data_2VSX
#
_model_server_result.job_id            4D6sRFx9rHamRIom1NpRWQ 
_model_server_result.datetime_utc      '2025-07-03 08:05:17' 
_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          2vsx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":1178}' 
#
_entry.id    2VSX 
#
_exptl.entry_id    2VSX 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              347.221 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'ADENOSINE MONOPHOSPHATE' 
_entity.pdbx_number_of_molecules    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          99.71 
_cell.angle_gamma         90 
_cell.entry_id            2VSX 
_cell.length_a            68.92 
_cell.length_b            111.36 
_cell.length_c            111.28 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2VSX 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 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
PQS tetrameric 4 software_defined_assembly 1 
? dimeric 2 author_defined_assembly 2 
? dimeric 2 author_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F 1 1 
A,C,E 2 1 
B,D,F 3 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
? 3 E N N 
? 3 F N N 
#
_chem_comp.formula           'C10 H14 N5 O7 P' 
_chem_comp.formula_weight    347.221 
_chem_comp.id                AMP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'ADENOSINE MONOPHOSPHATE' 
_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
P O1P AMP doub 13 n n 
P O2P AMP sing 14 n n 
P O3P AMP sing 15 n n 
P O5' AMP sing 16 n n 
O2P HOP2 AMP sing 17 n n 
O3P HOP3 AMP sing 18 n n 
O5' C5' AMP sing 19 n n 
C5' C4' AMP sing 20 n n 
C5' "H5'1" AMP sing 21 n n 
C5' "H5'2" AMP sing 22 n n 
C4' O4' AMP sing 23 n n 
C4' C3' AMP sing 24 n n 
C4' H4' AMP sing 25 n n 
O4' C1' AMP sing 26 n n 
C3' O3' AMP sing 27 n n 
C3' C2' AMP sing 28 n n 
C3' H3' AMP sing 29 n n 
O3' HO3' AMP sing 30 n n 
C2' O2' AMP sing 31 n n 
C2' C1' AMP sing 32 n n 
C2' H2' AMP sing 33 n n 
O2' HO2' AMP sing 34 n n 
C1' N9 AMP sing 35 n n 
C1' H1' AMP sing 36 n n 
N9 C8 AMP sing 37 n y 
N9 C4 AMP sing 38 n y 
C8 N7 AMP doub 39 n y 
C8 H8 AMP sing 40 n n 
N7 C5 AMP sing 41 n y 
C5 C6 AMP sing 42 n y 
C5 C4 AMP doub 43 n y 
C6 N6 AMP sing 44 n n 
C6 N1 AMP doub 45 n y 
N6 HN61 AMP sing 46 n n 
N6 HN62 AMP sing 47 n n 
N1 C2 AMP sing 48 n y 
C2 N3 AMP doub 49 n y 
C2 H2 AMP sing 50 n n 
N3 C4 AMP sing 51 n y 
#
_atom_sites.entry_id                     2VSX 
_atom_sites.fract_transf_matrix[1][1]    0.01451 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002483 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00898 
_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]    0.009117 
_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 3 AMP A 1 1178 1178 AMP AMP . 
F 3 AMP B 1 1178 1178 AMP AMP . 
#
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 P AMP . . . F 3 8.333 -17.04 -26.695 1 74.99 ? P AMP 1178 B 1 
HETATM 2 O O1P AMP . . . F 3 7.717 -18.363 -27.094 1 38 ? O1P AMP 1178 B 1 
HETATM 3 O O2P AMP . . . F 3 7.343 -15.904 -26.575 1 80.61 ? O2P AMP 1178 B 1 
HETATM 4 O O3P AMP . . . F 3 9.319 -17.134 -25.554 1 68.8 ? O3P AMP 1178 B 1 
HETATM 5 O O5' AMP . . . F 3 9.237 -16.594 -27.954 1 123.46 ? O5' AMP 1178 B 1 
HETATM 6 C C5' AMP . . . F 3 10.554 -17.106 -28.152 1 115.18 ? C5' AMP 1178 B 1 
HETATM 7 C C4' AMP . . . F 3 11.238 -16.355 -29.294 1 106.72 ? C4' AMP 1178 B 1 
HETATM 8 O O4' AMP . . . F 3 10.341 -16.208 -30.396 1 85.04 ? O4' AMP 1178 B 1 
HETATM 9 C C3' AMP . . . F 3 11.689 -14.954 -28.897 1 108.66 ? C3' AMP 1178 B 1 
HETATM 10 O O3' AMP . . . F 3 13.119 -14.88 -28.874 1 110.24 ? O3' AMP 1178 B 1 
HETATM 11 C C2' AMP . . . F 3 11.165 -14.023 -29.969 1 100.15 ? C2' AMP 1178 B 1 
HETATM 12 O O2' AMP . . . F 3 12.25 -13.306 -30.563 1 114.71 ? O2' AMP 1178 B 1 
HETATM 13 C C1' AMP . . . F 3 10.506 -14.924 -30.999 1 93.24 ? C1' AMP 1178 B 1 
HETATM 14 N N9 AMP . . . F 3 9.191 -14.366 -31.395 1 94.01 ? N9 AMP 1178 B 1 
HETATM 15 C C8 AMP . . . F 3 8.09 -14.312 -30.623 1 90.67 ? C8 AMP 1178 B 1 
HETATM 16 N N7 AMP . . . F 3 7.058 -13.739 -31.291 1 89.22 ? N7 AMP 1178 B 1 
HETATM 17 C C5 AMP . . . F 3 7.495 -13.413 -32.522 1 96.84 ? C5 AMP 1178 B 1 
HETATM 18 C C6 AMP . . . F 3 6.922 -12.777 -33.736 1 91.08 ? C6 AMP 1178 B 1 
HETATM 19 N N6 AMP . . . F 3 5.633 -12.359 -33.774 1 94.23 ? N6 AMP 1178 B 1 
HETATM 20 N N1 AMP . . . F 3 7.73 -12.624 -34.808 1 77.52 ? N1 AMP 1178 B 1 
HETATM 21 C C2 AMP . . . F 3 9.011 -13.031 -34.79 1 90.7 ? C2 AMP 1178 B 1 
HETATM 22 N N3 AMP . . . F 3 9.596 -13.613 -33.728 1 106.13 ? N3 AMP 1178 B 1 
HETATM 23 C C4 AMP . . . F 3 8.905 -13.827 -32.583 1 102.04 ? C4 AMP 1178 B 1 
#
_model_server_stats.io_time_ms              23 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    24 
_model_server_stats.query_time_ms           327 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           23 
#