data_6E11
#
_model_server_result.job_id            cSIAPyQ9sZ0LQMUOgp7Nbw 
_model_server_result.datetime_utc      '2025-09-08 12:53:53' 
_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          6e11 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"DA","auth_seq_id":1002}' 
#
_entry.id    6E11 
#
_exptl.entry_id    6E11 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              523.247 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' 
_entity.pdbx_number_of_molecules    12 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    28-meric 
_pdbx_struct_assembly.oligomeric_count      28 
_pdbx_struct_assembly.details               author_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,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA 
_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
? 6 CA N N 
? 6 DA N N 
? 6 EA N N 
? 6 FA N N 
? 6 GA N N 
? 6 HA N N 
? 6 IA N N 
? 6 JA N N 
? 6 KA N N 
? 6 LA N N 
? 6 MA N N 
? 6 NA 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
disulf ? disulf1 I SG CYS 113 C CYS 113 1_555 I SG CYS 140 C CYS 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf2 K SG CYS 113 D CYS 113 1_555 K SG CYS 140 D CYS 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf3 M SG CYS 113 E CYS 113 1_555 M SG CYS 140 E CYS 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf4 Q SG CYS 113 B CYS 113 1_555 Q SG CYS 140 B CYS 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf5 S SG CYS 113 A CYS 113 1_555 S SG CYS 140 A CYS 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf6 U SG CYS 113 G CYS 113 1_555 U SG CYS 140 G CYS 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf7 W SG CYS 113 F CYS 113 1_555 W SG CYS 140 F CYS 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
#
_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                     6E11 
_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
CA 6 AGS 1 1 1001 1002 AGS AGS . 
DA 6 AGS 1 1 1002 1002 AGS AGS . 
EA 6 AGS 1 1 1003 1003 AGS AGS . 
FA 6 AGS 2 1 1001 1003 AGS AGS . 
GA 6 AGS 3 1 1001 1002 AGS AGS . 
HA 6 AGS 3 1 1002 1003 AGS AGS . 
IA 6 AGS 4 1 1001 1002 AGS AGS . 
JA 6 AGS 4 1 1002 1003 AGS AGS . 
KA 6 AGS 5 1 1001 1023 AGS AGS . 
LA 6 AGS 5 1 1002 1024 AGS AGS . 
MA 6 AGS 6 1 1001 1023 AGS AGS . 
NA 6 AGS 6 1 1002 1024 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 . . . DA 6 249.845 219.538 302.427 1 130.95 ? PG AGS 1002 1 1 
HETATM 2 S S1G AGS . . . DA 6 248.998 220.758 301.181 1 130.95 ? S1G AGS 1002 1 1 
HETATM 3 O O2G AGS . . . DA 6 251.285 220.011 302.745 1 130.95 ? O2G AGS 1002 1 1 
HETATM 4 O O3G AGS . . . DA 6 249.043 219.484 303.762 1 130.95 ? O3G AGS 1002 1 1 
HETATM 5 P PB AGS . . . DA 6 250.309 217.042 302.981 1 130.95 ? PB AGS 1002 1 1 
HETATM 6 O O1B AGS . . . DA 6 251.175 215.922 302.305 1 130.95 ? O1B AGS 1002 1 1 
HETATM 7 O O2B AGS . . . DA 6 251.014 217.732 304.057 1 130.95 ? O2B AGS 1002 1 1 
HETATM 8 O O3B AGS . . . DA 6 249.923 218.082 301.87 1 130.95 ? O3B AGS 1002 1 1 
HETATM 9 P PA AGS . . . DA 6 248.348 215.342 302.672 1 130.95 ? PA AGS 1002 1 1 
HETATM 10 O O1A AGS . . . DA 6 248.685 215.797 301.252 1 130.95 ? O1A AGS 1002 1 1 
HETATM 11 O O2A AGS . . . DA 6 248.767 214.021 303.157 1 130.95 ? O2A AGS 1002 1 1 
HETATM 12 O O3A AGS . . . DA 6 249.001 216.419 303.556 1 130.95 ? O3A AGS 1002 1 1 
HETATM 13 O O5' AGS . . . DA 6 246.826 215.47 302.966 1 130.95 ? O5' AGS 1002 1 1 
HETATM 14 C C5' AGS . . . DA 6 246.322 214.764 304.093 1 130.95 ? C5' AGS 1002 1 1 
HETATM 15 C C4' AGS . . . DA 6 245.431 213.652 303.608 1 130.95 ? C4' AGS 1002 1 1 
HETATM 16 O O4' AGS . . . DA 6 246.154 212.807 302.684 1 130.95 ? O4' AGS 1002 1 1 
HETATM 17 C C3' AGS . . . DA 6 244.905 212.738 304.714 1 130.95 ? C3' AGS 1002 1 1 
HETATM 18 O O3' AGS . . . DA 6 243.523 212.463 304.523 1 130.95 ? O3' AGS 1002 1 1 
HETATM 19 C C2' AGS . . . DA 6 245.759 211.479 304.562 1 130.95 ? C2' AGS 1002 1 1 
HETATM 20 O O2' AGS . . . DA 6 245.05 210.323 304.991 1 130.95 ? O2' AGS 1002 1 1 
HETATM 21 C C1' AGS . . . DA 6 245.974 211.458 303.055 1 130.95 ? C1' AGS 1002 1 1 
HETATM 22 N N9 AGS . . . DA 6 247.14 210.704 302.616 1 130.95 ? N9 AGS 1002 1 1 
HETATM 23 C C8 AGS . . . DA 6 248.233 211.206 301.965 1 130.95 ? C8 AGS 1002 1 1 
HETATM 24 N N7 AGS . . . DA 6 249.142 210.306 301.675 1 130.95 ? N7 AGS 1002 1 1 
HETATM 25 C C5 AGS . . . DA 6 248.605 209.129 302.167 1 130.95 ? C5 AGS 1002 1 1 
HETATM 26 C C6 AGS . . . DA 6 249.08 207.802 302.175 1 130.95 ? C6 AGS 1002 1 1 
HETATM 27 N N6 AGS . . . DA 6 250.251 207.429 301.655 1 130.95 ? N6 AGS 1002 1 1 
HETATM 28 N N1 AGS . . . DA 6 248.299 206.861 302.744 1 130.95 ? N1 AGS 1002 1 1 
HETATM 29 C C2 AGS . . . DA 6 247.127 207.227 303.267 1 130.95 ? C2 AGS 1002 1 1 
HETATM 30 N N3 AGS . . . DA 6 246.575 208.441 303.315 1 130.95 ? N3 AGS 1002 1 1 
HETATM 31 C C4 AGS . . . DA 6 247.37 209.354 302.748 1 130.95 ? C4 AGS 1002 1 1 
#
_model_server_stats.io_time_ms              26 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    74 
_model_server_stats.query_time_ms           299 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           31 
#