data_9B5I
#
_model_server_result.job_id            XamDYWxsE2usZzY3q72jsA 
_model_server_result.datetime_utc      '2024-11-08 13:42:57' 
_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          9b5i 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":101}' 
#
_entry.id    9B5I 
#
_exptl.entry_id    9B5I 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              347.221 
_entity.id                          7 
_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            9B5I 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9B5I 
_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,G,H,I 
_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                      7 
_struct_asym.id                             H 
_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 I C03 A1AIV . D A1AIV 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.773 ? 
covale ? covale2 B OXT GLY 76 B GLY 76 1_555 H P AMP . B AMP 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.655 ? 
covale ? covale3 C SG CYS 85 C CYS 85 1_555 I C03 A1AIV . D A1AIV 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.772 ? 
covale ? covale4 D C GLY 1 D GLY 75 1_555 I N01 A1AIV . D A1AIV 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.317 ? 
metalc ? metalc1 A OD2 ASP 454 A ASP 465 1_555 F MG MG . A MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
metalc ? metalc2 A OD2 ASP 526 A ASP 537 1_555 E MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? 
metalc ? metalc3 E MG MG . A MG 1101 1_555 G O2 POP . A POP 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? 
metalc ? metalc4 E MG MG . A MG 1101 1_555 G O6 POP . A POP 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? 
metalc ? metalc5 E MG MG . A MG 1101 1_555 H O1P AMP . B AMP 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? 
metalc ? metalc6 F MG MG . A MG 1102 1_555 G O4 POP . A POP 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? 
#
_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                     9B5I 
_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 MG A 1 1101 1101 MG MG . 
F 5 MG A 1 1102 1102 MG MG . 
G 6 POP A 1 1103 1103 POP POP . 
H 7 AMP B 1 101 1104 AMP AMP . 
I 8 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 . . . H 7 214.603 203.993 212.283 1 94.05 ? P AMP 101 B 1 
HETATM 2 O O1P AMP . . . H 7 214.336 204.407 210.858 1 101.85 ? O1P AMP 101 B 1 
HETATM 3 O O2P AMP . . . H 7 215.048 205.145 213.146 1 96.15 ? O2P AMP 101 B 1 
HETATM 4 O O5' AMP . . . H 7 215.743 202.884 212.283 1 90.67 ? O5' AMP 101 B 1 
HETATM 5 C C5' AMP . . . H 7 215.445 201.663 211.619 1 87.89 ? C5' AMP 101 B 1 
HETATM 6 C C4' AMP . . . H 7 216.639 200.749 211.727 1 92.38 ? C4' AMP 101 B 1 
HETATM 7 O O4' AMP . . . H 7 216.336 199.48 211.096 1 98.64 ? O4' AMP 101 B 1 
HETATM 8 C C3' AMP . . . H 7 217.915 201.274 211.058 1 94.82 ? C3' AMP 101 B 1 
HETATM 9 O O3' AMP . . . H 7 219.011 201.165 211.963 1 93.44 ? O3' AMP 101 B 1 
HETATM 10 C C2' AMP . . . H 7 218.129 200.325 209.877 1 87.24 ? C2' AMP 101 B 1 
HETATM 11 O O2' AMP . . . H 7 219.477 200.11 209.527 1 86.6 ? O2' AMP 101 B 1 
HETATM 12 C C1' AMP . . . H 7 217.459 199.052 210.367 1 91.35 ? C1' AMP 101 B 1 
HETATM 13 N N9 AMP . . . H 7 217.02 198.157 209.296 1 94.56 ? N9 AMP 101 B 1 
HETATM 14 C C8 AMP . . . H 7 216.169 198.47 208.303 1 90.1 ? C8 AMP 101 B 1 
HETATM 15 N N7 AMP . . . H 7 215.99 197.411 207.476 1 86.11 ? N7 AMP 101 B 1 
HETATM 16 C C5 AMP . . . H 7 216.742 196.399 207.94 1 91.55 ? C5 AMP 101 B 1 
HETATM 17 C C6 AMP . . . H 7 217.014 195.002 207.544 1 89.4 ? C6 AMP 101 B 1 
HETATM 18 N N6 AMP . . . H 7 216.427 194.465 206.451 1 88.68 ? N6 AMP 101 B 1 
HETATM 19 N N1 AMP . . . H 7 217.866 194.287 208.308 1 85.97 ? N1 AMP 101 B 1 
HETATM 20 C C2 AMP . . . H 7 218.457 194.805 209.398 1 80.5 ? C2 AMP 101 B 1 
HETATM 21 N N3 AMP . . . H 7 218.25 196.066 209.808 1 80.25 ? N3 AMP 101 B 1 
HETATM 22 C C4 AMP . . . H 7 217.422 196.897 209.137 1 91.33 ? C4 AMP 101 B 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    36 
_model_server_stats.query_time_ms           321 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           22 
#