data_4EFL
#
_model_server_result.job_id            S--6siXbxEdym5VfL-3WUQ 
_model_server_result.datetime_utc      '2024-10-12 12:23:33' 
_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          4efl 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":201}' 
#
_entry.id    4EFL 
#
_exptl.entry_id    4EFL 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              522.196 
_entity.id                          2 
_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            4EFL 
_cell.length_a            34.666 
_cell.length_b            81.783 
_cell.length_c            121.726 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4EFL 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 2 2 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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                      2 
_struct_asym.id                             B 
_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
metalc ? metalc1 A OG SER 22 A SER 17 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? 
metalc ? metalc2 B O1G GNP . A GNP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.939 ? 
metalc ? metalc3 B O1B GNP . A GNP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
metalc ? metalc4 C MG MG . A MG 202 1_555 D O HOH . A HOH 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.969 ? 
metalc ? metalc5 C MG MG . A MG 202 1_555 D O HOH . A HOH 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? 
metalc ? metalc6 C MG MG . A MG 202 1_555 D O HOH . A HOH 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? 
#
_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                     4EFL 
_atom_sites.fract_transf_matrix[1][1]    0.028847 
_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]    0.012228 
_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]    0.008215 
_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
B 2 GNP A 1 201 167 GNP GNP . 
C 3 MG A 1 202 168 MG MG . 
D 4 HOH A 1 1001 1001 HOH HOH . 
D 4 HOH A 2 1002 1002 HOH HOH . 
D 4 HOH A 3 1003 1003 HOH HOH . 
D 4 HOH A 4 1004 1004 HOH HOH . 
D 4 HOH A 5 1005 1005 HOH HOH . 
D 4 HOH A 6 1006 1006 HOH HOH . 
D 4 HOH A 7 1007 1007 HOH HOH . 
D 4 HOH A 8 1008 1008 HOH HOH . 
D 4 HOH A 9 1009 1009 HOH HOH . 
D 4 HOH A 10 1010 1010 HOH HOH . 
D 4 HOH A 11 1011 1011 HOH HOH . 
D 4 HOH A 12 1012 1012 HOH HOH . 
D 4 HOH A 13 1013 1013 HOH HOH . 
D 4 HOH A 14 1014 1014 HOH HOH . 
D 4 HOH A 15 1015 1015 HOH HOH . 
D 4 HOH A 16 1016 1016 HOH HOH . 
D 4 HOH A 17 1017 1017 HOH HOH . 
D 4 HOH A 18 1018 1018 HOH HOH . 
D 4 HOH A 19 1019 1019 HOH HOH . 
D 4 HOH A 20 1020 1020 HOH HOH . 
D 4 HOH A 21 1021 1021 HOH HOH . 
D 4 HOH A 22 1022 1022 HOH HOH . 
D 4 HOH A 23 1023 1023 HOH HOH . 
D 4 HOH A 24 1024 1024 HOH HOH . 
D 4 HOH A 25 1025 1025 HOH HOH . 
D 4 HOH A 26 1026 1026 HOH HOH . 
D 4 HOH A 27 1027 1027 HOH HOH . 
D 4 HOH A 28 1028 1028 HOH HOH . 
D 4 HOH A 29 1029 1029 HOH HOH . 
D 4 HOH A 30 1030 1030 HOH HOH . 
D 4 HOH A 31 1031 1031 HOH HOH . 
D 4 HOH A 32 1032 1032 HOH HOH . 
D 4 HOH A 33 1033 1033 HOH HOH . 
D 4 HOH A 34 1034 1034 HOH HOH . 
D 4 HOH A 35 1035 1035 HOH HOH . 
D 4 HOH A 36 1036 1036 HOH HOH . 
D 4 HOH A 37 1037 1037 HOH HOH . 
D 4 HOH A 38 1038 1038 HOH HOH . 
D 4 HOH A 39 1039 1039 HOH HOH . 
D 4 HOH A 40 1040 1040 HOH HOH . 
D 4 HOH A 41 1041 1041 HOH HOH . 
D 4 HOH A 42 1042 1042 HOH HOH . 
D 4 HOH A 43 1043 1043 HOH HOH . 
D 4 HOH A 44 1044 1044 HOH HOH . 
D 4 HOH A 45 1045 1045 HOH HOH . 
D 4 HOH A 46 1046 1046 HOH HOH . 
D 4 HOH A 47 1047 1047 HOH HOH . 
D 4 HOH A 48 1048 1048 HOH HOH . 
D 4 HOH A 49 1049 1049 HOH HOH . 
D 4 HOH A 50 1050 1050 HOH HOH . 
D 4 HOH A 51 1051 1051 HOH HOH . 
D 4 HOH A 52 1052 1052 HOH HOH . 
D 4 HOH A 53 1053 1053 HOH HOH . 
D 4 HOH A 54 1054 1054 HOH HOH . 
D 4 HOH A 55 1055 1055 HOH HOH . 
D 4 HOH A 56 1056 1056 HOH HOH . 
D 4 HOH A 57 1057 1057 HOH HOH . 
D 4 HOH A 58 1058 1058 HOH HOH . 
D 4 HOH A 59 1059 1059 HOH HOH . 
D 4 HOH A 60 1060 1060 HOH HOH . 
D 4 HOH A 61 1061 1061 HOH HOH . 
D 4 HOH A 62 1062 1062 HOH HOH . 
D 4 HOH A 63 1063 1063 HOH HOH . 
D 4 HOH A 64 1064 1064 HOH HOH . 
D 4 HOH A 65 1065 1065 HOH HOH . 
D 4 HOH A 66 1066 1066 HOH HOH . 
D 4 HOH A 67 1067 1067 HOH HOH . 
D 4 HOH A 68 1068 1068 HOH HOH . 
D 4 HOH A 69 1069 1069 HOH HOH . 
D 4 HOH A 70 1070 1070 HOH HOH . 
D 4 HOH A 71 1071 1071 HOH HOH . 
D 4 HOH A 72 1072 1072 HOH HOH . 
D 4 HOH A 73 1073 1073 HOH HOH . 
D 4 HOH A 74 1074 1074 HOH HOH . 
D 4 HOH A 75 1075 1075 HOH HOH . 
D 4 HOH A 76 1076 1076 HOH HOH . 
D 4 HOH A 77 1077 1077 HOH HOH . 
D 4 HOH A 78 1078 1078 HOH HOH . 
D 4 HOH A 79 1079 1079 HOH HOH . 
D 4 HOH A 80 1080 1080 HOH HOH . 
D 4 HOH A 81 1081 1081 HOH HOH . 
D 4 HOH A 82 1082 1082 HOH HOH . 
D 4 HOH A 83 1083 1083 HOH HOH . 
D 4 HOH A 84 1084 1084 HOH HOH . 
D 4 HOH A 85 1085 1085 HOH HOH . 
D 4 HOH A 86 1086 1086 HOH HOH . 
D 4 HOH A 87 1087 1087 HOH HOH . 
D 4 HOH A 88 1088 1088 HOH HOH . 
D 4 HOH A 89 1089 1089 HOH HOH . 
D 4 HOH A 90 1090 1090 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 . . . B 2 12.813 9.865 38.763 1 19.28 ? PG GNP 201 A 1 
HETATM 2 O O1G GNP . . . B 2 12.222 10.737 37.669 1 19.03 ? O1G GNP 201 A 1 
HETATM 3 O O2G GNP . . . B 2 13.66 8.732 38.217 1 19.66 ? O2G GNP 201 A 1 
HETATM 4 O O3G GNP . . . B 2 13.711 10.596 39.713 1 18.43 ? O3G GNP 201 A 1 
HETATM 5 N N3B GNP . . . B 2 11.608 9.212 39.593 1 16.08 ? N3B GNP 201 A 1 
HETATM 6 P PB GNP . . . B 2 10.331 9.977 40.19 1 14.38 ? PB GNP 201 A 1 
HETATM 7 O O1B GNP . . . B 2 9.838 10.961 39.199 1 13.11 ? O1B GNP 201 A 1 
HETATM 8 O O2B GNP . . . B 2 10.675 10.57 41.513 1 14.7 ? O2B GNP 201 A 1 
HETATM 9 O O3A GNP . . . B 2 9.232 8.918 40.458 1 13.62 ? O3A GNP 201 A 1 
HETATM 10 P PA GNP . . . B 2 8.132 8.346 39.516 1 14.11 ? PA GNP 201 A 1 
HETATM 11 O O1A GNP . . . B 2 8.838 7.978 38.27 1 14.45 ? O1A GNP 201 A 1 
HETATM 12 O O2A GNP . . . B 2 6.92 9.184 39.394 1 12.26 ? O2A GNP 201 A 1 
HETATM 13 O O5' GNP . . . B 2 7.64 7.044 40.24 1 13.72 ? O5' GNP 201 A 1 
HETATM 14 C C5' GNP . . . B 2 8.542 6.031 40.687 1 14.54 ? C5' GNP 201 A 1 
HETATM 15 C C4' GNP . . . B 2 7.791 4.718 40.882 1 14.57 ? C4' GNP 201 A 1 
HETATM 16 O O4' GNP . . . B 2 6.994 4.768 42.089 1 14.55 ? O4' GNP 201 A 1 
HETATM 17 C C3' GNP . . . B 2 6.805 4.338 39.777 1 16.26 ? C3' GNP 201 A 1 
HETATM 18 O O3' GNP . . . B 2 6.791 2.918 39.654 1 16.58 ? O3' GNP 201 A 1 
HETATM 19 C C2' GNP . . . B 2 5.482 4.924 40.286 1 16.48 ? C2' GNP 201 A 1 
HETATM 20 O O2' GNP . . . B 2 4.303 4.316 39.783 1 16.92 ? O2' GNP 201 A 1 
HETATM 21 C C1' GNP . . . B 2 5.617 4.664 41.785 1 14.59 ? C1' GNP 201 A 1 
HETATM 22 N N9 GNP . . . B 2 4.9 5.621 42.618 1 14.48 ? N9 GNP 201 A 1 
HETATM 23 C C8 GNP . . . B 2 4.931 6.998 42.547 1 12.7 ? C8 GNP 201 A 1 
HETATM 24 N N7 GNP . . . B 2 4.18 7.569 43.449 1 13.12 ? N7 GNP 201 A 1 
HETATM 25 C C5 GNP . . . B 2 3.631 6.512 44.164 1 13.63 ? C5 GNP 201 A 1 
HETATM 26 C C6 GNP . . . B 2 2.726 6.505 45.251 1 14.62 ? C6 GNP 201 A 1 
HETATM 27 O O6 GNP . . . B 2 2.242 7.499 45.816 1 12.69 ? O6 GNP 201 A 1 
HETATM 28 N N1 GNP . . . B 2 2.407 5.195 45.679 1 13.27 ? N1 GNP 201 A 1 
HETATM 29 C C2 GNP . . . B 2 2.911 4.042 45.109 1 14.38 ? C2 GNP 201 A 1 
HETATM 30 N N2 GNP . . . B 2 2.518 2.866 45.623 1 13.72 ? N2 GNP 201 A 1 
HETATM 31 N N3 GNP . . . B 2 3.742 4.041 44.077 1 14.44 ? N3 GNP 201 A 1 
HETATM 32 C C4 GNP . . . B 2 4.058 5.302 43.657 1 14.03 ? C4 GNP 201 A 1 
#
_model_server_stats.io_time_ms              38 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           280 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           32 
#