data_3M4P
#
_model_server_result.job_id            jDWE5NuJ9OKtEtij3qAF9Q 
_model_server_result.datetime_utc      '2025-02-16 22:44:26' 
_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          3m4p 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":500}' 
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_entry.id    3M4P 
#
_exptl.entry_id    3M4P 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              462.332 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "4-AMINO-1,4-DIOXOBUTAN-2-AMINIUM ADENOSINE-5'-MONOPHOSPHATE" 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90.45 
_cell.angle_gamma         90 
_cell.entry_id            3M4P 
_cell.length_a            99.426 
_cell.length_b            58.816 
_cell.length_c            181.259 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3M4P 
_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
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,G,H,I,J,K,L,M,W,X 1 1 
C,D,N,O,P,Q,R,S,T,U,V 2 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
? 2 E N N 
? 2 J N N 
? 2 N N N 
? 2 R N N 
#
_chem_comp.formula           'C14 H21 N7 O9 P 1' 
_chem_comp.formula_weight    462.332 
_chem_comp.id                4AD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "4-AMINO-1,4-DIOXOBUTAN-2-AMINIUM ADENOSINE-5'-MONOPHOSPHATE" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ASNAMP 
#
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
O2P P 4AD doub 1 n n 
P O1P 4AD sing 2 n n 
P O3P 4AD sing 3 n n 
P O5' 4AD sing 4 n n 
O1P HOP1 4AD sing 5 n n 
O3P C 4AD sing 6 n n 
C O 4AD doub 7 n n 
C CA 4AD sing 8 n n 
CA N 4AD sing 9 n n 
CA CB 4AD sing 10 n n 
CA HA 4AD sing 11 n n 
N HN1 4AD sing 12 n n 
N HN2 4AD sing 13 n n 
N HN3 4AD sing 14 n n 
CB CG 4AD sing 15 n n 
CB HB1 4AD sing 16 n n 
CB HB2 4AD sing 17 n n 
CG OD1 4AD doub 18 n n 
CG ND2 4AD sing 19 n n 
ND2 HD21 4AD sing 20 n n 
ND2 HD22 4AD sing 21 n n 
O5' C5' 4AD sing 22 n n 
C5' C4' 4AD sing 23 n n 
C5' "H5'1" 4AD sing 24 n n 
C5' "H5'2" 4AD sing 25 n n 
C4' C3' 4AD sing 26 n n 
C4' O4' 4AD sing 27 n n 
C4' H4' 4AD sing 28 n n 
C3' O3' 4AD sing 29 n n 
C3' C2' 4AD sing 30 n n 
C3' H3' 4AD sing 31 n n 
O3' H2 4AD sing 32 n n 
C2' O2' 4AD sing 33 n n 
C2' C1' 4AD sing 34 n n 
C2' H2' 4AD sing 35 n n 
O2' H1 4AD sing 36 n n 
C1' O4' 4AD sing 37 n n 
C1' N9 4AD sing 38 n n 
C1' H1' 4AD sing 39 n n 
N9 C4 4AD sing 40 n y 
N9 C8 4AD sing 41 n y 
C4 N3 4AD sing 42 n y 
C4 C5 4AD doub 43 n y 
N3 C2 4AD doub 44 n y 
C2 N1 4AD sing 45 n y 
C2 H3 4AD sing 46 n n 
N1 C6 4AD doub 47 n y 
C6 N6 4AD sing 48 n n 
C6 C5 4AD sing 49 n y 
N6 HN61 4AD sing 50 n n 
N6 HN62 4AD sing 51 n n 
C5 N7 4AD sing 52 n y 
N7 C8 4AD doub 53 n y 
C8 H8 4AD sing 54 n n 
#
_atom_sites.entry_id                     3M4P 
_atom_sites.fract_transf_matrix[1][1]    0.010058 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000079 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017002 
_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]    0.005517 
_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 2 4AD A 1 500 500 4AD 4AD . 
F 3 SO4 A 1 511 511 SO4 SO4 . 
G 3 SO4 A 1 512 512 SO4 SO4 . 
H 3 SO4 A 1 513 513 SO4 SO4 . 
I 4 GOL A 1 521 521 GOL GOL . 
J 2 4AD B 1 500 500 4AD 4AD . 
K 3 SO4 B 1 511 511 SO4 SO4 . 
L 3 SO4 B 1 512 512 SO4 SO4 . 
M 3 SO4 B 1 513 513 SO4 SO4 . 
N 2 4AD C 1 500 500 4AD 4AD . 
O 3 SO4 C 1 511 511 SO4 SO4 . 
P 3 SO4 C 1 512 512 SO4 SO4 . 
Q 3 SO4 C 1 513 513 SO4 SO4 . 
R 2 4AD D 1 500 500 4AD 4AD . 
S 3 SO4 D 1 511 511 SO4 SO4 . 
T 3 SO4 D 1 512 512 SO4 SO4 . 
U 3 SO4 D 1 513 513 SO4 SO4 . 
V 4 GOL D 1 521 521 GOL GOL . 
W 5 HOH A 1 531 531 HOH HOH . 
X 5 HOH B 1 531 531 HOH HOH . 
#
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 O O2P 4AD . . . J 2 16.049 -7.888 63.4 1 103.69 ? O2P 4AD 500 B 1 
HETATM 2 P P 4AD . . . J 2 15.654 -6.509 63.779 1 102.78 ? P 4AD 500 B 1 
HETATM 3 O O1P 4AD . . . J 2 14.419 -5.919 63.212 1 101.68 ? O1P 4AD 500 B 1 
HETATM 4 O O3P 4AD . . . J 2 16.912 -5.531 63.501 1 100.24 ? O3P 4AD 500 B 1 
HETATM 5 C C 4AD . . . J 2 16.949 -5.082 62.212 1 98.83 ? C 4AD 500 B 1 
HETATM 6 O O 4AD . . . J 2 16.33 -4.09 61.825 1 98.56 ? O 4AD 500 B 1 
HETATM 7 C CA 4AD . . . J 2 17.87 -5.871 61.26 1 98.02 ? CA 4AD 500 B 1 
HETATM 8 N N 4AD . . . J 2 18.02 -5.117 59.999 1 96.96 ? N 4AD 500 B 1 
HETATM 9 C CB 4AD . . . J 2 19.239 -6.078 61.941 1 97.42 ? CB 4AD 500 B 1 
HETATM 10 C CG 4AD . . . J 2 20.095 -7.217 61.367 1 96.35 ? CG 4AD 500 B 1 
HETATM 11 O OD1 4AD . . . J 2 19.592 -8.264 60.966 1 95.83 ? OD1 4AD 500 B 1 
HETATM 12 N ND2 4AD . . . J 2 21.409 -6.986 61.381 1 96.01 ? ND2 4AD 500 B 1 
HETATM 13 O O5' 4AD . . . J 2 15.529 -6.429 65.397 1 100.81 ? O5' 4AD 500 B 1 
HETATM 14 C C5' 4AD . . . J 2 16.143 -7.406 66.252 1 98.67 ? C5' 4AD 500 B 1 
HETATM 15 C C4' 4AD . . . J 2 15.364 -7.576 67.57 1 97.45 ? C4' 4AD 500 B 1 
HETATM 16 C C3' 4AD . . . J 2 13.899 -7.91 67.313 1 97.96 ? C3' 4AD 500 B 1 
HETATM 17 O O3' 4AD . . . J 2 13.754 -9.312 67.051 1 96.27 ? O3' 4AD 500 B 1 
HETATM 18 C C2' 4AD . . . J 2 13.256 -7.509 68.644 1 97.92 ? C2' 4AD 500 B 1 
HETATM 19 O O2' 4AD . . . J 2 13.41 -8.55 69.618 1 97.22 ? O2' 4AD 500 B 1 
HETATM 20 C C1' 4AD . . . J 2 14.094 -6.302 69.081 1 96.94 ? C1' 4AD 500 B 1 
HETATM 21 O O4' 4AD . . . J 2 15.312 -6.32 68.278 1 97.39 ? O4' 4AD 500 B 1 
HETATM 22 N N9 4AD . . . J 2 13.392 -5.026 68.812 1 96.57 ? N9 4AD 500 B 1 
HETATM 23 C C4 4AD . . . J 2 12.917 -4.144 69.691 1 95.89 ? C4 4AD 500 B 1 
HETATM 24 N N3 4AD . . . J 2 12.951 -4.115 71.037 1 95.8 ? N3 4AD 500 B 1 
HETATM 25 C C2 4AD . . . J 2 12.395 -3.112 71.704 1 96.2 ? C2 4AD 500 B 1 
HETATM 26 N N1 4AD . . . J 2 11.794 -2.106 71.074 1 95.82 ? N1 4AD 500 B 1 
HETATM 27 C C6 4AD . . . J 2 11.719 -2.07 69.73 1 94.4 ? C6 4AD 500 B 1 
HETATM 28 N N6 4AD . . . J 2 11.113 -1.065 69.1 1 93.34 ? N6 4AD 500 B 1 
HETATM 29 C C5 4AD . . . J 2 12.289 -3.102 68.998 1 95.46 ? C5 4AD 500 B 1 
HETATM 30 N N7 4AD . . . J 2 12.365 -3.318 67.686 1 96.86 ? N7 4AD 500 B 1 
HETATM 31 C C8 4AD . . . J 2 13.138 -4.543 67.445 1 97.41 ? C8 4AD 500 B 1 
#
_model_server_stats.io_time_ms              281 
_model_server_stats.parse_time_ms           66 
_model_server_stats.create_model_time_ms    35 
_model_server_stats.query_time_ms           342 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           31 
#