data_7KDN
#
_model_server_result.job_id            ms06YhF7_XHJLuuVmxDy4Q 
_model_server_result.datetime_utc      '2024-10-25 20:24:45' 
_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          7kdn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":701}' 
#
_entry.id    7KDN 
#
_exptl.entry_id    7KDN 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              389.301 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-MONOPHOSPHATE-PROPYL ESTER" 
_entity.pdbx_number_of_molecules    6 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         68.15 
_cell.angle_beta          66.55 
_cell.angle_gamma         62.22 
_cell.entry_id            7KDN 
_cell.length_a            103.79 
_cell.length_b            104.21 
_cell.length_c            125.65 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7KDN 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 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
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
? monomeric 1 author_defined_assembly 5 
? monomeric 1 author_defined_assembly 6 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,G,M 1 1 
B,H,N 2 1 
C,I,O 3 1 
D,J,P 4 1 
E,K,Q 5 1 
F,L,R 6 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 G N N 
? 2 H N N 
? 2 I N N 
? 2 J N N 
? 2 K N N 
? 2 L N N 
#
_chem_comp.formula           'C13 H20 N5 O7 P' 
_chem_comp.formula_weight    389.301 
_chem_comp.id                PRX 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "ADENOSINE-5'-MONOPHOSPHATE-PROPYL ESTER" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "ADENOSINE-5'-PROPYLPHOSPHATE" 
#
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
O2' C2' PRX sing 277 n n 
O2' H2' PRX sing 278 n n 
C2' C1' PRX sing 279 n n 
C2' C3' PRX sing 280 n n 
C2' H1 PRX sing 281 n n 
C1' O4' PRX sing 282 n n 
C1' N9 PRX sing 283 n n 
C1' H1' PRX sing 284 n n 
O4' C4' PRX sing 285 n n 
C4' C5' PRX sing 286 n n 
C4' C3' PRX sing 287 n n 
C4' H4' PRX sing 288 n n 
C5' O5' PRX sing 289 n n 
C5' "H5'1" PRX sing 290 n n 
C5' "H5'2" PRX sing 291 n n 
O5' P PRX sing 292 n n 
P O1P PRX doub 293 n n 
P O2P PRX sing 294 n n 
P O3P PRX sing 295 n n 
O2P H2P PRX sing 296 n n 
O3P C1P PRX sing 297 n n 
C1P C2P PRX sing 298 n n 
C1P H1P1 PRX sing 299 n n 
C1P H1P2 PRX sing 300 n n 
C2P C3P PRX sing 301 n n 
C2P H2P1 PRX sing 302 n n 
C2P H2P2 PRX sing 303 n n 
C3P H3P1 PRX sing 304 n n 
C3P H3P2 PRX sing 305 n n 
C3P H3P3 PRX sing 306 n n 
C3' O3' PRX sing 307 n n 
C3' H3' PRX sing 308 n n 
O3' H2 PRX sing 309 n n 
N9 C8 PRX sing 310 n y 
N9 C4 PRX sing 311 n y 
C8 N7 PRX doub 312 n y 
C8 H8 PRX sing 313 n n 
N7 C5 PRX sing 314 n y 
C5 C4 PRX doub 315 n y 
C5 C6 PRX sing 316 n y 
C4 N3 PRX sing 317 n y 
N3 C2 PRX doub 318 n y 
C2 N1 PRX sing 319 n y 
C2 H3 PRX sing 320 n n 
N1 C6 PRX doub 321 n y 
C6 N6 PRX sing 322 n n 
N6 HN61 PRX sing 323 n n 
N6 HN62 PRX sing 324 n n 
#
_atom_sites.entry_id                     7KDN 
_atom_sites.fract_transf_matrix[1][1]    0.009635 
_atom_sites.fract_transf_matrix[1][2]    -0.005075 
_atom_sites.fract_transf_matrix[1][3]    -0.003096 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010846 
_atom_sites.fract_transf_matrix[2][3]    -0.002562 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.008914 
_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
G 2 PRX A 1 701 695 PRX PRX . 
H 2 PRX B 1 701 695 PRX PRX . 
I 2 PRX C 1 701 695 PRX PRX . 
J 2 PRX D 1 701 695 PRX PRX . 
K 2 PRX E 1 701 695 PRX PRX . 
L 2 PRX F 1 701 695 PRX PRX . 
M 3 HOH A 1 801 11 HOH HOH . 
M 3 HOH A 2 802 14 HOH HOH . 
M 3 HOH A 3 803 1 HOH HOH . 
M 3 HOH A 4 804 6 HOH HOH . 
M 3 HOH A 5 805 12 HOH HOH . 
M 3 HOH A 6 806 3 HOH HOH . 
M 3 HOH A 7 807 2 HOH HOH . 
M 3 HOH A 8 808 10 HOH HOH . 
M 3 HOH A 9 809 5 HOH HOH . 
M 3 HOH A 10 810 13 HOH HOH . 
M 3 HOH A 11 811 9 HOH HOH . 
N 3 HOH B 1 801 15 HOH HOH . 
N 3 HOH B 2 802 18 HOH HOH . 
N 3 HOH B 3 803 16 HOH HOH . 
N 3 HOH B 4 804 17 HOH HOH . 
N 3 HOH B 5 805 19 HOH HOH . 
N 3 HOH B 6 806 20 HOH HOH . 
O 3 HOH C 1 801 21 HOH HOH . 
O 3 HOH C 2 802 22 HOH HOH . 
O 3 HOH C 3 803 8 HOH HOH . 
O 3 HOH C 4 804 42 HOH HOH . 
O 3 HOH C 5 805 23 HOH HOH . 
P 3 HOH D 1 801 29 HOH HOH . 
P 3 HOH D 2 802 26 HOH HOH . 
P 3 HOH D 3 803 7 HOH HOH . 
P 3 HOH D 4 804 31 HOH HOH . 
P 3 HOH D 5 805 28 HOH HOH . 
P 3 HOH D 6 806 27 HOH HOH . 
P 3 HOH D 7 807 25 HOH HOH . 
P 3 HOH D 8 808 24 HOH HOH . 
P 3 HOH D 9 809 30 HOH HOH . 
P 3 HOH D 10 810 43 HOH HOH . 
Q 3 HOH E 1 801 34 HOH HOH . 
Q 3 HOH E 2 802 32 HOH HOH . 
Q 3 HOH E 3 803 35 HOH HOH . 
Q 3 HOH E 4 804 33 HOH HOH . 
Q 3 HOH E 5 805 4 HOH HOH . 
R 3 HOH F 1 801 39 HOH HOH . 
R 3 HOH F 2 802 40 HOH HOH . 
R 3 HOH F 3 803 36 HOH HOH . 
R 3 HOH F 4 804 37 HOH HOH . 
R 3 HOH F 5 805 38 HOH HOH . 
R 3 HOH F 6 806 41 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 O2' PRX . . . K 2 -48.989 -6.302 52.015 1 66.94 ? O2' PRX 701 E 1 
HETATM 2 C C2' PRX . . . K 2 -48.595 -7.216 51.003 1 60.89 ? C2' PRX 701 E 1 
HETATM 3 C C1' PRX . . . K 2 -47.163 -7.668 51.295 1 61.34 ? C1' PRX 701 E 1 
HETATM 4 O O4' PRX . . . K 2 -47.234 -8.844 52.072 1 63.59 ? O4' PRX 701 E 1 
HETATM 5 C C4' PRX . . . K 2 -48.619 -9.228 52.266 1 62.6 ? C4' PRX 701 E 1 
HETATM 6 C C5' PRX . . . K 2 -48.73 -10.732 52.299 1 57.6 ? C5' PRX 701 E 1 
HETATM 7 O O5' PRX . . . K 2 -48.288 -11.255 53.543 1 60.56 ? O5' PRX 701 E 1 
HETATM 8 P P PRX . . . K 2 -48.343 -12.818 53.84 1 60.62 ? P PRX 701 E 1 
HETATM 9 O O1P PRX . . . K 2 -49.74 -13.255 53.657 1 58.96 ? O1P PRX 701 E 1 
HETATM 10 O O2P PRX . . . K 2 -47.646 -13.068 55.178 1 60.86 ? O2P PRX 701 E 1 
HETATM 11 O O3P PRX . . . K 2 -47.401 -13.448 52.733 1 58.84 ? O3P PRX 701 E 1 
HETATM 12 C C1P PRX . . . K 2 -45.973 -13.66 52.859 1 58.01 ? C1P PRX 701 E 1 
HETATM 13 C C2P PRX . . . K 2 -45.392 -13.359 51.512 1 58.5 ? C2P PRX 701 E 1 
HETATM 14 C C3P PRX . . . K 2 -46.317 -13.741 50.383 1 56.7 ? C3P PRX 701 E 1 
HETATM 15 C C3' PRX . . . K 2 -49.36 -8.525 51.138 1 63.3 ? C3' PRX 701 E 1 
HETATM 16 O O3' PRX . . . K 2 -50.743 -8.347 51.401 1 61.7 ? O3' PRX 701 E 1 
HETATM 17 N N9 PRX . . . K 2 -46.414 -7.965 50.061 1 61.54 ? N9 PRX 701 E 1 
HETATM 18 C C8 PRX . . . K 2 -46.14 -9.202 49.537 1 63.87 ? C8 PRX 701 E 1 
HETATM 19 N N7 PRX . . . K 2 -45.444 -9.172 48.428 1 65.19 ? N7 PRX 701 E 1 
HETATM 20 C C5 PRX . . . K 2 -45.245 -7.817 48.201 1 66.54 ? C5 PRX 701 E 1 
HETATM 21 C C4 PRX . . . K 2 -45.839 -7.064 49.2 1 67.37 ? C4 PRX 701 E 1 
HETATM 22 N N3 PRX . . . K 2 -45.848 -5.729 49.294 1 67.66 ? N3 PRX 701 E 1 
HETATM 23 C C2 PRX . . . K 2 -45.193 -5.17 48.274 1 72.04 ? C2 PRX 701 E 1 
HETATM 24 N N1 PRX . . . K 2 -44.573 -5.764 47.25 1 74.12 ? N1 PRX 701 E 1 
HETATM 25 C C6 PRX . . . K 2 -44.579 -7.113 47.181 1 70.64 ? C6 PRX 701 E 1 
HETATM 26 N N6 PRX . . . K 2 -43.953 -7.701 46.156 1 69.24 ? N6 PRX 701 E 1 
#
_model_server_stats.io_time_ms              115 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    40 
_model_server_stats.query_time_ms           278 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           26 
#