data_8PML
#
_model_server_result.job_id            q3JxtG5APBQk_sMr5W4wXQ 
_model_server_result.datetime_utc      '2024-12-03 09:01:23' 
_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          8pml 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":1001}' 
#
_entry.id    8PML 
#
_exptl.entry_id    8PML 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              507.181 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-TRIPHOSPHATE" 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            8PML 
_cell.length_a            175.428 
_cell.length_b            193.36 
_cell.length_c            84.037 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8PML 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    'P 2 2ab' 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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    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
? 2 G N N 
? 2 I N N 
? 2 K N N 
? 2 M N N 
? 2 O N N 
? 2 Q 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 O ILE 76 A ILE 123 1_555 H MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
metalc ? metalc2 A OD1 ASP 121 A ASP 168 1_555 H MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? 
metalc ? metalc3 A OD2 ASP 121 A ASP 168 1_555 H MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.931 ? 
metalc ? metalc4 G O2G ATP . A ATP 1001 1_555 H MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? 
metalc ? metalc5 G O2B ATP . A ATP 1001 1_555 H MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? 
metalc ? metalc6 G O2A ATP . A ATP 1001 1_555 H MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? 
metalc ? metalc7 B O ILE 76 B ILE 123 1_555 J MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? 
metalc ? metalc8 B OD1 ASP 121 B ASP 168 1_555 J MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? 
metalc ? metalc9 B OD2 ASP 121 B ASP 168 1_555 J MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.768 ? 
metalc ? metalc10 I O2G ATP . B ATP 1001 1_555 J MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? 
metalc ? metalc11 I O2B ATP . B ATP 1001 1_555 J MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.478 ? 
metalc ? metalc12 I O2A ATP . B ATP 1001 1_555 J MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
metalc ? metalc13 C O ILE 76 C ILE 123 1_555 L MG MG . C MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
metalc ? metalc14 C OD1 ASP 121 C ASP 168 1_555 L MG MG . C MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? 
metalc ? metalc15 C OD2 ASP 121 C ASP 168 1_555 L MG MG . C MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.817 ? 
metalc ? metalc16 K O2G ATP . C ATP 1001 1_555 L MG MG . C MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.341 ? 
metalc ? metalc17 K O2B ATP . C ATP 1001 1_555 L MG MG . C MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? 
metalc ? metalc18 K O2A ATP . C ATP 1001 1_555 L MG MG . C MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
metalc ? metalc19 D O ILE 76 D ILE 123 1_555 N MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? 
metalc ? metalc20 D OD1 ASP 121 D ASP 168 1_555 N MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? 
metalc ? metalc21 M O2G ATP . D ATP 1001 1_555 N MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? 
metalc ? metalc22 M O2B ATP . D ATP 1001 1_555 N MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? 
metalc ? metalc23 M O2A ATP . D ATP 1001 1_555 N MG MG . D MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? 
metalc ? metalc24 E O ILE 76 E ILE 123 1_555 P MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? 
metalc ? metalc25 E OD1 ASP 121 E ASP 168 1_555 P MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? 
metalc ? metalc26 E OD2 ASP 121 E ASP 168 1_555 P MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.888 ? 
metalc ? metalc27 O O2G ATP . E ATP 1001 1_555 P MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? 
metalc ? metalc28 O O2B ATP . E ATP 1001 1_555 P MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.708 ? 
metalc ? metalc29 O O2A ATP . E ATP 1001 1_555 P MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? 
metalc ? metalc30 F O ILE 76 F ILE 123 1_555 R MG MG . F MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? 
metalc ? metalc31 F OD1 ASP 121 F ASP 168 1_555 R MG MG . F MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
metalc ? metalc32 F OD2 ASP 121 F ASP 168 1_555 R MG MG . F MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.757 ? 
metalc ? metalc33 Q O2G ATP . F ATP 1001 1_555 R MG MG . F MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? 
metalc ? metalc34 Q O2B ATP . F ATP 1001 1_555 R MG MG . F MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.585 ? 
metalc ? metalc35 Q O2A ATP . F ATP 1001 1_555 R MG MG . F MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? 
#
_chem_comp.formula           'C10 H16 N5 O13 P3' 
_chem_comp.formula_weight    507.181 
_chem_comp.id                ATP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "ADENOSINE-5'-TRIPHOSPHATE" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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 O1G ATP doub 70 n n 
PG O2G ATP sing 71 n n 
PG O3G ATP sing 72 n n 
PG O3B ATP sing 73 n n 
O2G HOG2 ATP sing 74 n n 
O3G HOG3 ATP sing 75 n n 
PB O1B ATP doub 76 n n 
PB O2B ATP sing 77 n n 
PB O3B ATP sing 78 n n 
PB O3A ATP sing 79 n n 
O2B HOB2 ATP sing 80 n n 
PA O1A ATP doub 81 n n 
PA O2A ATP sing 82 n n 
PA O3A ATP sing 83 n n 
PA O5' ATP sing 84 n n 
O2A HOA2 ATP sing 85 n n 
O5' C5' ATP sing 86 n n 
C5' C4' ATP sing 87 n n 
C5' "H5'1" ATP sing 88 n n 
C5' "H5'2" ATP sing 89 n n 
C4' O4' ATP sing 90 n n 
C4' C3' ATP sing 91 n n 
C4' H4' ATP sing 92 n n 
O4' C1' ATP sing 93 n n 
C3' O3' ATP sing 94 n n 
C3' C2' ATP sing 95 n n 
C3' H3' ATP sing 96 n n 
O3' HO3' ATP sing 97 n n 
C2' O2' ATP sing 98 n n 
C2' C1' ATP sing 99 n n 
C2' H2' ATP sing 100 n n 
O2' HO2' ATP sing 101 n n 
C1' N9 ATP sing 102 n n 
C1' H1' ATP sing 103 n n 
N9 C8 ATP sing 104 n y 
N9 C4 ATP sing 105 n y 
C8 N7 ATP doub 106 n y 
C8 H8 ATP sing 107 n n 
N7 C5 ATP sing 108 n y 
C5 C6 ATP sing 109 n y 
C5 C4 ATP doub 110 n y 
C6 N6 ATP sing 111 n n 
C6 N1 ATP doub 112 n y 
N6 HN61 ATP sing 113 n n 
N6 HN62 ATP sing 114 n n 
N1 C2 ATP sing 115 n y 
C2 N3 ATP doub 116 n y 
C2 H2 ATP sing 117 n n 
N3 C4 ATP sing 118 n y 
#
_atom_sites.entry_id                     8PML 
_atom_sites.fract_transf_matrix[1][1]    0.0057 
_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]    0.005172 
_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]    0.0119 
_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
G 2 ATP A 1 1001 1001 ATP ATP . 
H 3 MG A 1 1002 1002 MG MG . 
I 2 ATP B 1 1001 1001 ATP ATP . 
J 3 MG B 1 1002 1002 MG MG . 
K 2 ATP C 1 1001 1001 ATP ATP . 
L 3 MG C 1 1002 1002 MG MG . 
M 2 ATP D 1 1001 1001 ATP ATP . 
N 3 MG D 1 1002 1002 MG MG . 
O 2 ATP E 1 1001 1001 ATP ATP . 
P 3 MG E 1 1002 1002 MG MG . 
Q 2 ATP F 1 1001 1001 ATP ATP . 
R 3 MG F 1 1002 1002 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 ATP . . . M 2 -84.361 47.939 -32.849 1 49.87 ? PG ATP 1001 D 1 
HETATM 2 O O1G ATP . . . M 2 -84.306 47.019 -31.653 1 55.84 ? O1G ATP 1001 D 1 
HETATM 3 O O2G ATP . . . M 2 -83.246 48.954 -32.91 1 56.86 ? O2G ATP 1001 D 1 
HETATM 4 O O3G ATP . . . M 2 -84.576 47.26 -34.178 1 56.46 ? O3G ATP 1001 D 1 
HETATM 5 P PB ATP . . . M 2 -85.785 50.069 -31.642 1 60.91 ? PB ATP 1001 D 1 
HETATM 6 O O1B ATP . . . M 2 -87.183 50.629 -31.744 1 50.19 ? O1B ATP 1001 D 1 
HETATM 7 O O2B ATP . . . M 2 -84.615 50.97 -31.953 1 47.72 ? O2B ATP 1001 D 1 
HETATM 8 O O3B ATP . . . M 2 -85.726 48.756 -32.575 1 57.92 ? O3B ATP 1001 D 1 
HETATM 9 P PA ATP . . . M 2 -84.428 49.895 -29.184 1 62.36 ? PA ATP 1001 D 1 
HETATM 10 O O1A ATP . . . M 2 -84.812 51.108 -28.368 1 50.69 ? O1A ATP 1001 D 1 
HETATM 11 O O2A ATP . . . M 2 -83.142 49.911 -29.975 1 64.91 ? O2A ATP 1001 D 1 
HETATM 12 O O3A ATP . . . M 2 -85.644 49.47 -30.156 1 51.83 ? O3A ATP 1001 D 1 
HETATM 13 O O5' ATP . . . M 2 -84.379 48.627 -28.202 1 53.29 ? O5' ATP 1001 D 1 
HETATM 14 C C5' ATP . . . M 2 -85.258 48.526 -27.088 1 50.2 ? C5' ATP 1001 D 1 
HETATM 15 C C4' ATP . . . M 2 -85.105 47.095 -26.606 1 40.53 ? C4' ATP 1001 D 1 
HETATM 16 O O4' ATP . . . M 2 -83.825 46.939 -25.996 1 42.75 ? O4' ATP 1001 D 1 
HETATM 17 C C3' ATP . . . M 2 -86.119 46.689 -25.557 1 48.34 ? C3' ATP 1001 D 1 
HETATM 18 O O3' ATP . . . M 2 -87.283 46.092 -26.133 1 69.1 ? O3' ATP 1001 D 1 
HETATM 19 C C2' ATP . . . M 2 -85.375 45.651 -24.759 1 47.81 ? C2' ATP 1001 D 1 
HETATM 20 O O2' ATP . . . M 2 -85.681 44.381 -25.34 1 42.97 ? O2' ATP 1001 D 1 
HETATM 21 C C1' ATP . . . M 2 -83.903 45.974 -24.951 1 43.16 ? C1' ATP 1001 D 1 
HETATM 22 N N9 ATP . . . M 2 -83.373 46.546 -23.685 1 51.03 ? N9 ATP 1001 D 1 
HETATM 23 C C8 ATP . . . M 2 -83.894 47.596 -23.019 1 64.78 ? C8 ATP 1001 D 1 
HETATM 24 N N7 ATP . . . M 2 -83.193 47.875 -21.888 1 58.6 ? N7 ATP 1001 D 1 
HETATM 25 C C5 ATP . . . M 2 -82.194 46.982 -21.817 1 49.53 ? C5 ATP 1001 D 1 
HETATM 26 C C6 ATP . . . M 2 -81.083 46.715 -20.881 1 50.89 ? C6 ATP 1001 D 1 
HETATM 27 N N6 ATP . . . M 2 -80.907 47.476 -19.777 1 52.61 ? N6 ATP 1001 D 1 
HETATM 28 N N1 ATP . . . M 2 -80.254 45.688 -21.168 1 65.44 ? N1 ATP 1001 D 1 
HETATM 29 C C2 ATP . . . M 2 -80.428 44.926 -22.266 1 59.07 ? C2 ATP 1001 D 1 
HETATM 30 N N3 ATP . . . M 2 -81.416 45.112 -23.16 1 54.89 ? N3 ATP 1001 D 1 
HETATM 31 C C4 ATP . . . M 2 -82.317 46.108 -22.996 1 52.14 ? C4 ATP 1001 D 1 
#
_model_server_stats.io_time_ms              140 
_model_server_stats.parse_time_ms           27 
_model_server_stats.create_model_time_ms    30 
_model_server_stats.query_time_ms           342 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           31 
#