data_9B5J
#
_model_server_result.job_id            3DBjzbMqF_bFC0WIgaBdAQ 
_model_server_result.datetime_utc      '2024-11-08 12:38:02' 
_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          9b5j 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":101}' 
#
_entry.id    9B5J 
#
_exptl.entry_id    9B5J 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              347.221 
_entity.id                          5 
_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            9B5J 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9B5J 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_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 
#
_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    ? 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_struct_asym.id                             E 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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
covale ? covale1 A SG CYS 582 A CYS 593 1_555 F C03 A1AIV . D A1AIV 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.792 ? 
covale ? covale2 B OXT GLY 76 B GLY 76 1_555 E P AMP . B AMP 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.65 ? 
covale ? covale3 C SG CYS 85 C CYS 85 1_555 F C03 A1AIV . D A1AIV 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.761 ? 
covale ? covale4 D C GLY 1 D GLY 75 1_555 F N01 A1AIV . D A1AIV 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.317 ? 
#
_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 26 n n 
P O2P AMP sing 27 n n 
P O3P AMP sing 28 n n 
P O5' AMP sing 29 n n 
O2P HOP2 AMP sing 30 n n 
O3P HOP3 AMP sing 31 n n 
O5' C5' AMP sing 32 n n 
C5' C4' AMP sing 33 n n 
C5' "H5'1" AMP sing 34 n n 
C5' "H5'2" AMP sing 35 n n 
C4' O4' AMP sing 36 n n 
C4' C3' AMP sing 37 n n 
C4' H4' AMP sing 38 n n 
O4' C1' AMP sing 39 n n 
C3' O3' AMP sing 40 n n 
C3' C2' AMP sing 41 n n 
C3' H3' AMP sing 42 n n 
O3' HO3' AMP sing 43 n n 
C2' O2' AMP sing 44 n n 
C2' C1' AMP sing 45 n n 
C2' H2' AMP sing 46 n n 
O2' HO2' AMP sing 47 n n 
C1' N9 AMP sing 48 n n 
C1' H1' AMP sing 49 n n 
N9 C8 AMP sing 50 n y 
N9 C4 AMP sing 51 n y 
C8 N7 AMP doub 52 n y 
C8 H8 AMP sing 53 n n 
N7 C5 AMP sing 54 n y 
C5 C6 AMP sing 55 n y 
C5 C4 AMP doub 56 n y 
C6 N6 AMP sing 57 n n 
C6 N1 AMP doub 58 n y 
N6 HN61 AMP sing 59 n n 
N6 HN62 AMP sing 60 n n 
N1 C2 AMP sing 61 n y 
C2 N3 AMP doub 62 n y 
C2 H2 AMP sing 63 n n 
N3 C4 AMP sing 64 n y 
#
_atom_sites.entry_id                     9B5J 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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 5 AMP B 1 101 1104 AMP AMP . 
F 6 A1AIV D 1 201 76 A1AIV LIG . 
#
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 5 214.701 203.962 212.187 1 104.36 ? P AMP 101 B 1 
HETATM 2 O O1P AMP . . . E 5 214.574 204.388 210.748 1 101.43 ? O1P AMP 101 B 1 
HETATM 3 O O2P AMP . . . E 5 215.135 205.092 213.083 1 98.67 ? O2P AMP 101 B 1 
HETATM 4 O O5' AMP . . . E 5 215.785 202.803 212.278 1 93.04 ? O5' AMP 101 B 1 
HETATM 5 C C5' AMP . . . E 5 215.543 201.64 211.496 1 90.62 ? C5' AMP 101 B 1 
HETATM 6 C C4' AMP . . . E 5 216.676 200.674 211.72 1 91.45 ? C4' AMP 101 B 1 
HETATM 7 O O4' AMP . . . E 5 216.352 199.398 211.111 1 99.42 ? O4' AMP 101 B 1 
HETATM 8 C C3' AMP . . . E 5 218.016 201.112 211.124 1 89.35 ? C3' AMP 101 B 1 
HETATM 9 O O3' AMP . . . E 5 219.062 200.904 212.069 1 94.93 ? O3' AMP 101 B 1 
HETATM 10 C C2' AMP . . . E 5 218.204 200.178 209.931 1 84.36 ? C2' AMP 101 B 1 
HETATM 11 O O2' AMP . . . E 5 219.548 199.902 209.614 1 91.46 ? O2' AMP 101 B 1 
HETATM 12 C C1' AMP . . . E 5 217.469 198.931 210.393 1 90.42 ? C1' AMP 101 B 1 
HETATM 13 N N9 AMP . . . E 5 217.007 198.07 209.304 1 92.38 ? N9 AMP 101 B 1 
HETATM 14 C C8 AMP . . . E 5 216.141 198.414 208.336 1 90.48 ? C8 AMP 101 B 1 
HETATM 15 N N7 AMP . . . E 5 215.943 197.378 207.484 1 92.43 ? N7 AMP 101 B 1 
HETATM 16 C C5 AMP . . . E 5 216.698 196.351 207.906 1 89.74 ? C5 AMP 101 B 1 
HETATM 17 C C6 AMP . . . E 5 216.957 194.965 207.469 1 89.12 ? C6 AMP 101 B 1 
HETATM 18 N N6 AMP . . . E 5 216.348 194.461 206.371 1 91.36 ? N6 AMP 101 B 1 
HETATM 19 N N1 AMP . . . E 5 217.818 194.227 208.198 1 86.14 ? N1 AMP 101 B 1 
HETATM 20 C C2 AMP . . . E 5 218.43 194.712 209.29 1 82.54 ? C2 AMP 101 B 1 
HETATM 21 N N3 AMP . . . E 5 218.234 195.961 209.736 1 84.69 ? N3 AMP 101 B 1 
HETATM 22 C C4 AMP . . . E 5 217.4 196.813 209.103 1 90.11 ? C4 AMP 101 B 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    34 
_model_server_stats.query_time_ms           277 
_model_server_stats.encode_time_ms          11 
_model_server_stats.element_count           22 
#