data_6XJP
#
_model_server_result.job_id            5sPc6bB8Ngg_iG8Bk5dK5Q 
_model_server_result.datetime_utc      '2024-11-27 03:11:49' 
_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          6xjp 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":301}' 
#
_entry.id    6XJP 
#
_exptl.entry_id    6XJP 
_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    1 
_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            6XJP 
_cell.length_a            105.947 
_cell.length_b            105.947 
_cell.length_c            305.497 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6XJP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        96 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43 21 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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
covale ? covale1 C SG CYS 505 C CYS 539 1_555 F C3 K85 . C K85 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.935 ? 
metalc ? metalc1 A OG1 THR 42 A THR 42 1_555 E MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? 
metalc ? metalc2 D O3G GNP . A GNP 301 1_555 E MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? 
metalc ? metalc3 D O1B GNP . A GNP 301 1_555 E MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.144 ? 
#
_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                     6XJP 
_atom_sites.fract_transf_matrix[1][1]    0.009439 
_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]    0.009439 
_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]    0.003273 
_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
D 4 GNP A 1 301 301 GNP GNP . 
E 5 MG A 1 302 302 MG MG . 
F 6 K85 C 1 1101 1 K85 185 . 
#
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 . . . D 4 59.636 -15.257 28.024 1 22.82 ? PG GNP 301 A 1 
HETATM 2 O O1G GNP . . . D 4 59.667 -16.661 27.447 1 24.89 ? O1G GNP 301 A 1 
HETATM 3 O O2G GNP . . . D 4 59.155 -15.316 29.49 1 24.89 ? O2G GNP 301 A 1 
HETATM 4 O O3G GNP . . . D 4 61.057 -14.638 27.96 1 18.42 ? O3G GNP 301 A 1 
HETATM 5 N N3B GNP . . . D 4 58.57 -14.311 27.114 1 20.43 ? N3B GNP 301 A 1 
HETATM 6 P PB GNP . . . D 4 57.866 -12.923 27.795 1 19.59 ? PB GNP 301 A 1 
HETATM 7 O O1B GNP . . . D 4 58.976 -11.991 28.33 1 17.41 ? O1B GNP 301 A 1 
HETATM 8 O O2B GNP . . . D 4 56.927 -13.324 28.907 1 23.94 ? O2B GNP 301 A 1 
HETATM 9 O O3A GNP . . . D 4 56.998 -12.133 26.602 1 16.69 ? O3A GNP 301 A 1 
HETATM 10 P PA GNP . . . D 4 57.684 -11.06 25.521 1 15.01 ? PA GNP 301 A 1 
HETATM 11 O O1A GNP . . . D 4 59.082 -11.515 25.193 1 15.46 ? O1A GNP 301 A 1 
HETATM 12 O O2A GNP . . . D 4 57.736 -9.666 26.147 1 15.46 ? O2A GNP 301 A 1 
HETATM 13 O O5' GNP . . . D 4 56.77 -11.013 24.104 1 12.32 ? O5' GNP 301 A 1 
HETATM 14 C C5' GNP . . . D 4 55.774 -11.976 23.908 1 9.54 ? C5' GNP 301 A 1 
HETATM 15 C C4' GNP . . . D 4 54.733 -11.486 22.915 1 6.69 ? C4' GNP 301 A 1 
HETATM 16 O O4' GNP . . . D 4 53.757 -10.874 23.572 1 5.16 ? O4' GNP 301 A 1 
HETATM 17 C C3' GNP . . . D 4 55.306 -10.453 21.925 1 5.46 ? C3' GNP 301 A 1 
HETATM 18 O O3' GNP . . . D 4 54.93 -10.758 20.661 1 5.3 ? O3' GNP 301 A 1 
HETATM 19 C C2' GNP . . . D 4 54.677 -9.103 22.358 1 4.51 ? C2' GNP 301 A 1 
HETATM 20 O O2' GNP . . . D 4 54.481 -8.2 21.147 1 4.42 ? O2' GNP 301 A 1 
HETATM 21 C C1' GNP . . . D 4 53.521 -9.439 22.875 1 3.78 ? C1' GNP 301 A 1 
HETATM 22 N N9 GNP . . . D 4 53.077 -8.494 23.865 1 1.84 ? N9 GNP 301 A 1 
HETATM 23 C C8 GNP . . . D 4 53.669 -8.038 25.002 1 1.45 ? C8 GNP 301 A 1 
HETATM 24 N N7 GNP . . . D 4 52.854 -7.181 25.574 1 1.45 ? N7 GNP 301 A 1 
HETATM 25 C C5 GNP . . . D 4 51.74 -7.094 24.811 1 1.34 ? C5 GNP 301 A 1 
HETATM 26 C C6 GNP . . . D 4 50.593 -6.358 24.947 1 0.74 ? C6 GNP 301 A 1 
HETATM 27 O O6 GNP . . . D 4 50.46 -5.638 25.875 1 0.55 ? O6 GNP 301 A 1 
HETATM 28 N N1 GNP . . . D 4 49.634 -6.458 24.041 1 0.53 ? N1 GNP 301 A 1 
HETATM 29 C C2 GNP . . . D 4 49.787 -7.286 22.979 1 0.48 ? C2 GNP 301 A 1 
HETATM 30 N N2 GNP . . . D 4 48.634 -7.358 21.957 1 0.29 ? N2 GNP 301 A 1 
HETATM 31 N N3 GNP . . . D 4 50.91 -8.006 22.844 1 0.83 ? N3 GNP 301 A 1 
HETATM 32 C C4 GNP . . . D 4 51.89 -7.907 23.767 1 1.35 ? C4 GNP 301 A 1 
HETATM 33 H HNB3 GNP . . . D 4 58.275 -14.609 26.363 1 24.72 ? HNB3 GNP 301 A 1 
HETATM 34 H "H5'2" GNP . . . D 4 56.181 -12.785 23.561 1 11.65 ? "H5'2" GNP 301 A 1 
HETATM 35 H "H5'1" GNP . . . D 4 55.345 -12.174 24.756 1 11.65 ? "H5'1" GNP 301 A 1 
HETATM 36 H H4' GNP . . . D 4 54.371 -12.237 22.421 1 8.23 ? H4' GNP 301 A 1 
HETATM 37 H H3' GNP . . . D 4 56.273 -10.417 21.998 1 6.74 ? H3' GNP 301 A 1 
HETATM 38 H H2' GNP . . . D 4 55.232 -8.669 23.024 1 5.61 ? H2' GNP 301 A 1 
HETATM 39 H HO2' GNP . . . D 4 55.091 -7.608 21.134 1 5.5 ? HO2' GNP 301 A 1 
HETATM 40 H H1' GNP . . . D 4 52.859 -9.522 22.171 1 4.73 ? H1' GNP 301 A 1 
HETATM 41 H H8 GNP . . . D 4 54.509 -8.283 25.316 1 1.94 ? H8 GNP 301 A 1 
HETATM 42 H HN1 GNP . . . D 4 48.912 -5.997 24.126 1 0.83 ? HN1 GNP 301 A 1 
HETATM 43 H HN21 GNP . . . D 4 48.005 -7.936 22.058 1 0.54 ? HN21 GNP 301 A 1 
HETATM 44 H HN22 GNP . . . D 4 48.619 -6.821 21.285 1 0.54 ? HN22 GNP 301 A 1 
#
_model_server_stats.io_time_ms              33 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    19 
_model_server_stats.query_time_ms           267 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           44 
#