data_3X09
#
_model_server_result.job_id            5OY7ij9Dfm05lS1-lGUR6g 
_model_server_result.datetime_utc      '2024-11-18 00:18:20' 
_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          3x09 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":502}' 
#
_entry.id    3X09 
#
_exptl.entry_id    3X09 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              347.221 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'ADENOSINE 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 
_cell.angle_gamma         90 
_cell.entry_id            3X09 
_cell.length_a            108.271 
_cell.length_b            183.424 
_cell.length_c            107.275 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3X09 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H 
_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    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 C N N 
? 2 D N N 
? 2 E N N 
? 2 F N N 
#
_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                     3X09 
_atom_sites.fract_transf_matrix[1][1]    0.009236 
_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]    0.005452 
_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]    0.009322 
_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
C 2 AMP A 1 501 501 AMP AMP . 
D 2 AMP A 1 502 502 AMP AMP . 
E 2 AMP A 1 503 503 AMP AMP . 
F 2 AMP B 1 501 501 AMP AMP . 
G 3 HOH A 1 601 601 HOH HOH . 
G 3 HOH A 2 602 602 HOH HOH . 
G 3 HOH A 3 603 603 HOH HOH . 
G 3 HOH A 4 604 604 HOH HOH . 
G 3 HOH A 5 605 605 HOH HOH . 
G 3 HOH A 6 606 606 HOH HOH . 
G 3 HOH A 7 607 607 HOH HOH . 
G 3 HOH A 8 608 608 HOH HOH . 
G 3 HOH A 9 609 609 HOH HOH . 
G 3 HOH A 10 610 610 HOH HOH . 
G 3 HOH A 11 611 611 HOH HOH . 
G 3 HOH A 12 612 612 HOH HOH . 
G 3 HOH A 13 613 613 HOH HOH . 
G 3 HOH A 14 614 614 HOH HOH . 
G 3 HOH A 15 615 615 HOH HOH . 
G 3 HOH A 16 616 616 HOH HOH . 
G 3 HOH A 17 617 617 HOH HOH . 
G 3 HOH A 18 618 618 HOH HOH . 
G 3 HOH A 19 619 619 HOH HOH . 
G 3 HOH A 20 620 620 HOH HOH . 
G 3 HOH A 21 621 621 HOH HOH . 
G 3 HOH A 22 622 622 HOH HOH . 
G 3 HOH A 23 623 623 HOH HOH . 
H 3 HOH B 1 601 601 HOH HOH . 
H 3 HOH B 2 602 602 HOH HOH . 
H 3 HOH B 3 603 603 HOH HOH . 
H 3 HOH B 4 604 604 HOH HOH . 
H 3 HOH B 5 605 605 HOH HOH . 
H 3 HOH B 6 606 606 HOH HOH . 
H 3 HOH B 7 607 607 HOH HOH . 
H 3 HOH B 8 608 608 HOH HOH . 
H 3 HOH B 9 609 609 HOH HOH . 
H 3 HOH B 10 610 610 HOH HOH . 
H 3 HOH B 11 611 611 HOH HOH . 
H 3 HOH B 12 612 612 HOH HOH . 
H 3 HOH B 13 613 613 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 . . . D 2 24.244 67.22 22.087 1 63.47 ? P AMP 502 A 1 
HETATM 2 O O1P AMP . . . D 2 24.29 65.952 21.284 1 54.85 ? O1P AMP 502 A 1 
HETATM 3 O O2P AMP . . . D 2 24.524 67.124 23.563 1 79.43 ? O2P AMP 502 A 1 
HETATM 4 O O3P AMP . . . D 2 22.911 67.903 21.845 1 58.14 ? O3P AMP 502 A 1 
HETATM 5 O O5' AMP . . . D 2 25.238 68.268 21.455 1 64.39 ? O5' AMP 502 A 1 
HETATM 6 C C5' AMP . . . D 2 25.027 69.662 21.576 1 58.17 ? C5' AMP 502 A 1 
HETATM 7 C C4' AMP . . . D 2 26.196 70.414 20.995 1 69.38 ? C4' AMP 502 A 1 
HETATM 8 O O4' AMP . . . D 2 27.3 70.365 21.945 1 57.71 ? O4' AMP 502 A 1 
HETATM 9 C C3' AMP . . . D 2 26.757 69.835 19.703 1 56 ? C3' AMP 502 A 1 
HETATM 10 O O3' AMP . . . D 2 27.441 70.855 18.991 1 63.56 ? O3' AMP 502 A 1 
HETATM 11 C C2' AMP . . . D 2 27.758 68.814 20.216 1 54.68 ? C2' AMP 502 A 1 
HETATM 12 O O2' AMP . . . D 2 28.758 68.449 19.288 1 53.2 ? O2' AMP 502 A 1 
HETATM 13 C C1' AMP . . . D 2 28.347 69.555 21.42 1 72.68 ? C1' AMP 502 A 1 
HETATM 14 N N9 AMP . . . D 2 28.848 68.675 22.487 1 68.39 ? N9 AMP 502 A 1 
HETATM 15 C C8 AMP . . . D 2 28.107 67.961 23.35 1 68.58 ? C8 AMP 502 A 1 
HETATM 16 N N7 AMP . . . D 2 28.894 67.267 24.216 1 71.87 ? N7 AMP 502 A 1 
HETATM 17 C C5 AMP . . . D 2 30.166 67.528 23.926 1 76.23 ? C5 AMP 502 A 1 
HETATM 18 C C6 AMP . . . D 2 31.478 67.113 24.478 1 74.65 ? C6 AMP 502 A 1 
HETATM 19 N N6 AMP . . . D 2 31.59 66.263 25.534 1 58.03 ? N6 AMP 502 A 1 
HETATM 20 N N1 AMP . . . D 2 32.561 67.625 23.867 1 83.54 ? N1 AMP 502 A 1 
HETATM 21 C C2 AMP . . . D 2 32.459 68.47 22.826 1 76.37 ? C2 AMP 502 A 1 
HETATM 22 N N3 AMP . . . D 2 31.308 68.888 22.283 1 76.45 ? N3 AMP 502 A 1 
HETATM 23 C C4 AMP . . . D 2 30.134 68.462 22.783 1 74.28 ? C4 AMP 502 A 1 
HETATM 24 H "H5'1" AMP . . . D 2 24.907 69.925 22.628 1 69.78 ? "H5'1" AMP 502 A 1 
HETATM 25 H "H5'2" AMP . . . D 2 24.112 69.942 21.05 1 69.78 ? "H5'2" AMP 502 A 1 
HETATM 26 H H4' AMP . . . D 2 25.897 71.456 20.818 1 83.23 ? H4' AMP 502 A 1 
HETATM 27 H H3' AMP . . . D 2 25.969 69.356 19.106 1 67.17 ? H3' AMP 502 A 1 
HETATM 28 H HO3' AMP . . . D 2 27.799 70.49 18.171 1 76.24 ? HO3' AMP 502 A 1 
HETATM 29 H H2' AMP . . . D 2 27.219 67.924 20.569 1 65.59 ? H2' AMP 502 A 1 
HETATM 30 H HO2' AMP . . . D 2 28.345 68.044 18.514 1 63.81 ? HO2' AMP 502 A 1 
HETATM 31 H H1' AMP . . . D 2 29.163 70.198 21.063 1 87.19 ? H1' AMP 502 A 1 
HETATM 32 H H8 AMP . . . D 2 27.025 67.939 23.356 1 82.27 ? H8 AMP 502 A 1 
HETATM 33 H HN61 AMP . . . D 2 32.503 65.997 25.873 1 69.61 ? HN61 AMP 502 A 1 
HETATM 34 H HN62 AMP . . . D 2 30.76 65.887 25.969 1 69.61 ? HN62 AMP 502 A 1 
HETATM 35 H H2 AMP . . . D 2 33.38 68.841 22.393 1 91.62 ? H2 AMP 502 A 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           310 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           35 
#