data_3CR5 # _model_server_result.job_id rhvUeYNjMRGf1qdev-SBPA _model_server_result.datetime_utc '2024-11-05 19:35:16' _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 3cr5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":94}' # _entry.id 3CR5 # _exptl.entry_id 3CR5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 340.419 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,5-BIS(4-AMIDINOPHENOXY)PENTANE _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 3CR5 _cell.length_a 62.883 _cell.length_b 62.883 _cell.length_c 50.084 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3CR5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 8_555 -y,-x,-z+1/2 0 -1 0 -1 0 0 0 0 -1 0 0 25.042 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C 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 NE2 HIS 16 X HIS 15 1_555 D ZN ZN . X ZN 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.995 ? metalc ? metalc2 A O SER 19 X SER 18 1_555 E CA CA . X CA 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? metalc ? metalc3 A O GLU 22 X GLU 21 1_555 E CA CA . X CA 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? metalc ? metalc4 A O ASP 24 X ASP 23 1_555 E CA CA . X CA 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? metalc ? metalc5 A NE2 HIS 26 X HIS 25 1_555 D ZN ZN . X ZN 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.237 ? metalc ? metalc6 A O LYS 27 X LYS 26 1_555 E CA CA . X CA 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc7 A OE1 GLU 32 X GLU 31 1_555 E CA CA . X CA 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc8 A OE2 GLU 32 X GLU 31 1_555 E CA CA . X CA 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.468 ? metalc ? metalc9 A OD1 ASP 62 X ASP 61 1_555 F CA CA . X CA 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc10 A OD1 ASP 64 X ASP 63 1_555 F CA CA . X CA 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc11 A OD1 ASP 66 X ASP 65 1_555 F CA CA . X CA 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc12 A O GLU 68 X GLU 67 1_555 F CA CA . X CA 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc13 A OE1 GLU 73 X GLU 72 1_555 F CA CA . X CA 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? metalc ? metalc14 A OE2 GLU 73 X GLU 72 1_555 F CA CA . X CA 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.64 ? metalc ? metalc15 E CA CA . X CA 92 1_555 G O HOH . X HOH 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.435 ? metalc ? metalc16 F CA CA . X CA 93 1_555 G O HOH . X HOH 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? # _chem_comp.formula 'C19 H24 N4 O2' _chem_comp.formula_weight 340.419 _chem_comp.id PNT _chem_comp.mon_nstd_flag . _chem_comp.name 1,5-BIS(4-AMIDINOPHENOXY)PENTANE _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 C1 C2 PNT doub 260 n y C1 C6 PNT sing 261 n y C1 O1 PNT sing 262 n n C2 C3 PNT sing 263 n y C2 H2 PNT sing 264 n n C3 C4 PNT doub 265 n y C3 H3 PNT sing 266 n n C4 C5 PNT sing 267 n y C4 C9 PNT sing 268 n n C5 C6 PNT doub 269 n y C5 H5 PNT sing 270 n n C6 H6 PNT sing 271 n n C7 C8 PNT sing 272 n n C7 O1 PNT sing 273 n n C7 H71 PNT sing 274 n n C7 H72 PNT sing 275 n n C8 C10 PNT sing 276 n n C8 H81 PNT sing 277 n n C8 H82 PNT sing 278 n n C9 N1 PNT doub 279 n n C9 N2 PNT sing 280 n n C10 C8' PNT sing 281 n n C10 H101 PNT sing 282 n n C10 H102 PNT sing 283 n n C1' C2' PNT doub 284 n y C1' C6' PNT sing 285 n y C1' O1' PNT sing 286 n n C2' C3' PNT sing 287 n y C2' H2' PNT sing 288 n n C3' C4' PNT doub 289 n y C3' H3' PNT sing 290 n n C4' C5' PNT sing 291 n y C4' C9' PNT sing 292 n n C5' C6' PNT doub 293 n y C5' H5' PNT sing 294 n n C6' H6' PNT sing 295 n n C7' C8' PNT sing 296 n n C7' O1' PNT sing 297 n n C7' "H7'1" PNT sing 298 n n C7' "H7'2" PNT sing 299 n n C8' "H8'1" PNT sing 300 n n C8' "H8'2" PNT sing 301 n n C9' N1' PNT doub 302 n n C9' N2' PNT sing 303 n n N1 HN1 PNT sing 304 n n N2 HN2 PNT sing 305 n n N2 HN3 PNT sing 306 n n N1' "HN'1" PNT sing 307 n n N2' "HN'2" PNT sing 308 n n N2' "HN'3" PNT sing 309 n n # _atom_sites.entry_id 3CR5 _atom_sites.fract_transf_matrix[1][1] 0.015903 _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] 0.015903 _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] 0.019966 _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 PNT X 1 94 94 PNT PNT . C 2 PNT X 1 95 95 PNT PNT . D 3 ZN X 1 96 91 ZN ZN . E 4 CA X 1 92 92 CA CA . F 4 CA X 1 93 93 CA CA . G 5 HOH X 1 97 1 HOH HOH . G 5 HOH X 2 98 2 HOH HOH . G 5 HOH X 3 99 3 HOH HOH . G 5 HOH X 4 100 4 HOH HOH . G 5 HOH X 5 101 5 HOH HOH . G 5 HOH X 6 102 6 HOH HOH . G 5 HOH X 7 103 7 HOH HOH . G 5 HOH X 8 104 8 HOH HOH . G 5 HOH X 9 105 9 HOH HOH . G 5 HOH X 10 106 10 HOH HOH . G 5 HOH X 11 107 11 HOH HOH . G 5 HOH X 12 108 12 HOH HOH . G 5 HOH X 13 109 13 HOH HOH . G 5 HOH X 14 110 14 HOH HOH . G 5 HOH X 15 111 15 HOH HOH . G 5 HOH X 16 112 16 HOH HOH . G 5 HOH X 17 113 17 HOH HOH . G 5 HOH X 18 114 18 HOH HOH . G 5 HOH X 19 115 19 HOH HOH . G 5 HOH X 20 116 20 HOH HOH . G 5 HOH X 21 117 21 HOH HOH . G 5 HOH X 22 118 22 HOH HOH . G 5 HOH X 23 119 23 HOH HOH . G 5 HOH X 24 120 24 HOH HOH . G 5 HOH X 25 121 25 HOH HOH . G 5 HOH X 26 122 26 HOH HOH . G 5 HOH X 27 123 27 HOH HOH . G 5 HOH X 28 124 28 HOH HOH . G 5 HOH X 29 125 29 HOH HOH . G 5 HOH X 30 126 30 HOH HOH . G 5 HOH X 31 127 31 HOH HOH . G 5 HOH X 32 128 32 HOH HOH . G 5 HOH X 33 129 33 HOH HOH . G 5 HOH X 34 130 34 HOH HOH . G 5 HOH X 35 131 35 HOH HOH . G 5 HOH X 36 132 36 HOH HOH . G 5 HOH X 37 133 37 HOH HOH . G 5 HOH X 38 134 38 HOH HOH . G 5 HOH X 39 135 39 HOH HOH . G 5 HOH X 40 136 40 HOH HOH . G 5 HOH X 41 137 41 HOH HOH . G 5 HOH X 42 138 42 HOH HOH . G 5 HOH X 43 139 43 HOH HOH . G 5 HOH X 44 140 44 HOH HOH . G 5 HOH X 45 141 45 HOH HOH . G 5 HOH X 46 142 46 HOH HOH . G 5 HOH X 47 143 47 HOH HOH . G 5 HOH X 48 144 48 HOH HOH . G 5 HOH X 49 145 49 HOH HOH . G 5 HOH X 50 146 50 HOH HOH . G 5 HOH X 51 147 51 HOH HOH . G 5 HOH X 52 148 52 HOH HOH . G 5 HOH X 53 149 53 HOH HOH . G 5 HOH X 54 150 54 HOH HOH . G 5 HOH X 55 151 55 HOH HOH . G 5 HOH X 56 152 56 HOH HOH . G 5 HOH X 57 153 57 HOH HOH . G 5 HOH X 58 154 58 HOH HOH . G 5 HOH X 59 155 59 HOH HOH . G 5 HOH X 60 156 60 HOH HOH . G 5 HOH X 61 157 61 HOH HOH . G 5 HOH X 62 158 62 HOH HOH . G 5 HOH X 63 159 63 HOH HOH . G 5 HOH X 64 160 64 HOH HOH . G 5 HOH X 65 161 65 HOH HOH . G 5 HOH X 66 162 66 HOH HOH . G 5 HOH X 67 163 67 HOH HOH . G 5 HOH X 68 164 68 HOH HOH . G 5 HOH X 69 165 69 HOH HOH . G 5 HOH X 70 166 70 HOH HOH . G 5 HOH X 71 167 71 HOH HOH . G 5 HOH X 72 168 72 HOH HOH . G 5 HOH X 73 169 73 HOH HOH . G 5 HOH X 74 170 74 HOH HOH . G 5 HOH X 75 171 75 HOH HOH . G 5 HOH X 76 172 76 HOH HOH . G 5 HOH X 77 173 77 HOH HOH . G 5 HOH X 78 174 78 HOH HOH . G 5 HOH X 79 175 79 HOH HOH . G 5 HOH X 80 176 80 HOH HOH . G 5 HOH X 81 177 81 HOH HOH . G 5 HOH X 82 178 82 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 C C1 PNT . . . B 2 -0.996 2.643 24.634 0.5 68.34 ? C1 PNT 94 X 1 HETATM 2 C C2 PNT . . . B 2 0.176 2.061 25.099 0.5 67.57 ? C2 PNT 94 X 1 HETATM 3 C C3 PNT . . . B 2 1.17 2.798 25.72 0.5 67.8 ? C3 PNT 94 X 1 HETATM 4 C C4 PNT . . . B 2 0.983 4.157 25.868 0.5 68.01 ? C4 PNT 94 X 1 HETATM 5 C C5 PNT . . . B 2 -0.185 4.747 25.42 0.5 67.86 ? C5 PNT 94 X 1 HETATM 6 C C6 PNT . . . B 2 -1.171 4.002 24.801 0.5 68.1 ? C6 PNT 94 X 1 HETATM 7 C C7 PNT . . . B 2 -1.916 0.567 23.78 0.5 67.29 ? C7 PNT 94 X 1 HETATM 8 C C8 PNT . . . B 2 -0.484 0.184 23.441 0.5 68.37 ? C8 PNT 94 X 1 HETATM 9 C C9 PNT . . . B 2 2.003 5.023 26.526 0.5 68.61 ? C9 PNT 94 X 1 HETATM 10 C C10 PNT . . . B 2 -0.082 -0.968 24.335 0.5 67.66 ? C10 PNT 94 X 1 HETATM 11 C C1' PNT . . . B 2 2.574 -0.796 25.477 0.5 66.9 ? C1' PNT 94 X 1 HETATM 12 C C2' PNT . . . B 2 2.153 0.491 25.154 0.5 66.33 ? C2' PNT 94 X 1 HETATM 13 C C3' PNT . . . B 2 2.965 1.405 24.501 0.5 66.35 ? C3' PNT 94 X 1 HETATM 14 C C4' PNT . . . B 2 4.25 1.019 24.188 0.5 66.52 ? C4' PNT 94 X 1 HETATM 15 C C5' PNT . . . B 2 4.686 -0.259 24.5 0.5 66.57 ? C5' PNT 94 X 1 HETATM 16 C C6' PNT . . . B 2 3.86 -1.168 25.141 0.5 66.88 ? C6' PNT 94 X 1 HETATM 17 C C7' PNT . . . B 2 0.561 -1.343 26.727 0.5 66.64 ? C7' PNT 94 X 1 HETATM 18 C C8' PNT . . . B 2 -0.346 -0.582 25.779 0.5 66.82 ? C8' PNT 94 X 1 HETATM 19 C C9' PNT . . . B 2 5.202 1.93 23.486 0.5 67.13 ? C9' PNT 94 X 1 HETATM 20 O O1 PNT . . . B 2 -1.997 1.945 24.013 0.5 67.79 ? O1 PNT 94 X 1 HETATM 21 O O1' PNT . . . B 2 1.771 -1.714 26.11 0.5 65.96 ? O1' PNT 94 X 1 HETATM 22 N N1 PNT . . . B 2 3.232 4.842 26.331 0.5 69.27 ? N1 PNT 94 X 1 HETATM 23 N N2 PNT . . . B 2 1.604 6.019 27.313 0.5 69.71 ? N2 PNT 94 X 1 HETATM 24 N N1' PNT . . . B 2 5.143 3.187 23.586 0.5 67.44 ? N1' PNT 94 X 1 HETATM 25 N N2' PNT . . . B 2 6.14 1.368 22.725 0.5 68.12 ? N2' PNT 94 X 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 25 #