data_4DCN
#
_model_server_result.job_id            kVeWyOiKUFGHKCRrSXdMHg 
_model_server_result.datetime_utc      '2024-10-11 06:17:37' 
_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          4dcn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":202}' 
#
_entry.id    4DCN 
#
_exptl.entry_id    4DCN 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              522.196 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE 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            4DCN 
_cell.length_a            62.764 
_cell.length_b            111.125 
_cell.length_c            119.809 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4DCN 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,I,J 
_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
? 4 F N N 
? 4 H 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 OG1 THR 18 A THR 31 1_555 E MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? 
metalc ? metalc2 A OG1 THR 35 A THR 48 1_555 E MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.235 ? 
metalc ? metalc3 E MG MG . A MG 201 1_555 F O2G GNP . A GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.818 ? 
metalc ? metalc4 E MG MG . A MG 201 1_555 F O2B GNP . A GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? 
metalc ? metalc5 E MG MG . A MG 201 1_555 I O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.892 ? 
metalc ? metalc6 E MG MG . A MG 201 1_555 I O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? 
metalc ? metalc7 B OG1 THR 18 B THR 31 1_555 G MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.943 ? 
metalc ? metalc8 B OG1 THR 35 B THR 48 1_555 G MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? 
metalc ? metalc9 G MG MG . B MG 201 1_555 H O2B GNP . B GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.871 ? 
metalc ? metalc10 G MG MG . B MG 201 1_555 H O2G GNP . B GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.666 ? 
metalc ? metalc11 G MG MG . B MG 201 1_555 J O HOH . B HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.937 ? 
metalc ? metalc12 G MG MG . B MG 201 1_555 J O HOH . B HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? 
#
_chem_comp.formula           'C10 H17 N6 O13 P3' 
_chem_comp.formula_weight    522.196 
_chem_comp.id                GNP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' 
_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
PG O1G GNP doub 129 n n 
PG O2G GNP sing 130 n n 
PG O3G GNP sing 131 n n 
PG N3B GNP sing 132 n n 
O2G HOG2 GNP sing 133 n n 
O3G HOG3 GNP sing 134 n n 
N3B PB GNP sing 135 n n 
N3B HNB3 GNP sing 136 n n 
PB O1B GNP doub 137 n n 
PB O2B GNP sing 138 n n 
PB O3A GNP sing 139 n n 
O2B HOB2 GNP sing 140 n n 
O3A PA GNP sing 141 n n 
PA O1A GNP doub 142 n n 
PA O2A GNP sing 143 n n 
PA O5' GNP sing 144 n n 
O2A HOA2 GNP sing 145 n n 
O5' C5' GNP sing 146 n n 
C5' C4' GNP sing 147 n n 
C5' "H5'2" GNP sing 148 n n 
C5' "H5'1" GNP sing 149 n n 
C4' O4' GNP sing 150 n n 
C4' C3' GNP sing 151 n n 
C4' H4' GNP sing 152 n n 
O4' C1' GNP sing 153 n n 
C3' O3' GNP sing 154 n n 
C3' C2' GNP sing 155 n n 
C3' H3' GNP sing 156 n n 
O3' HO3' GNP sing 157 n n 
C2' O2' GNP sing 158 n n 
C2' C1' GNP sing 159 n n 
C2' H2' GNP sing 160 n n 
O2' HO2' GNP sing 161 n n 
C1' N9 GNP sing 162 n n 
C1' H1' GNP sing 163 n n 
N9 C8 GNP sing 164 n y 
N9 C4 GNP sing 165 n y 
C8 N7 GNP doub 166 n y 
C8 H8 GNP sing 167 n n 
N7 C5 GNP sing 168 n y 
C5 C6 GNP sing 169 n y 
C5 C4 GNP doub 170 n y 
C6 O6 GNP doub 171 n n 
C6 N1 GNP sing 172 n y 
N1 C2 GNP sing 173 n y 
N1 HN1 GNP sing 174 n n 
C2 N2 GNP sing 175 n n 
C2 N3 GNP doub 176 n y 
N2 HN21 GNP sing 177 n n 
N2 HN22 GNP sing 178 n n 
N3 C4 GNP sing 179 n y 
#
_atom_sites.entry_id                     4DCN 
_atom_sites.fract_transf_matrix[1][1]    0.015933 
_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]    0.008999 
_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]    0.008347 
_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 3 MG A 1 201 1 MG MG . 
F 4 GNP A 1 202 1 GNP GNP . 
G 3 MG B 1 201 1 MG MG . 
H 4 GNP B 1 202 1 GNP GNP . 
I 5 HOH A 1 301 3 HOH HOH . 
I 5 HOH A 2 302 4 HOH HOH . 
J 5 HOH B 1 301 1 HOH HOH . 
J 5 HOH B 2 302 2 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 GNP . . . H 4 -5.833 -26 -1.344 1 23.18 ? PG GNP 202 B 1 
HETATM 2 O O1G GNP . . . H 4 -5.246 -27.216 -2.01 1 22.32 ? O1G GNP 202 B 1 
HETATM 3 O O2G GNP . . . H 4 -5.875 -24.713 -2.131 1 22.56 ? O2G GNP 202 B 1 
HETATM 4 O O3G GNP . . . H 4 -7.179 -26.488 -0.874 1 23.12 ? O3G GNP 202 B 1 
HETATM 5 N N3B GNP . . . H 4 -5.036 -25.675 -0.023 1 23.51 ? N3B GNP 202 B 1 
HETATM 6 P PB GNP . . . H 4 -3.774 -24.729 0.049 1 24.52 ? PB GNP 202 B 1 
HETATM 7 O O1B GNP . . . H 4 -2.538 -25.536 -0.039 1 23.75 ? O1B GNP 202 B 1 
HETATM 8 O O2B GNP . . . H 4 -3.933 -23.645 -0.942 1 25.18 ? O2B GNP 202 B 1 
HETATM 9 O O3A GNP . . . H 4 -3.824 -24.116 1.447 1 23.8 ? O3A GNP 202 B 1 
HETATM 10 P PA GNP . . . H 4 -3.934 -22.622 1.744 1 22.75 ? PA GNP 202 B 1 
HETATM 11 O O1A GNP . . . H 4 -2.763 -21.936 1.16 1 21.83 ? O1A GNP 202 B 1 
HETATM 12 O O2A GNP . . . H 4 -5.264 -22.102 1.373 1 23.1 ? O2A GNP 202 B 1 
HETATM 13 O O5' GNP . . . H 4 -3.832 -22.498 3.315 1 23.63 ? O5' GNP 202 B 1 
HETATM 14 C C5' GNP . . . H 4 -4.663 -23.284 4.178 1 24.71 ? C5' GNP 202 B 1 
HETATM 15 C C4' GNP . . . H 4 -4.577 -22.863 5.639 1 25.17 ? C4' GNP 202 B 1 
HETATM 16 O O4' GNP . . . H 4 -3.264 -23.19 6.145 1 26.01 ? O4' GNP 202 B 1 
HETATM 17 C C3' GNP . . . H 4 -4.799 -21.382 5.929 1 25.71 ? C3' GNP 202 B 1 
HETATM 18 O O3' GNP . . . H 4 -5.757 -21.222 6.951 1 25.83 ? O3' GNP 202 B 1 
HETATM 19 C C2' GNP . . . H 4 -3.45 -20.864 6.405 1 26.91 ? C2' GNP 202 B 1 
HETATM 20 O O2' GNP . . . H 4 -3.61 -19.927 7.45 1 27.9 ? O2' GNP 202 B 1 
HETATM 21 C C1' GNP . . . H 4 -2.751 -22.122 6.914 1 27.3 ? C1' GNP 202 B 1 
HETATM 22 N N9 GNP . . . H 4 -1.297 -22.134 6.739 1 28.01 ? N9 GNP 202 B 1 
HETATM 23 C C8 GNP . . . H 4 -0.624 -22.084 5.542 1 28.64 ? C8 GNP 202 B 1 
HETATM 24 N N7 GNP . . . H 4 0.67 -22.118 5.657 1 29.05 ? N7 GNP 202 B 1 
HETATM 25 C C5 GNP . . . H 4 0.875 -22.209 7.022 1 29.1 ? C5 GNP 202 B 1 
HETATM 26 C C6 GNP . . . H 4 2.09 -22.277 7.739 1 29.8 ? C6 GNP 202 B 1 
HETATM 27 O O6 GNP . . . H 4 3.238 -22.269 7.275 1 30.73 ? O6 GNP 202 B 1 
HETATM 28 N N1 GNP . . . H 4 1.885 -22.354 9.117 1 29.91 ? N1 GNP 202 B 1 
HETATM 29 C C2 GNP . . . H 4 0.647 -22.355 9.713 1 30.18 ? C2 GNP 202 B 1 
HETATM 30 N N2 GNP . . . H 4 0.644 -22.432 11.051 1 30.72 ? N2 GNP 202 B 1 
HETATM 31 N N3 GNP . . . H 4 -0.505 -22.288 9.046 1 30.01 ? N3 GNP 202 B 1 
HETATM 32 C C4 GNP . . . H 4 -0.32 -22.22 7.705 1 28.64 ? C4 GNP 202 B 1 
#
_model_server_stats.io_time_ms              24 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    18 
_model_server_stats.query_time_ms           307 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           32 
#