A 1 
HETATM 11 O O2A AGS . . . I 5 175.029 231.483 201.842 1 73.41 0 O2A AGS 2601 A 1 
HETATM 12 O O3A AGS . . . I 5 172.824 232.58 202.291 1 73.41 0 O3A AGS 2601 A 1 
HETATM 13 O O5' AGS . . . I 5 174.443 232.26 204.142 1 73.41 0 O5' AGS 2601 A 1 
HETATM 14 C C5' AGS . . . I 5 173.57 232.94 205.047 1 73.41 0 C5' AGS 2601 A 1 
HETATM 15 C C4' AGS . . . I 5 174.41 233.529 206.179 1 73.41 0 C4' AGS 2601 A 1 
HETATM 16 O O4' AGS . . . I 5 175.469 232.624 206.542 1 73.41 0 O4' AGS 2601 A 1 
HETATM 17 C C3' AGS . . . I 5 175.218 234.706 205.7 1 73.41 0 C3' AGS 2601 A 1 
HETATM 18 O O3' AGS . . . I 5 174.382 235.838 205.423 1 73.41 0 O3' AGS 2601 A 1 
HETATM 19 C C2' AGS . . . I 5 176.002 234.897 206.965 1 73.41 0 C2' AGS 2601 A 1 
HETATM 20 O O2' AGS . . . I 5 175.088 235.246 208.012 1 73.41 0 O2' AGS 2601 A 1 
HETATM 21 C C1' AGS . . . I 5 176.486 233.457 207.177 1 73.41 0 C1' AGS 2601 A 1 
HETATM 22 N N9 AGS . . . I 5 177.794 233.139 206.528 1 73.41 0 N9 AGS 2601 A 1 
HETATM 23 C C8 AGS . . . I 5 178.06 232.753 205.28 1 73.41 0 C8 AGS 2601 A 1 
HETATM 24 N N7 AGS . . . I 5 179.372 232.58 205.168 1 73.41 0 N7 AGS 2601 A 1 
HETATM 25 C C5 AGS . . . I 5 179.922 232.852 206.345 1 73.41 0 C5 AGS 2601 A 1 
HETATM 26 C C6 AGS . . . I 5 181.189 232.828 206.749 1 73.41 0 C6 AGS 2601 A 1 
HETATM 27 N N6 AGS . . . I 5 182.086 232.474 205.836 1 73.41 0 N6 AGS 2601 A 1 
HETATM 28 N N1 AGS . . . I 5 181.541 233.144 208.001 1 73.41 0 N1 AGS 2601 A 1 
HETATM 29 C C2 AGS . . . I 5 180.546 233.508 208.909 1 73.41 0 C2 AGS 2601 A 1 
HETATM 30 N N3 AGS . . . I 5 179.224 233.524 208.457 1 73.41 0 N3 AGS 2601 A 1 
HETATM 31 C C4 AGS . . . I 5 178.948 233.197 207.187 1 73.41 0 C4 AGS 2601 A 1 
#
_model_server_stats.io_time_ms              190 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    351 
_model_server_stats.query_time_ms           346 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           31 
#