data_3WV9
#
_model_server_result.job_id            zsO6wpWKxe3jKw4mlR7l9g 
_model_server_result.datetime_utc      '2024-11-28 17:45:02' 
_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          3wv9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"S","auth_seq_id":301}' 
#
_entry.id    3WV9 
#
_exptl.entry_id    3WV9 
_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    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         120 
_cell.entry_id            3WV9 
_cell.length_a            85 
_cell.length_b            85 
_cell.length_c            120.78 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3WV9 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        143 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 3' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
PISA trimeric 3 software_defined_assembly 5 
PISA trimeric 3 software_defined_assembly 6 
PISA trimeric 3 software_defined_assembly 7 
PISA trimeric 3 software_defined_assembly 8 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,G,H,I,U 1 1 
B,J,K,L,V 2 1 
C,M,N,O,P,Q,R,W 3 1 
D,S,T,X 4 1 
A,E,F,G,H,I,U 5 1,2,3 
B,J,K,L,V 6 1,2,3 
C,M,N,O,P,Q,R,W 7 1,4,5 
D,S,T,X 8 1,6,7 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 85 0 0 
3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 42.5 73.612159 0 
4 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 
5 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 
6 'crystal symmetry operation' 2_545 -y,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 42.5 -73.612159 0 
7 'crystal symmetry operation' 3_655 -x+y+1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 85 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 E N N 
? 2 J N N 
? 2 M N N 
? 2 S N N 
#
_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                     3WV9 
_atom_sites.fract_transf_matrix[1][1]    0.011765 
_atom_sites.fract_transf_matrix[1][2]    0.006792 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.013585 
_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]    0.00828 
_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 2 ATP A 1 301 301 ATP ATP . 
F 3 FEG A 1 302 302 FEG FEG . 
G 4 SO4 A 1 303 303 SO4 SO4 . 
H 4 SO4 A 1 304 305 SO4 SO4 . 
I 4 SO4 A 1 305 306 SO4 SO4 . 
J 2 ATP B 1 301 301 ATP ATP . 
K 3 FEG B 1 302 302 FEG FEG . 
L 4 SO4 B 1 303 303 SO4 SO4 . 
M 2 ATP C 1 302 301 ATP ATP . 
N 3 FEG C 1 303 302 FEG FEG . 
O 4 SO4 C 1 304 303 SO4 SO4 . 
P 4 SO4 C 1 301 304 SO4 SO4 . 
Q 4 SO4 C 1 305 304 SO4 SO4 . 
R 4 SO4 C 1 306 305 SO4 SO4 . 
S 2 ATP D 1 301 301 ATP ATP . 
T 4 SO4 D 1 302 302 SO4 SO4 . 
U 5 HOH A 1 401 401 HOH HOH . 
U 5 HOH A 2 402 402 HOH HOH . 
U 5 HOH A 3 403 403 HOH HOH . 
V 5 HOH B 1 401 401 HOH HOH . 
V 5 HOH B 2 402 402 HOH HOH . 
V 5 HOH B 3 403 403 HOH HOH . 
V 5 HOH B 4 404 404 HOH HOH . 
V 5 HOH B 5 405 405 HOH HOH . 
W 5 HOH C 1 401 401 HOH HOH . 
W 5 HOH C 2 402 402 HOH HOH . 
W 5 HOH C 3 403 403 HOH HOH . 
X 5 HOH D 1 401 401 HOH HOH . 
X 5 HOH D 2 402 402 HOH HOH . 
X 5 HOH D 3 403 403 HOH HOH . 
X 5 HOH D 4 404 404 HOH HOH . 
#
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 . . . S 2 62.037 -20.884 37.928 1 107.09 ? PG ATP 301 D 1 
HETATM 2 O O1G ATP . . . S 2 62.906 -19.998 37.063 1 102.28 ? O1G ATP 301 D 1 
HETATM 3 O O2G ATP . . . S 2 60.608 -20.953 37.466 1 90.8 ? O2G ATP 301 D 1 
HETATM 4 O O3G ATP . . . S 2 62.674 -22.195 38.307 1 106.09 ? O3G ATP 301 D 1 
HETATM 5 P PB ATP . . . S 2 61.336 -18.655 39.604 1 86.04 ? PB ATP 301 D 1 
HETATM 6 O O1B ATP . . . S 2 60.018 -18.583 38.854 1 113.47 ? O1B ATP 301 D 1 
HETATM 7 O O2B ATP . . . S 2 62.411 -17.655 39.294 1 91.22 ? O2B ATP 301 D 1 
HETATM 8 O O3B ATP . . . S 2 61.949 -20.141 39.375 1 105.18 ? O3B ATP 301 D 1 
HETATM 9 P PA ATP . . . S 2 59.79 -17.73 41.809 1 58.74 ? PA ATP 301 D 1 
HETATM 10 O O1A ATP . . . S 2 58.514 -18.245 41.193 1 74.92 ? O1A ATP 301 D 1 
HETATM 11 O O2A ATP . . . S 2 59.85 -17.768 43.326 1 55.45 ? O2A ATP 301 D 1 
HETATM 12 O O3A ATP . . . S 2 61.017 -18.572 41.18 1 77.8 ? O3A ATP 301 D 1 
HETATM 13 O O5' ATP . . . S 2 60.005 -16.273 41.198 1 51.56 ? O5' ATP 301 D 1 
HETATM 14 C C5' ATP . . . S 2 60.061 -15.069 41.976 1 59.93 ? C5' ATP 301 D 1 
HETATM 15 C C4' ATP . . . S 2 60.013 -13.89 41.024 1 57.97 ? C4' ATP 301 D 1 
HETATM 16 O O4' ATP . . . S 2 60.871 -12.827 41.433 1 60.49 ? O4' ATP 301 D 1 
HETATM 17 C C3' ATP . . . S 2 60.512 -14.272 39.638 1 58.49 ? C3' ATP 301 D 1 
HETATM 18 O O3' ATP . . . S 2 59.444 -14.227 38.682 1 61.19 ? O3' ATP 301 D 1 
HETATM 19 C C2' ATP . . . S 2 61.563 -13.253 39.281 1 60.41 ? C2' ATP 301 D 1 
HETATM 20 O O2' ATP . . . S 2 61.459 -12.812 37.924 1 72.97 ? O2' ATP 301 D 1 
HETATM 21 C C1' ATP . . . S 2 61.199 -12.142 40.214 1 63.88 ? C1' ATP 301 D 1 
HETATM 22 N N9 ATP . . . S 2 62.269 -11.121 40.318 1 65.49 ? N9 ATP 301 D 1 
HETATM 23 C C8 ATP . . . S 2 63.582 -11.285 40.55 1 63.62 ? C8 ATP 301 D 1 
HETATM 24 N N7 ATP . . . S 2 64.228 -10.099 40.572 1 60.6 ? N7 ATP 301 D 1 
HETATM 25 C C5 ATP . . . S 2 63.315 -9.159 40.36 1 62.14 ? C5 ATP 301 D 1 
HETATM 26 C C6 ATP . . . S 2 63.317 -7.689 40.26 1 63.8 ? C6 ATP 301 D 1 
HETATM 27 N N6 ATP . . . S 2 64.461 -6.991 40.411 1 68.21 ? N6 ATP 301 D 1 
HETATM 28 N N1 ATP . . . S 2 62.148 -7.063 39.995 1 62.02 ? N1 ATP 301 D 1 
HETATM 29 C C2 ATP . . . S 2 61.003 -7.751 39.86 1 67.16 ? C2 ATP 301 D 1 
HETATM 30 N N3 ATP . . . S 2 60.93 -9.099 39.951 1 62.72 ? N3 ATP 301 D 1 
HETATM 31 C C4 ATP . . . S 2 62.032 -9.833 40.172 1 60.9 ? C4 ATP 301 D 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           31 
#