data_4IMY
#
_model_server_result.job_id            fT0hAdPzuekjS8_HR9Orsg 
_model_server_result.datetime_utc      '2025-08-01 00:27:21' 
_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          4imy 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":401}' 
#
_entry.id    4IMY 
#
_exptl.entry_id    4IMY 
_exptl.method      'X-RAY DIFFRACTION' 
#
_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    3 
_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            4IMY 
_cell.length_a            100.691 
_cell.length_b            126.298 
_cell.length_c            195.626 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4IMY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
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 trimeric 3 author_and_software_defined_assembly 1 
PISA trimeric 3 author_and_software_defined_assembly 2 
PISA trimeric 3 author_and_software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,G,J,M,N 1 1 
C,D,H,K,O,P 2 1 
E,F,I,L,Q,R 3 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
? 4 J N N 
? 4 K N N 
? 4 L 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 A C TYR 187 A TYR 185 1_555 A N TPO 188 A TPO 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale2 A C TPO 188 A TPO 186 1_555 A N ASN 189 A ASN 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale3 C C TYR 187 C TYR 185 1_555 C N TPO 188 C TPO 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
covale ? covale4 C C TPO 188 C TPO 186 1_555 C N ASN 189 C ASN 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale5 E C TYR 187 E TYR 185 1_555 E N TPO 188 E TPO 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale6 E C TPO 188 E TPO 186 1_555 E N ASN 189 E ASN 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? 
#
_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                     4IMY 
_atom_sites.fract_transf_matrix[1][1]    0.009931 
_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]    0.007918 
_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]    0.005112 
_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
J 4 AMP A 1 401 331 AMP AMP . 
K 4 AMP C 1 401 331 AMP AMP . 
L 4 AMP E 1 401 331 AMP AMP . 
M 5 HOH A 1 501 2 HOH HOH . 
M 5 HOH A 2 502 7 HOH HOH . 
M 5 HOH A 3 503 14 HOH HOH . 
N 5 HOH B 1 301 3 HOH HOH . 
N 5 HOH B 2 302 10 HOH HOH . 
O 5 HOH C 1 501 8 HOH HOH . 
O 5 HOH C 2 502 9 HOH HOH . 
O 5 HOH C 3 503 11 HOH HOH . 
O 5 HOH C 4 504 12 HOH HOH . 
O 5 HOH C 5 505 19 HOH HOH . 
P 5 HOH D 1 301 6 HOH HOH . 
P 5 HOH D 2 302 17 HOH HOH . 
P 5 HOH D 3 303 18 HOH HOH . 
Q 5 HOH E 1 501 1 HOH HOH . 
Q 5 HOH E 2 502 5 HOH HOH . 
Q 5 HOH E 3 503 13 HOH HOH . 
Q 5 HOH E 4 504 15 HOH HOH . 
Q 5 HOH E 5 505 16 HOH HOH . 
R 5 HOH F 1 301 4 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 P P AMP . . . J 4 12.338 8.064 45.569 1 371.2 ? P AMP 401 A 1 
HETATM 2 O O1P AMP . . . J 4 10.985 7.596 45.09 1 371.03 ? O1P AMP 401 A 1 
HETATM 3 O O2P AMP . . . J 4 12.371 8.505 47.012 1 370.86 ? O2P AMP 401 A 1 
HETATM 4 O O3P AMP . . . J 4 13.472 7.151 45.202 1 371.31 ? O3P AMP 401 A 1 
HETATM 5 O O5' AMP . . . J 4 12.602 9.408 44.752 1 167.26 ? O5' AMP 401 A 1 
HETATM 6 C C5' AMP . . . J 4 13.461 10.417 45.275 1 165.3 ? C5' AMP 401 A 1 
HETATM 7 C C4' AMP . . . J 4 13.587 11.602 44.346 1 164.19 ? C4' AMP 401 A 1 
HETATM 8 O O4' AMP . . . J 4 14.154 11.158 43.084 1 161.77 ? O4' AMP 401 A 1 
HETATM 9 C C3' AMP . . . J 4 12.28 12.315 44.001 1 161.71 ? C3' AMP 401 A 1 
HETATM 10 O O3' AMP . . . J 4 12.507 13.719 43.875 1 167.33 ? O3' AMP 401 A 1 
HETATM 11 C C2' AMP . . . J 4 11.911 11.718 42.647 1 144.86 ? C2' AMP 401 A 1 
HETATM 12 O O2' AMP . . . J 4 11.082 12.532 41.843 1 125.92 ? O2' AMP 401 A 1 
HETATM 13 C C1' AMP . . . J 4 13.287 11.496 42.019 1 150.08 ? C1' AMP 401 A 1 
HETATM 14 N N9 AMP . . . J 4 13.312 10.401 41.051 1 138.32 ? N9 AMP 401 A 1 
HETATM 15 C C8 AMP . . . J 4 13.076 9.113 41.364 1 139.09 ? C8 AMP 401 A 1 
HETATM 16 N N7 AMP . . . J 4 13.151 8.334 40.257 1 136.24 ? N7 AMP 401 A 1 
HETATM 17 C C5 AMP . . . J 4 13.434 9.132 39.216 1 124.13 ? C5 AMP 401 A 1 
HETATM 18 C C6 AMP . . . J 4 13.643 8.94 37.771 1 119.74 ? C6 AMP 401 A 1 
HETATM 19 N N6 AMP . . . J 4 13.558 7.7 37.247 1 127.94 ? N6 AMP 401 A 1 
HETATM 20 N N1 AMP . . . J 4 13.919 10.025 37.017 1 112.25 ? N1 AMP 401 A 1 
HETATM 21 C C2 AMP . . . J 4 14.002 11.254 37.554 1 111.08 ? C2 AMP 401 A 1 
HETATM 22 N N3 AMP . . . J 4 13.821 11.495 38.867 1 114.86 ? N3 AMP 401 A 1 
HETATM 23 C C4 AMP . . . J 4 13.536 10.497 39.736 1 124.18 ? C4 AMP 401 A 1 
HETATM 24 H "H5'1" AMP . . . J 4 13.073 10.755 46.238 1 198.36 ? "H5'1" AMP 401 A 1 
HETATM 25 H "H5'2" AMP . . . J 4 14.451 9.99 45.449 1 198.36 ? "H5'2" AMP 401 A 1 
HETATM 26 H H4' AMP . . . J 4 14.263 12.332 44.812 1 197.02 ? H4' AMP 401 A 1 
HETATM 27 H H3' AMP . . . J 4 11.506 12.088 44.748 1 194.05 ? H3' AMP 401 A 1 
HETATM 28 H HO3' AMP . . . J 4 11.676 14.162 43.656 1 200.8 ? HO3' AMP 401 A 1 
HETATM 29 H H2' AMP . . . J 4 11.435 10.741 42.809 1 173.83 ? H2' AMP 401 A 1 
HETATM 30 H HO2' AMP . . . J 4 10.242 12.684 42.297 1 151.1 ? HO2' AMP 401 A 1 
HETATM 31 H H1' AMP . . . J 4 13.619 12.43 41.544 1 180.09 ? H1' AMP 401 A 1 
HETATM 32 H H8 AMP . . . J 4 12.86 8.749 42.361 1 166.9 ? H8 AMP 401 A 1 
HETATM 33 H HN61 AMP . . . J 4 13.704 7.559 36.257 1 153.53 ? HN61 AMP 401 A 1 
HETATM 34 H HN62 AMP . . . J 4 13.352 6.912 37.844 1 153.53 ? HN62 AMP 401 A 1 
HETATM 35 H H2 AMP . . . J 4 14.225 12.09 36.902 1 133.29 ? H2 AMP 401 A 1 
#
_model_server_stats.io_time_ms              41 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    41 
_model_server_stats.query_time_ms           287 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           35 
#