data_9BFE
#
_model_server_result.job_id            k5mwwl2fDuGUbhbR77HmrQ 
_model_server_result.datetime_utc      '2025-01-05 04:44:47' 
_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          9bfe 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1101}' 
#
_entry.id    9BFE 
#
_exptl.entry_id    9BFE 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_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            9BFE 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9BFE 
_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    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D 
_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                      4 
_struct_asym.id                             D 
_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 OG SER 563 A SER 563 1_555 C P1 A1AN1 . A A1AN1 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.619 ? 
covale ? covale2 C P2 A1AN1 . A A1AN1 1101 1_555 B OG SER 1007 B SER 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.612 ? 
#
_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 142 n n 
P O2P AMP sing 143 n n 
P O3P AMP sing 144 n n 
P O5' AMP sing 145 n n 
O2P HOP2 AMP sing 146 n n 
O3P HOP3 AMP sing 147 n n 
O5' C5' AMP sing 148 n n 
C5' C4' AMP sing 149 n n 
C5' "H5'1" AMP sing 150 n n 
C5' "H5'2" AMP sing 151 n n 
C4' O4' AMP sing 152 n n 
C4' C3' AMP sing 153 n n 
C4' H4' AMP sing 154 n n 
O4' C1' AMP sing 155 n n 
C3' O3' AMP sing 156 n n 
C3' C2' AMP sing 157 n n 
C3' H3' AMP sing 158 n n 
O3' HO3' AMP sing 159 n n 
C2' O2' AMP sing 160 n n 
C2' C1' AMP sing 161 n n 
C2' H2' AMP sing 162 n n 
O2' HO2' AMP sing 163 n n 
C1' N9 AMP sing 164 n n 
C1' H1' AMP sing 165 n n 
N9 C8 AMP sing 166 n y 
N9 C4 AMP sing 167 n y 
C8 N7 AMP doub 168 n y 
C8 H8 AMP sing 169 n n 
N7 C5 AMP sing 170 n y 
C5 C6 AMP sing 171 n y 
C5 C4 AMP doub 172 n y 
C6 N6 AMP sing 173 n n 
C6 N1 AMP doub 174 n y 
N6 HN61 AMP sing 175 n n 
N6 HN62 AMP sing 176 n n 
N1 C2 AMP sing 177 n y 
C2 N3 AMP doub 178 n y 
C2 H2 AMP sing 179 n n 
N3 C4 AMP sing 180 n y 
#
_atom_sites.entry_id                     9BFE 
_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
C 3 A1AN1 A 1 1101 1102 A1AN1 DRG . 
D 4 AMP B 1 1101 1101 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 . . . D 4 139.797 111.02 178.286 1 151.58 ? P AMP 1101 B 1 
HETATM 2 O O1P AMP . . . D 4 139.717 109.515 178.24 1 147.37 ? O1P AMP 1101 B 1 
HETATM 3 O O2P AMP . . . D 4 138.76 111.672 179.166 1 144.49 ? O2P AMP 1101 B 1 
HETATM 4 O O3P AMP . . . D 4 141.196 111.559 178.448 1 147.22 ? O3P AMP 1101 B 1 
HETATM 5 O O5' AMP . . . D 4 139.387 111.446 176.809 1 145.21 ? O5' AMP 1101 B 1 
HETATM 6 C C5' AMP . . . D 4 139.877 112.649 176.227 1 143.96 ? C5' AMP 1101 B 1 
HETATM 7 C C4' AMP . . . D 4 139.302 112.861 174.851 1 144.71 ? C4' AMP 1101 B 1 
HETATM 8 O O4' AMP . . . D 4 137.858 112.757 174.932 1 145.86 ? O4' AMP 1101 B 1 
HETATM 9 C C3' AMP . . . D 4 139.558 114.222 174.236 1 143.04 ? C3' AMP 1101 B 1 
HETATM 10 O O3' AMP . . . D 4 139.419 114.151 172.817 1 143.32 ? O3' AMP 1101 B 1 
HETATM 11 C C2' AMP . . . D 4 138.432 115.054 174.827 1 144.08 ? C2' AMP 1101 B 1 
HETATM 12 O O2' AMP . . . D 4 138.096 116.206 174.095 1 149.91 ? O2' AMP 1101 B 1 
HETATM 13 C C1' AMP . . . D 4 137.276 114.052 174.849 1 143.72 ? C1' AMP 1101 B 1 
HETATM 14 N N9 AMP . . . D 4 136.37 114.244 175.978 1 145.39 ? N9 AMP 1101 B 1 
HETATM 15 C C8 AMP . . . D 4 136.583 113.937 177.267 1 146.09 ? C8 AMP 1101 B 1 
HETATM 16 N N7 AMP . . . D 4 135.516 114.314 178.02 1 145.43 ? N7 AMP 1101 B 1 
HETATM 17 C C5 AMP . . . D 4 134.615 114.886 177.206 1 142.32 ? C5 AMP 1101 B 1 
HETATM 18 C C6 AMP . . . D 4 133.279 115.5 177.34 1 140.15 ? C6 AMP 1101 B 1 
HETATM 19 N N6 AMP . . . D 4 132.672 115.576 178.542 1 140.29 ? N6 AMP 1101 B 1 
HETATM 20 N N1 AMP . . . D 4 132.687 115.981 176.23 1 141.05 ? N1 AMP 1101 B 1 
HETATM 21 C C2 AMP . . . D 4 133.275 115.916 175.025 1 140.14 ? C2 AMP 1101 B 1 
HETATM 22 N N3 AMP . . . D 4 134.487 115.371 174.837 1 139.72 ? N3 AMP 1101 B 1 
HETATM 23 C C4 AMP . . . D 4 135.195 114.858 175.867 1 142.33 ? C4 AMP 1101 B 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           29 
_model_server_stats.create_model_time_ms    23 
_model_server_stats.query_time_ms           302 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           23 
#