data_5UGX
#
_model_server_result.job_id            YkIhF8BB5A0I2lOMFUFf_Q 
_model_server_result.datetime_utc      '2024-12-04 07:42:02' 
_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          5ugx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":803}' 
#
_entry.id    5UGX 
#
_exptl.entry_id    5UGX 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              505.208 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' 
_entity.pdbx_number_of_molecules    2 
_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            5UGX 
_cell.length_a            66.973 
_cell.length_b            77.86 
_cell.length_c            115.809 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5UGX 
_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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 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,C,D,E,F,K 1 1 
B,G,H,I,J,L 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
? 3 E N N 
? 3 I 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
metalc ? metalc1 A OD1 ASN 187 B ASN 631 1_555 F MG MG . B MG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? 
metalc ? metalc2 A OD2 ASP 200 B ASP 644 1_555 F MG MG . B MG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.591 ? 
metalc ? metalc3 E O1B ACP . B ACP 803 1_555 F MG MG . B MG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? 
metalc ? metalc4 B OD1 ASN 187 A ASN 631 1_555 J MG MG . A MG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? 
metalc ? metalc5 B OD2 ASP 200 A ASP 644 1_555 J MG MG . A MG 804 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.476 ? 
metalc ? metalc6 I O2B ACP . A ACP 803 1_555 J MG MG . A MG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? 
#
_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                     5UGX 
_atom_sites.fract_transf_matrix[1][1]    0.014931 
_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]    0.012844 
_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]    0.008635 
_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 SO4 B 1 801 2 SO4 SO4 . 
D 2 SO4 B 1 802 3 SO4 SO4 . 
E 3 ACP B 1 803 2 ACP ACP . 
F 4 MG B 1 804 1 MG MG . 
G 2 SO4 A 1 801 1 SO4 SO4 . 
H 2 SO4 A 1 802 4 SO4 SO4 . 
I 3 ACP A 1 803 5 ACP ACP . 
J 4 MG A 1 804 4 MG MG . 
K 5 HOH B 1 901 11 HOH HOH . 
K 5 HOH B 2 902 16 HOH HOH . 
K 5 HOH B 3 903 37 HOH HOH . 
K 5 HOH B 4 904 20 HOH HOH . 
K 5 HOH B 5 905 14 HOH HOH . 
K 5 HOH B 6 906 7 HOH HOH . 
K 5 HOH B 7 907 8 HOH HOH . 
K 5 HOH B 8 908 19 HOH HOH . 
K 5 HOH B 9 909 9 HOH HOH . 
K 5 HOH B 10 910 1 HOH HOH . 
K 5 HOH B 11 911 17 HOH HOH . 
K 5 HOH B 12 912 35 HOH HOH . 
K 5 HOH B 13 913 4 HOH HOH . 
K 5 HOH B 14 914 10 HOH HOH . 
K 5 HOH B 15 915 15 HOH HOH . 
K 5 HOH B 16 916 38 HOH HOH . 
K 5 HOH B 17 917 5 HOH HOH . 
K 5 HOH B 18 918 6 HOH HOH . 
K 5 HOH B 19 919 23 HOH HOH . 
K 5 HOH B 20 920 21 HOH HOH . 
K 5 HOH B 21 921 18 HOH HOH . 
K 5 HOH B 22 922 13 HOH HOH . 
L 5 HOH A 1 901 24 HOH HOH . 
L 5 HOH A 2 902 25 HOH HOH . 
L 5 HOH A 3 903 3 HOH HOH . 
L 5 HOH A 4 904 34 HOH HOH . 
L 5 HOH A 5 905 30 HOH HOH . 
L 5 HOH A 6 906 26 HOH HOH . 
L 5 HOH A 7 907 27 HOH HOH . 
L 5 HOH A 8 908 2 HOH HOH . 
L 5 HOH A 9 909 12 HOH HOH . 
L 5 HOH A 10 910 28 HOH HOH . 
L 5 HOH A 11 911 31 HOH HOH . 
L 5 HOH A 12 912 33 HOH HOH . 
L 5 HOH A 13 913 29 HOH HOH . 
L 5 HOH A 14 914 22 HOH HOH . 
L 5 HOH A 15 915 32 HOH HOH . 
L 5 HOH A 16 916 36 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 . . . E 3 38.686 35.829 18.256 1 53.79 ? PG ACP 803 B 1 
HETATM 2 O O1G ACP . . . E 3 37.739 36.257 17.088 1 53.45 ? O1G ACP 803 B 1 
HETATM 3 O O2G ACP . . . E 3 37.935 35.859 19.641 1 54.63 ? O2G ACP 803 B 1 
HETATM 4 O O3G ACP . . . E 3 39.217 34.438 18.028 1 54.02 ? O3G ACP 803 B 1 
HETATM 5 P PB ACP . . . E 3 41.567 36.492 17.509 1 52.13 ? PB ACP 803 B 1 
HETATM 6 O O1B ACP . . . E 3 41.382 36.73 16.034 1 51.05 ? O1B ACP 803 B 1 
HETATM 7 O O2B ACP . . . E 3 41.823 34.959 17.781 1 52.37 ? O2B ACP 803 B 1 
HETATM 8 C C3B ACP . . . E 3 40.055 37.046 18.408 1 53.17 ? C3B ACP 803 B 1 
HETATM 9 P PA ACP . . . E 3 44.024 37.893 17.332 1 49.39 ? PA ACP 803 B 1 
HETATM 10 O O1A ACP . . . E 3 43.986 37.495 15.866 1 49.15 ? O1A ACP 803 B 1 
HETATM 11 O O2A ACP . . . E 3 45.227 37.26 18.029 1 50.29 ? O2A ACP 803 B 1 
HETATM 12 O O3A ACP . . . E 3 42.722 37.415 18.113 1 50.91 ? O3A ACP 803 B 1 
HETATM 13 O O5' ACP . . . E 3 44.126 39.499 17.451 1 47.47 ? O5' ACP 803 B 1 
HETATM 14 C C5' ACP . . . E 3 43.008 40.326 17.194 1 45.27 ? C5' ACP 803 B 1 
HETATM 15 C C4' ACP . . . E 3 43.482 41.71 16.997 1 42.88 ? C4' ACP 803 B 1 
HETATM 16 O O4' ACP . . . E 3 44.013 42.226 18.279 1 41.62 ? O4' ACP 803 B 1 
HETATM 17 C C3' ACP . . . E 3 44.582 41.789 16.033 1 41.46 ? C3' ACP 803 B 1 
HETATM 18 O O3' ACP . . . E 3 44.163 41.876 14.659 1 39.99 ? O3' ACP 803 B 1 
HETATM 19 C C2' ACP . . . E 3 45.332 42.932 16.46 1 41.18 ? C2' ACP 803 B 1 
HETATM 20 O O2' ACP . . . E 3 44.771 44.117 15.854 1 42.03 ? O2' ACP 803 B 1 
HETATM 21 C C1' ACP . . . E 3 45.27 42.948 17.925 1 39.57 ? C1' ACP 803 B 1 
HETATM 22 N N9 ACP . . . E 3 46.433 42.318 18.413 1 35.86 ? N9 ACP 803 B 1 
HETATM 23 C C8 ACP . . . E 3 46.65 41.005 18.569 1 34.67 ? C8 ACP 803 B 1 
HETATM 24 N N7 ACP . . . E 3 47.883 40.781 19.013 1 34.82 ? N7 ACP 803 B 1 
HETATM 25 C C5 ACP . . . E 3 48.512 41.939 19.154 1 34.69 ? C5 ACP 803 B 1 
HETATM 26 C C6 ACP . . . E 3 49.802 42.31 19.567 1 33.61 ? C6 ACP 803 B 1 
HETATM 27 N N6 ACP . . . E 3 50.785 41.313 19.96 1 33.22 ? N6 ACP 803 B 1 
HETATM 28 N N1 ACP . . . E 3 50.131 43.603 19.605 1 33.76 ? N1 ACP 803 B 1 
HETATM 29 C C2 ACP . . . E 3 49.244 44.562 19.236 1 33.96 ? C2 ACP 803 B 1 
HETATM 30 N N3 ACP . . . E 3 47.991 44.24 18.82 1 34.15 ? N3 ACP 803 B 1 
HETATM 31 C C4 ACP . . . E 3 47.602 42.949 18.768 1 34.35 ? C4 ACP 803 B 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           291 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           31 
#