data_5ZBK
#
_model_server_result.job_id            CeFxvDWNFPGejOXNPsT7Fw 
_model_server_result.datetime_utc      '2025-07-08 04:32:03' 
_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          5zbk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":304}' 
#
_entry.id    5ZBK 
#
_exptl.entry_id    5ZBK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              347.221 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'ADENOSINE MONOPHOSPHATE' 
_entity.pdbx_number_of_molecules    1 
_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            5ZBK 
_cell.length_a            64.844 
_cell.length_b            97.524 
_cell.length_c            71.788 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5ZBK 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
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' 3_555 -x,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 0 35.894 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             E 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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                     5ZBK 
_atom_sites.fract_transf_matrix[1][1]    0.015422 
_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]    0.010254 
_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]    0.01393 
_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
B 2 GOL A 1 301 3 GOL GOL . 
C 2 GOL A 1 302 4 GOL GOL . 
D 3 EDO A 1 303 1 EDO EDO . 
E 4 AMP A 1 304 1 AMP AMP . 
F 5 HOH A 1 401 4 HOH HOH . 
F 5 HOH A 2 402 2 HOH HOH . 
F 5 HOH A 3 403 5 HOH HOH . 
F 5 HOH A 4 404 1 HOH HOH . 
F 5 HOH A 5 405 3 HOH HOH . 
F 5 HOH A 6 406 10 HOH HOH . 
F 5 HOH A 7 407 6 HOH HOH . 
F 5 HOH A 8 408 8 HOH HOH . 
F 5 HOH A 9 409 7 HOH HOH . 
F 5 HOH A 10 410 9 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 P AMP . . . E 4 8.375 30.685 9.964 1 11.69 ? P AMP 304 A 1 
HETATM 2 O O1P AMP . . . E 4 9.447 30.464 8.94 1 10.32 ? O1P AMP 304 A 1 
HETATM 3 O O2P AMP . . . E 4 7.072 29.907 9.791 1 11.44 ? O2P AMP 304 A 1 
HETATM 4 O O3P AMP . . . E 4 8.908 30.644 11.382 1 11.47 ? O3P AMP 304 A 1 
HETATM 5 O O5' AMP . . . E 4 7.978 32.22 9.809 1 12.85 ? O5' AMP 304 A 1 
HETATM 6 C C5' AMP . . . E 4 7.274 32.748 8.687 1 15.86 ? C5' AMP 304 A 1 
HETATM 7 C C4' AMP . . . E 4 7.441 34.254 8.733 1 19.06 ? C4' AMP 304 A 1 
HETATM 8 O O4' AMP . . . E 4 6.573 34.768 9.75 1 20.71 ? O4' AMP 304 A 1 
HETATM 9 C C3' AMP . . . E 4 8.873 34.688 9.145 1 22.38 ? C3' AMP 304 A 1 
HETATM 10 O O3' AMP . . . E 4 9.748 34.984 8.041 1 26.47 ? O3' AMP 304 A 1 
HETATM 11 C C2' AMP . . . E 4 8.749 35.877 10.081 1 22.9 ? C2' AMP 304 A 1 
HETATM 12 O O2' AMP . . . E 4 9.312 37.115 9.608 1 25.56 ? O2' AMP 304 A 1 
HETATM 13 C C1' AMP . . . E 4 7.236 35.95 10.283 1 22.01 ? C1' AMP 304 A 1 
HETATM 14 N N9 AMP . . . E 4 6.968 36.149 11.714 1 21.63 ? N9 AMP 304 A 1 
HETATM 15 C C8 AMP . . . E 4 7.539 35.529 12.757 1 20.39 ? C8 AMP 304 A 1 
HETATM 16 N N7 AMP . . . E 4 7.035 35.961 13.901 1 20.16 ? N7 AMP 304 A 1 
HETATM 17 C C5 AMP . . . E 4 6.123 36.901 13.603 1 22.36 ? C5 AMP 304 A 1 
HETATM 18 C C6 AMP . . . E 4 5.218 37.793 14.356 1 22.26 ? C6 AMP 304 A 1 
HETATM 19 N N6 AMP . . . E 4 5.152 37.775 15.717 1 21.78 ? N6 AMP 304 A 1 
HETATM 20 N N1 AMP . . . E 4 4.43 38.61 13.613 1 24.59 ? N1 AMP 304 A 1 
HETATM 21 C C2 AMP . . . E 4 4.441 38.669 12.266 1 24.78 ? C2 AMP 304 A 1 
HETATM 22 N N3 AMP . . . E 4 5.255 37.886 11.541 1 24.31 ? N3 AMP 304 A 1 
HETATM 23 C C4 AMP . . . E 4 6.081 37.007 12.146 1 22.46 ? C4 AMP 304 A 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           321 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           23 
#