data_7K5J
#
_model_server_result.job_id            BwRii8a22ATsYMA6dw2zbQ 
_model_server_result.datetime_utc      '2025-07-06 22:32:21' 
_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          7k5j 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"Z","auth_seq_id":1101}' 
#
_entry.id    7K5J 
#
_exptl.entry_id    7K5J 
_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    7 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          94.59 
_cell.angle_gamma         90 
_cell.entry_id            7K5J 
_cell.length_a            95.181 
_cell.length_b            272.917 
_cell.length_c            258.342 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7K5J 
_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
? trimeric 3 author_defined_assembly 1 
? trimeric 3 author_defined_assembly 2 
? trimeric 3 author_defined_assembly 3 
? trimeric 3 author_defined_assembly 4 
? trimeric 3 author_defined_assembly 5 
? trimeric 3 author_defined_assembly 6 
PISA trimeric 3 author_and_software_defined_assembly 7 
PISA trimeric 3 author_and_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,J,K,CA 1 1 
F,G,O,AA 2 1 
H,I,R,BA 3 1 
L,M,P,DA 4 1 
S,T,W,EA 5 1 
U,V,X 6 1 
B,C,N,Y 7 1 
D,E,Q,Z 8 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 Y N N 
? 4 Z N N 
? 4 AA N N 
? 4 BA N N 
? 4 CA N N 
? 4 DA N N 
? 4 EA 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
disulf ? disulf1 B SG CYS 593 D CYS 600 1_555 C SG CYS 97 F CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf2 D SG CYS 593 A CYS 600 1_555 E SG CYS 97 B CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf3 H SG CYS 593 G CYS 600 1_555 I SG CYS 97 H CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf4 J SG CYS 593 I CYS 600 1_555 K SG CYS 97 J CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf5 L SG CYS 593 K CYS 600 1_555 M SG CYS 97 L CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
covale ? covale1 A C GLY 83 N GLY 76 1_555 K NZ LYS 143 J LYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.275 sing 
covale ? covale2 C NZ LYS 143 F LYS 141 1_555 N C GLY 83 M GLY 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 sing 
covale ? covale3 E NZ LYS 143 B LYS 141 1_555 Q C GLY 83 Q GLY 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.308 sing 
covale ? covale4 M NZ LYS 143 L LYS 141 1_555 P C GLY 83 P GLY 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.677 sing 
#
_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                     7K5J 
_atom_sites.fract_transf_matrix[1][1]    0.010506 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000844 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.003664 
_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]    0.003883 
_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
Y 4 AMP D 1 1101 1103 AMP AMP . 
Z 4 AMP A 1 1101 1103 AMP AMP . 
AA 4 AMP C 1 1101 1103 AMP AMP . 
BA 4 AMP G 1 1101 1103 AMP AMP . 
CA 4 AMP I 1 1101 1103 AMP AMP . 
DA 4 AMP K 1 1101 1103 AMP AMP . 
EA 4 AMP S 1 1101 1103 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 . . . Z 4 112.675 -3.861 428.146 1 158.22 ? P AMP 1101 A 1 
HETATM 2 O O1P AMP . . . Z 4 113.78 -3.413 427.221 1 163.12 ? O1P AMP 1101 A 1 
HETATM 3 O O2P AMP . . . Z 4 111.518 -2.893 428.235 1 144.79 ? O2P AMP 1101 A 1 
HETATM 4 O O3P AMP . . . Z 4 112.292 -5.312 427.971 1 162.32 ? O3P AMP 1101 A 1 
HETATM 5 O O5' AMP . . . Z 4 113.338 -3.805 429.594 1 163.28 ? O5' AMP 1101 A 1 
HETATM 6 C C5' AMP . . . Z 4 112.581 -4.102 430.764 1 165.55 ? C5' AMP 1101 A 1 
HETATM 7 C C4' AMP . . . Z 4 113.2 -5.23 431.556 1 163.55 ? C4' AMP 1101 A 1 
HETATM 8 O O4' AMP . . . Z 4 113.255 -4.864 432.962 1 158.87 ? O4' AMP 1101 A 1 
HETATM 9 C C3' AMP . . . Z 4 112.452 -6.566 431.485 1 155.05 ? C3' AMP 1101 A 1 
HETATM 10 O O3' AMP . . . Z 4 113.393 -7.632 431.373 1 150.82 ? O3' AMP 1101 A 1 
HETATM 11 C C2' AMP . . . Z 4 111.751 -6.644 432.842 1 148.13 ? C2' AMP 1101 A 1 
HETATM 12 O O2' AMP . . . Z 4 111.496 -7.955 433.299 1 143.1 ? O2' AMP 1101 A 1 
HETATM 13 C C1' AMP . . . Z 4 112.745 -5.923 433.741 1 154.06 ? C1' AMP 1101 A 1 
HETATM 14 N N9 AMP . . . Z 4 112.161 -5.365 434.962 1 168.13 ? N9 AMP 1101 A 1 
HETATM 15 C C8 AMP . . . Z 4 111.276 -4.353 435.033 1 175.93 ? C8 AMP 1101 A 1 
HETATM 16 N N7 AMP . . . Z 4 110.942 -4.091 436.323 1 181.3 ? N7 AMP 1101 A 1 
HETATM 17 C C5 AMP . . . Z 4 111.622 -4.952 437.104 1 176.36 ? C5 AMP 1101 A 1 
HETATM 18 C C6 AMP . . . Z 4 111.738 -5.225 438.557 1 171.94 ? C6 AMP 1101 A 1 
HETATM 19 N N6 AMP . . . Z 4 111.039 -4.505 439.467 1 175.27 ? N6 AMP 1101 A 1 
HETATM 20 N N1 AMP . . . Z 4 112.567 -6.218 438.947 1 161.65 ? N1 AMP 1101 A 1 
HETATM 21 C C2 AMP . . . Z 4 113.269 -6.946 438.059 1 160.07 ? C2 AMP 1101 A 1 
HETATM 22 N N3 AMP . . . Z 4 113.213 -6.754 436.73 1 164.25 ? N3 AMP 1101 A 1 
HETATM 23 C C4 AMP . . . Z 4 112.422 -5.791 436.199 1 171.62 ? C4 AMP 1101 A 1 
#
_model_server_stats.io_time_ms              161 
_model_server_stats.parse_time_ms           28 
_model_server_stats.create_model_time_ms    410 
_model_server_stats.query_time_ms           326 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           23 
#