data_1XPR
#
_model_server_result.job_id            utbCDtFvTquTA96GJ5e3GQ 
_model_server_result.datetime_utc      '2025-02-05 06:36:41' 
_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          1xpr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"N","auth_seq_id":1600}' 
#
_entry.id    1XPR 
#
_exptl.entry_id    1XPR 
_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    6 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          108.16 
_cell.angle_gamma         90 
_cell.entry_id            1XPR 
_cell.length_a            210.526 
_cell.length_b            109.679 
_cell.length_c            160.046 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1XPR 
_symmetry.cell_setting             monoclinic 
_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
? dimeric 2 author_defined_assembly 1 
? dimeric 2 author_defined_assembly 2 
? dimeric 2 author_defined_assembly 3 
? dimeric 2 author_defined_assembly 4 
? dimeric 2 author_defined_assembly 5 
? dimeric 2 author_defined_assembly 6 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,G,M,N 1 1 
B,H,O,P,Q 2 1 
C,I,R,S,T 3 1 
D,J,U,V,W 4 1 
E,K,X,Y,Z 5 1 
F,L,AA,BA,CA 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 N N N 
? 4 P N N 
? 4 S N N 
? 4 V N N 
? 4 Y N N 
? 4 BA 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 G OG1 THR 185 A THR 185 1_555 M MG MG . A MG 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? 
metalc ? metalc2 N O2G AGS . A AGS 1600 1_555 M MG MG . A MG 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.959 ? 
metalc ? metalc3 H OG1 THR 185 B THR 185 1_555 O MG MG . B MG 2601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.289 ? 
metalc ? metalc4 P O2B AGS . B AGS 2600 1_555 O MG MG . B MG 2601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
metalc ? metalc5 P O2G AGS . B AGS 2600 1_555 O MG MG . B MG 2601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.943 ? 
metalc ? metalc6 S O2G AGS . C AGS 3600 1_555 R MG MG . C MG 3601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.945 ? 
metalc ? metalc7 S O2B AGS . C AGS 3600 1_555 R MG MG . C MG 3601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? 
metalc ? metalc8 J OG1 THR 185 D THR 185 1_555 U MG MG . D MG 4601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? 
metalc ? metalc9 V O2G AGS . D AGS 4600 1_555 U MG MG . D MG 4601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.892 ? 
metalc ? metalc10 K OG1 THR 185 E THR 185 1_555 X MG MG . E MG 5601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? 
metalc ? metalc11 Y O2G AGS . E AGS 5600 1_555 X MG MG . E MG 5601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.946 ? 
metalc ? metalc12 L OG1 THR 185 F THR 185 1_555 AA MG MG . F MG 6601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? 
metalc ? metalc13 L OE1 GLU 215 F GLU 215 1_555 AA MG MG . F MG 6601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? 
metalc ? metalc14 BA O2G AGS . F AGS 6600 1_555 AA MG MG . F MG 6601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.931 ? 
#
_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                     1XPR 
_atom_sites.fract_transf_matrix[1][1]    0.00475 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001558 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009118 
_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]    0.006576 
_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
M 3 MG A 1 1601 1601 MG MG . 
N 4 AGS A 1 1600 1600 AGS AGS . 
O 3 MG B 1 2601 2601 MG MG . 
P 4 AGS B 1 2600 2600 AGS AGS . 
Q 5 FB B 1 2701 2701 FB FB . 
R 3 MG C 1 3601 3601 MG MG . 
S 4 AGS C 1 3600 3600 AGS AGS . 
T 5 FB C 1 3701 3701 FB FB . 
U 3 MG D 1 4601 4601 MG MG . 
V 4 AGS D 1 4600 4600 AGS AGS . 
W 5 FB D 1 4701 4701 FB FB . 
X 3 MG E 1 5601 5601 MG MG . 
Y 4 AGS E 1 5600 5600 AGS AGS . 
Z 5 FB E 1 5701 5701 FB FB . 
AA 3 MG F 1 6601 6601 MG MG . 
BA 4 AGS F 1 6600 6600 AGS AGS . 
CA 5 FB F 1 6701 6701 FB FB . 
#
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 . . . N 4 7.206 -29.235 24.256 1 88.97 ? PG AGS 1600 A 1 
HETATM 2 S S1G AGS . . . N 4 8.842 -30.142 23.371 1 89.16 ? S1G AGS 1600 A 1 
HETATM 3 O O2G AGS . . . N 4 6.118 -28.926 23.143 1 89.09 ? O2G AGS 1600 A 1 
HETATM 4 O O3G AGS . . . N 4 7.66 -27.878 24.947 1 89.02 ? O3G AGS 1600 A 1 
HETATM 5 P PB AGS . . . N 4 5.292 -29.836 26.227 1 87.21 ? PB AGS 1600 A 1 
HETATM 6 O O1B AGS . . . N 4 5.695 -28.871 27.424 1 87.25 ? O1B AGS 1600 A 1 
HETATM 7 O O2B AGS . . . N 4 4.184 -29.145 25.324 1 87.27 ? O2B AGS 1600 A 1 
HETATM 8 O O3B AGS . . . N 4 6.591 -30.234 25.363 1 88.18 ? O3B AGS 1600 A 1 
HETATM 9 P PA AGS . . . N 4 5.077 -32.705 26.339 1 84.83 ? PA AGS 1600 A 1 
HETATM 10 O O1A AGS . . . N 4 5.384 -32.751 24.775 1 84.87 ? O1A AGS 1600 A 1 
HETATM 11 O O2A AGS . . . N 4 3.927 -33.731 26.722 1 84.88 ? O2A AGS 1600 A 1 
HETATM 12 O O3A AGS . . . N 4 4.713 -31.215 26.848 1 86.07 ? O3A AGS 1600 A 1 
HETATM 13 O O5' AGS . . . N 4 6.419 -33.057 27.153 1 83.75 ? O5' AGS 1600 A 1 
HETATM 14 C C5' AGS . . . N 4 6.575 -32.681 28.522 1 81.92 ? C5' AGS 1600 A 1 
HETATM 15 C C4' AGS . . . N 4 7.206 -33.763 29.394 1 80.6 ? C4' AGS 1600 A 1 
HETATM 16 O O4' AGS . . . N 4 6.532 -33.701 30.646 1 80.01 ? O4' AGS 1600 A 1 
HETATM 17 C C3' AGS . . . N 4 7.02 -35.168 28.832 1 80.07 ? C3' AGS 1600 A 1 
HETATM 18 O O3' AGS . . . N 4 8.285 -35.787 28.643 1 80.11 ? O3' AGS 1600 A 1 
HETATM 19 C C2' AGS . . . N 4 6.178 -35.935 29.836 1 79.68 ? C2' AGS 1600 A 1 
HETATM 20 O O2' AGS . . . N 4 6.887 -37.051 30.351 1 79.6 ? O2' AGS 1600 A 1 
HETATM 21 C C1' AGS . . . N 4 5.9 -34.949 30.956 1 79.34 ? C1' AGS 1600 A 1 
HETATM 22 N N9 AGS . . . N 4 4.446 -34.736 31.211 1 78.5 ? N9 AGS 1600 A 1 
HETATM 23 C C8 AGS . . . N 4 3.672 -33.699 30.793 1 78.18 ? C8 AGS 1600 A 1 
HETATM 24 N N7 AGS . . . N 4 2.369 -33.796 31.223 1 77.99 ? N7 AGS 1600 A 1 
HETATM 25 C C5 AGS . . . N 4 2.304 -34.924 31.951 1 77.85 ? C5 AGS 1600 A 1 
HETATM 26 C C6 AGS . . . N 4 1.304 -35.707 32.722 1 77.65 ? C6 AGS 1600 A 1 
HETATM 27 N N6 AGS . . . N 4 0.027 -35.275 32.811 1 77.58 ? N6 AGS 1600 A 1 
HETATM 28 N N1 AGS . . . N 4 1.682 -36.86 33.338 1 77.61 ? N1 AGS 1600 A 1 
HETATM 29 C C2 AGS . . . N 4 2.942 -37.346 33.287 1 77.66 ? C2 AGS 1600 A 1 
HETATM 30 N N3 AGS . . . N 4 3.934 -36.728 32.618 1 77.82 ? N3 AGS 1600 A 1 
HETATM 31 C C4 AGS . . . N 4 3.63 -35.496 31.928 1 78.04 ? C4 AGS 1600 A 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    26 
_model_server_stats.query_time_ms           341 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           31 
#