data_4J97
#
_model_server_result.job_id            lz89djRVoFW0KLCtxD73YA 
_model_server_result.datetime_utc      '2024-12-21 15:48:23' 
_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          4j97 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":801}' 
#
_entry.id    4J97 
#
_exptl.entry_id    4J97 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              505.208 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         92.39 
_cell.angle_beta          112.19 
_cell.angle_gamma         115.98 
_cell.entry_id            4J97 
_cell.length_a            70.584 
_cell.length_b            70.278 
_cell.length_c            85.499 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4J97 
_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 
PISA dimeric 2 software_defined_assembly 5 
PISA dimeric 2 software_defined_assembly 6 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,G,N 1 1 
B,H,I,O 2 1 
C,J,K,P 3 1 
D,L,M,Q 4 1 
A,E,F,G,N 5 1 
C,J,K,P 5 2 
B,H,I,O 6 1 
D,L,M,Q 6 3 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 1_444 x-1,y-1,z-1 1 0 0 0 1 0 0 0 1 -7.507011 -43.474467 -76.675939 
3 'crystal symmetry operation' 1_445 x-1,y-1,z 1 0 0 0 1 0 0 0 1 -39.798203 -63.176198 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 H N N 
? 2 J N N 
? 2 L N N 
#
_chem_comp.formula           'C11 H18 N5 O12 P3' 
_chem_comp.formula_weight    505.208 
_chem_comp.id                ACP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE" 
#
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
PG O1G ACP doub 1 n n 
PG O2G ACP sing 2 n n 
PG O3G ACP sing 3 n n 
PG C3B ACP sing 4 n n 
O2G HOG2 ACP sing 5 n n 
O3G HOG3 ACP sing 6 n n 
PB O1B ACP doub 7 n n 
PB O2B ACP sing 8 n n 
PB C3B ACP sing 9 n n 
PB O3A ACP sing 10 n n 
O2B HOB2 ACP sing 11 n n 
C3B H3B1 ACP sing 12 n n 
C3B H3B2 ACP sing 13 n n 
PA O1A ACP doub 14 n n 
PA O2A ACP sing 15 n n 
PA O3A ACP sing 16 n n 
PA O5' ACP sing 17 n n 
O2A HOA2 ACP sing 18 n n 
O5' C5' ACP sing 19 n n 
C5' C4' ACP sing 20 n n 
C5' "H5'1" ACP sing 21 n n 
C5' "H5'2" ACP sing 22 n n 
C4' O4' ACP sing 23 n n 
C4' C3' ACP sing 24 n n 
C4' H4' ACP sing 25 n n 
O4' C1' ACP sing 26 n n 
C3' O3' ACP sing 27 n n 
C3' C2' ACP sing 28 n n 
C3' H3' ACP sing 29 n n 
O3' HO3' ACP sing 30 n n 
C2' O2' ACP sing 31 n n 
C2' C1' ACP sing 32 n n 
C2' H2' ACP sing 33 n n 
O2' HO2' ACP sing 34 n n 
C1' N9 ACP sing 35 n n 
C1' H1' ACP sing 36 n n 
N9 C8 ACP sing 37 n y 
N9 C4 ACP sing 38 n y 
C8 N7 ACP doub 39 n y 
C8 H8 ACP sing 40 n n 
N7 C5 ACP sing 41 n y 
C5 C6 ACP sing 42 n y 
C5 C4 ACP doub 43 n y 
C6 N6 ACP sing 44 n n 
C6 N1 ACP doub 45 n y 
N6 HN61 ACP sing 46 n n 
N6 HN62 ACP sing 47 n n 
N1 C2 ACP sing 48 n y 
C2 N3 ACP doub 49 n y 
C2 H2 ACP sing 50 n n 
N3 C4 ACP sing 51 n y 
#
_atom_sites.entry_id                     4J97 
_atom_sites.fract_transf_matrix[1][1]    0.014168 
_atom_sites.fract_transf_matrix[1][2]    0.006904 
_atom_sites.fract_transf_matrix[1][3]    0.00774 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015829 
_atom_sites.fract_transf_matrix[2][3]    0.004067 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.013042 
_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 ACP A 1 801 801 ACP ACP . 
F 3 SO4 A 1 802 802 SO4 SO4 . 
G 3 SO4 A 1 803 803 SO4 SO4 . 
H 2 ACP B 1 801 801 ACP ACP . 
I 3 SO4 B 1 802 802 SO4 SO4 . 
J 2 ACP C 1 801 801 ACP ACP . 
K 3 SO4 C 1 802 802 SO4 SO4 . 
L 2 ACP D 1 801 801 ACP ACP . 
M 3 SO4 D 1 802 802 SO4 SO4 . 
N 4 HOH A 1 901 901 HOH HOH . 
N 4 HOH A 2 902 902 HOH HOH . 
N 4 HOH A 3 903 903 HOH HOH . 
N 4 HOH A 4 904 904 HOH HOH . 
N 4 HOH A 5 905 905 HOH HOH . 
N 4 HOH A 6 906 906 HOH HOH . 
N 4 HOH A 7 907 907 HOH HOH . 
N 4 HOH A 8 908 908 HOH HOH . 
N 4 HOH A 9 909 909 HOH HOH . 
N 4 HOH A 10 910 910 HOH HOH . 
N 4 HOH A 11 911 911 HOH HOH . 
N 4 HOH A 12 912 912 HOH HOH . 
N 4 HOH A 13 913 913 HOH HOH . 
N 4 HOH A 14 914 914 HOH HOH . 
N 4 HOH A 15 915 915 HOH HOH . 
N 4 HOH A 16 916 916 HOH HOH . 
N 4 HOH A 17 917 918 HOH HOH . 
N 4 HOH A 18 918 919 HOH HOH . 
N 4 HOH A 19 919 920 HOH HOH . 
N 4 HOH A 20 920 921 HOH HOH . 
N 4 HOH A 21 921 922 HOH HOH . 
N 4 HOH A 22 922 923 HOH HOH . 
N 4 HOH A 23 923 924 HOH HOH . 
N 4 HOH A 24 924 925 HOH HOH . 
N 4 HOH A 25 925 926 HOH HOH . 
N 4 HOH A 26 926 927 HOH HOH . 
N 4 HOH A 27 927 928 HOH HOH . 
N 4 HOH A 28 928 929 HOH HOH . 
N 4 HOH A 29 929 931 HOH HOH . 
N 4 HOH A 30 930 1 HOH HOH . 
O 4 HOH B 1 901 901 HOH HOH . 
O 4 HOH B 2 902 902 HOH HOH . 
O 4 HOH B 3 903 903 HOH HOH . 
O 4 HOH B 4 904 904 HOH HOH . 
O 4 HOH B 5 905 905 HOH HOH . 
O 4 HOH B 6 906 906 HOH HOH . 
O 4 HOH B 7 907 907 HOH HOH . 
O 4 HOH B 8 908 908 HOH HOH . 
O 4 HOH B 9 909 909 HOH HOH . 
O 4 HOH B 10 910 910 HOH HOH . 
O 4 HOH B 11 911 911 HOH HOH . 
O 4 HOH B 12 912 912 HOH HOH . 
O 4 HOH B 13 913 913 HOH HOH . 
O 4 HOH B 14 914 914 HOH HOH . 
O 4 HOH B 15 915 915 HOH HOH . 
O 4 HOH B 16 916 916 HOH HOH . 
O 4 HOH B 17 917 917 HOH HOH . 
O 4 HOH B 18 918 918 HOH HOH . 
O 4 HOH B 19 919 919 HOH HOH . 
O 4 HOH B 20 920 920 HOH HOH . 
O 4 HOH B 21 921 921 HOH HOH . 
O 4 HOH B 22 922 922 HOH HOH . 
O 4 HOH B 23 923 923 HOH HOH . 
O 4 HOH B 24 924 924 HOH HOH . 
O 4 HOH B 25 925 925 HOH HOH . 
O 4 HOH B 26 926 926 HOH HOH . 
O 4 HOH B 27 927 927 HOH HOH . 
O 4 HOH B 28 928 928 HOH HOH . 
O 4 HOH B 29 929 929 HOH HOH . 
O 4 HOH B 30 930 930 HOH HOH . 
O 4 HOH B 31 931 931 HOH HOH . 
O 4 HOH B 32 932 932 HOH HOH . 
O 4 HOH B 33 933 933 HOH HOH . 
O 4 HOH B 34 934 935 HOH HOH . 
O 4 HOH B 35 935 936 HOH HOH . 
O 4 HOH B 36 936 937 HOH HOH . 
O 4 HOH B 37 937 938 HOH HOH . 
P 4 HOH C 1 901 901 HOH HOH . 
P 4 HOH C 2 902 902 HOH HOH . 
P 4 HOH C 3 903 903 HOH HOH . 
P 4 HOH C 4 904 904 HOH HOH . 
P 4 HOH C 5 905 905 HOH HOH . 
P 4 HOH C 6 906 906 HOH HOH . 
P 4 HOH C 7 907 907 HOH HOH . 
P 4 HOH C 8 908 908 HOH HOH . 
P 4 HOH C 9 909 909 HOH HOH . 
P 4 HOH C 10 910 910 HOH HOH . 
P 4 HOH C 11 911 911 HOH HOH . 
P 4 HOH C 12 912 912 HOH HOH . 
P 4 HOH C 13 913 913 HOH HOH . 
P 4 HOH C 14 914 914 HOH HOH . 
P 4 HOH C 15 915 915 HOH HOH . 
P 4 HOH C 16 916 916 HOH HOH . 
P 4 HOH C 17 917 917 HOH HOH . 
P 4 HOH C 18 918 918 HOH HOH . 
P 4 HOH C 19 919 919 HOH HOH . 
P 4 HOH C 20 920 920 HOH HOH . 
P 4 HOH C 21 921 921 HOH HOH . 
P 4 HOH C 22 922 922 HOH HOH . 
P 4 HOH C 23 923 923 HOH HOH . 
P 4 HOH C 24 924 924 HOH HOH . 
P 4 HOH C 25 925 925 HOH HOH . 
P 4 HOH C 26 926 927 HOH HOH . 
P 4 HOH C 27 927 928 HOH HOH . 
P 4 HOH C 28 928 930 HOH HOH . 
P 4 HOH C 29 929 931 HOH HOH . 
P 4 HOH C 30 930 932 HOH HOH . 
P 4 HOH C 31 931 933 HOH HOH . 
Q 4 HOH D 1 901 901 HOH HOH . 
Q 4 HOH D 2 902 902 HOH HOH . 
Q 4 HOH D 3 903 903 HOH HOH . 
Q 4 HOH D 4 904 904 HOH HOH . 
Q 4 HOH D 5 905 905 HOH HOH . 
Q 4 HOH D 6 906 906 HOH HOH . 
Q 4 HOH D 7 907 907 HOH HOH . 
Q 4 HOH D 8 908 908 HOH HOH . 
Q 4 HOH D 9 909 909 HOH HOH . 
Q 4 HOH D 10 910 910 HOH HOH . 
Q 4 HOH D 11 911 911 HOH HOH . 
Q 4 HOH D 12 912 912 HOH HOH . 
Q 4 HOH D 13 913 913 HOH HOH . 
Q 4 HOH D 14 914 914 HOH HOH . 
Q 4 HOH D 15 915 915 HOH HOH . 
Q 4 HOH D 16 916 916 HOH HOH . 
Q 4 HOH D 17 917 917 HOH HOH . 
Q 4 HOH D 18 918 918 HOH HOH . 
Q 4 HOH D 19 919 919 HOH HOH . 
Q 4 HOH D 20 920 920 HOH HOH . 
Q 4 HOH D 21 921 921 HOH HOH . 
Q 4 HOH D 22 922 922 HOH HOH . 
Q 4 HOH D 23 923 924 HOH HOH . 
Q 4 HOH D 24 924 925 HOH HOH . 
Q 4 HOH D 25 925 926 HOH HOH . 
Q 4 HOH D 26 926 927 HOH HOH . 
Q 4 HOH D 27 927 928 HOH HOH . 
Q 4 HOH D 28 928 929 HOH HOH . 
Q 4 HOH D 29 929 931 HOH HOH . 
Q 4 HOH D 30 930 932 HOH HOH . 
Q 4 HOH D 31 931 933 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 PG ACP . . . L 2 41.227 34.022 35.031 1 146.01 ? PG ACP 801 D 1 
HETATM 2 O O1G ACP . . . L 2 40.617 33.513 36.303 1 145.48 ? O1G ACP 801 D 1 
HETATM 3 O O2G ACP . . . L 2 42.616 33.325 34.807 1 98.82 ? O2G ACP 801 D 1 
HETATM 4 O O3G ACP . . . L 2 41.442 35.569 35.134 1 73.15 ? O3G ACP 801 D 1 
HETATM 5 P PB ACP . . . L 2 38.34 33.867 34.05 1 162.33 ? PB ACP 801 D 1 
HETATM 6 O O1B ACP . . . L 2 38.218 34.544 35.386 1 160.24 ? O1B ACP 801 D 1 
HETATM 7 O O2B ACP . . . L 2 37.652 32.462 34.116 1 130.52 ? O2B ACP 801 D 1 
HETATM 8 C C3B ACP . . . L 2 40.12 33.658 33.602 1 114.56 ? C3B ACP 801 D 1 
HETATM 9 P PA ACP . . . L 2 37.843 34.481 31.402 1 87.43 ? PA ACP 801 D 1 
HETATM 10 O O1A ACP . . . L 2 39.211 34.969 31 1 86.56 1 O1A ACP 801 D 1 
HETATM 11 O O2A ACP . . . L 2 36.791 35.229 30.603 1 84.88 ? O2A ACP 801 D 1 
HETATM 12 O O3A ACP . . . L 2 37.627 34.767 32.949 1 43.86 ? O3A ACP 801 D 1 
HETATM 13 O O5' ACP . . . L 2 37.752 32.897 31.107 1 69.64 ? O5' ACP 801 D 1 
HETATM 14 C C5' ACP . . . L 2 36.511 32.285 30.838 1 65.63 ? C5' ACP 801 D 1 
HETATM 15 C C4' ACP . . . L 2 36.245 32.287 29.386 1 56.68 ? C4' ACP 801 D 1 
HETATM 16 O O4' ACP . . . L 2 37.044 31.24 28.72 1 47.53 ? O4' ACP 801 D 1 
HETATM 17 C C3' ACP . . . L 2 34.836 32.038 29.117 1 54.16 ? C3' ACP 801 D 1 
HETATM 18 O O3' ACP . . . L 2 34.304 33.045 28.256 1 56.82 ? O3' ACP 801 D 1 
HETATM 19 C C2' ACP . . . L 2 34.714 30.758 28.501 1 49.12 ? C2' ACP 801 D 1 
HETATM 20 O O2' ACP . . . L 2 33.949 30.872 27.284 1 47.7 ? O2' ACP 801 D 1 
HETATM 21 C C1' ACP . . . L 2 36.047 30.256 28.225 1 43.13 ? C1' ACP 801 D 1 
HETATM 22 N N9 ACP . . . L 2 36.248 29.021 28.848 1 37.76 ? N9 ACP 801 D 1 
HETATM 23 C C8 ACP . . . L 2 36.688 28.808 30.095 1 32.28 ? C8 ACP 801 D 1 
HETATM 24 N N7 ACP . . . L 2 36.752 27.5 30.337 1 28.47 ? N7 ACP 801 D 1 
HETATM 25 C C5 ACP . . . L 2 36.355 26.829 29.257 1 33.38 ? C5 ACP 801 D 1 
HETATM 26 C C6 ACP . . . L 2 36.217 25.472 28.934 1 32.53 ? C6 ACP 801 D 1 
HETATM 27 N N6 ACP . . . L 2 36.548 24.45 29.915 1 31.67 ? N6 ACP 801 D 1 
HETATM 28 N N1 ACP . . . L 2 35.777 25.109 27.721 1 28.7 ? N1 ACP 801 D 1 
HETATM 29 C C2 ACP . . . L 2 35.458 26.033 26.783 1 30.97 ? C2 ACP 801 D 1 
HETATM 30 N N3 ACP . . . L 2 35.581 27.361 27.061 1 34.3 ? N3 ACP 801 D 1 
HETATM 31 C C4 ACP . . . L 2 36.022 27.785 28.276 1 34.43 ? C4 ACP 801 D 1 
#
_model_server_stats.io_time_ms              80 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           294 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           31 
#