data_8I8D
#
_model_server_result.job_id            x4fyG9EF6dQ9eNUPoEkLQA 
_model_server_result.datetime_utc      '2025-07-05 12:21:22' 
_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          8i8d 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"V","auth_seq_id":602}' 
#
_entry.id    8I8D 
#
_exptl.entry_id    8I8D 
_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    6 
_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            8I8D 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8I8D 
_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    dodecameric 
_pdbx_struct_assembly.oligomeric_count      12 
_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,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 N N N 
? 4 P N N 
? 4 R N N 
? 4 T N N 
? 4 V N N 
? 4 X 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
covale ? covale1 M CBC OP3 . A OP3 601 1_555 Z S12 PN7 . a PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.787 ? 
covale ? covale2 O CBC OP3 . B OP3 601 1_555 AA S12 PN7 . b PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.795 ? 
covale ? covale3 Q CBC OP3 . C OP3 601 1_555 BA S12 PN7 . c PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.809 ? 
covale ? covale4 S CBC OP3 . D OP3 601 1_555 CA S12 PN7 . d PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.801 ? 
covale ? covale5 U CBC OP3 . E OP3 601 1_555 DA S12 PN7 . e PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.806 ? 
covale ? covale6 W CBC OP3 . F OP3 601 1_555 Y S12 PN7 . f PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.797 ? 
covale ? covale7 G CB SER 37 f SER 36 1_555 Y O4P PN7 . f PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 ? 
covale ? covale8 H CB SER 37 a SER 36 1_555 Z O2P PN7 . a PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 ? 
covale ? covale9 I CB SER 37 b SER 36 1_555 AA O4P PN7 . b PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 ? 
covale ? covale10 J CB SER 37 c SER 36 1_555 BA O2P PN7 . c PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 ? 
covale ? covale11 K CB SER 37 d SER 36 1_555 CA O4P PN7 . d PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.384 ? 
covale ? covale12 L CB SER 37 e SER 36 1_555 DA O2P PN7 . e PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.384 ? 
#
_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                     8I8D 
_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
M 3 OP3 A 1 601 601 OP3 MC7 . 
N 4 AMP A 1 602 701 AMP AMP . 
O 3 OP3 B 1 601 601 OP3 MC7 . 
P 4 AMP B 1 602 701 AMP AMP . 
Q 3 OP3 C 1 601 601 OP3 MC7 . 
R 4 AMP C 1 602 701 AMP AMP . 
S 3 OP3 D 1 601 601 OP3 MC7 . 
T 4 AMP D 1 602 701 AMP AMP . 
U 3 OP3 E 1 601 601 OP3 MC7 . 
V 4 AMP E 1 602 701 AMP AMP . 
W 3 OP3 F 1 601 601 OP3 MC7 . 
X 4 AMP F 1 602 701 AMP AMP . 
Y 5 PN7 f 1 101 101 PN7 PNS . 
Z 5 PN7 a 1 101 101 PN7 PNS . 
AA 5 PN7 b 1 101 101 PN7 PNS . 
BA 5 PN7 c 1 101 101 PN7 PNS . 
CA 5 PN7 d 1 101 101 PN7 PNS . 
DA 5 PN7 e 1 101 101 PN7 PNS . 
#
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 . . . V 4 181.058 200.204 156.066 1 78.52 ? P AMP 602 E 1 
HETATM 2 O O1P AMP . . . V 4 179.955 199.45 155.464 1 66.47 -1 O1P AMP 602 E 1 
HETATM 3 O O2P AMP . . . V 4 180.491 200.794 157.279 1 66.5 ? O2P AMP 602 E 1 
HETATM 4 O O3P AMP . . . V 4 181.966 199.173 156.559 1 66.65 ? O3P AMP 602 E 1 
HETATM 5 O O5' AMP . . . V 4 181.77 201.3 155.045 1 70.67 ? O5' AMP 602 E 1 
HETATM 6 C C5' AMP . . . V 4 183.156 201.174 154.771 1 66.39 ? C5' AMP 602 E 1 
HETATM 7 C C4' AMP . . . V 4 183.409 201.646 153.378 1 69.46 ? C4' AMP 602 E 1 
HETATM 8 O O4' AMP . . . V 4 184.579 202.551 153.346 1 69.38 ? O4' AMP 602 E 1 
HETATM 9 C C3' AMP . . . V 4 183.749 200.524 152.46 1 67.53 ? C3' AMP 602 E 1 
HETATM 10 O O3' AMP . . . V 4 182.572 199.943 151.901 1 69.22 ? O3' AMP 602 E 1 
HETATM 11 C C2' AMP . . . V 4 184.568 201.164 151.411 1 69.11 ? C2' AMP 602 E 1 
HETATM 12 O O2' AMP . . . V 4 183.733 201.709 150.386 1 70.07 ? O2' AMP 602 E 1 
HETATM 13 C C1' AMP . . . V 4 185.309 202.262 152.102 1 69.21 ? C1' AMP 602 E 1 
HETATM 14 N N9 AMP . . . V 4 186.649 201.856 152.403 1 72.07 ? N9 AMP 602 E 1 
HETATM 15 C C8 AMP . . . V 4 186.918 201.306 153.505 1 69.32 ? C8 AMP 602 E 1 
HETATM 16 N N7 AMP . . . V 4 188.26 201.003 153.591 1 64.46 ? N7 AMP 602 E 1 
HETATM 17 C C5 AMP . . . V 4 188.74 201.524 152.227 1 65.94 ? C5 AMP 602 E 1 
HETATM 18 C C6 AMP . . . V 4 189.935 201.589 151.558 1 66.74 ? C6 AMP 602 E 1 
HETATM 19 N N6 AMP . . . V 4 191.146 201.065 152.194 1 68.07 ? N6 AMP 602 E 1 
HETATM 20 N N1 AMP . . . V 4 190.012 202.114 150.349 1 64.98 ? N1 AMP 602 E 1 
HETATM 21 C C2 AMP . . . V 4 188.888 202.589 149.788 1 65.6 ? C2 AMP 602 E 1 
HETATM 22 N N3 AMP . . . V 4 187.619 202.606 150.308 1 66.62 ? N3 AMP 602 E 1 
HETATM 23 C C4 AMP . . . V 4 187.611 202.058 151.535 1 68.66 ? C4 AMP 602 E 1 
#
_model_server_stats.io_time_ms              38 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    34 
_model_server_stats.query_time_ms           331 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           23 
#