data_4GRT # _model_server_result.job_id Hr39VQrgNz02Ufy1b_lRKg _model_server_result.datetime_utc '2024-11-16 00:30:07' _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 4grt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":17}' # _entry.id 4GRT # _exptl.entry_id 4GRT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 723.862 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description BIS(GAMMA-GLUTAMYL-CYSTEINYL-GLYCINYL)SPERMIDINE _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 58.15 _cell.entry_id 4GRT _cell.length_a 119.77 _cell.length_b 84.98 _cell.length_c 63.32 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4GRT _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'B 1 1 2' # _pdbx_struct_assembly.method_details PISA,PQS _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 _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' 2_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 164.613714 72.184775 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 disulf ? disulf1 A SG CYS 73 A CYS 90 1_555 A SG CYS 73 A CYS 90 2_665 ? ? ? ? ? ? ? ? ? ? ? ? 2.868 ? covale ? covale1 C SG6 GCG . A GCG 17 1_555 A SG CYS 41 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? # _chem_comp.formula 'C27 H49 N9 O10 S2' _chem_comp.formula_weight 723.862 _chem_comp.id GCG _chem_comp.mon_nstd_flag . _chem_comp.name BIS(GAMMA-GLUTAMYL-CYSTEINYL-GLYCINYL)SPERMIDINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms TRYPANOTHIONE # 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 CA1 GCG sing 174 n n C1 O11 GCG sing 175 n n C1 O21 GCG doub 176 n n CA1 CB1 GCG sing 177 n n CA1 N1 GCG sing 178 n n CA1 HA1 GCG sing 179 n n O11 HO11 GCG sing 180 n n CB1 CG1 GCG sing 181 n n CB1 HB11 GCG sing 182 n n CB1 HB12 GCG sing 183 n n N1 HN11 GCG sing 184 n n N1 HN12 GCG sing 185 n n CG1 CD1 GCG sing 186 n n CG1 HG11 GCG sing 187 n n CG1 HG12 GCG sing 188 n n CD1 OD1 GCG doub 189 n n CD1 N2 GCG sing 190 n n N2 CA2 GCG sing 191 n n N2 H2 GCG sing 192 n n CA2 C2 GCG sing 193 n n CA2 CB2 GCG sing 194 n n CA2 HA2 GCG sing 195 n n C2 O2 GCG doub 196 n n C2 N3 GCG sing 197 n n CB2 SG2 GCG sing 198 n n CB2 HB21 GCG sing 199 n n CB2 HB22 GCG sing 200 n n SG2 HG2 GCG sing 201 n n N3 CA3 GCG sing 202 n n N3 H3 GCG sing 203 n n CA3 C3 GCG sing 204 n n CA3 HA31 GCG sing 205 n n CA3 HA32 GCG sing 206 n n C3 O3 GCG doub 207 n n C3 N1S GCG sing 208 n n N1S C2S GCG sing 209 n n N1S HNS1 GCG sing 210 n n C2S C3S GCG sing 211 n n C2S H2S1 GCG sing 212 n n C2S H2S2 GCG sing 213 n n C3S C4S GCG sing 214 n n C3S H3S1 GCG sing 215 n n C3S H3S2 GCG sing 216 n n C4S C5S GCG sing 217 n n C4S H4S1 GCG sing 218 n n C4S H4S2 GCG sing 219 n n C5S N6S GCG sing 220 n n C5S H5S1 GCG sing 221 n n C5S H5S2 GCG sing 222 n n C7S N6S GCG sing 223 n n C7S C8S GCG sing 224 n n C7S H7S1 GCG sing 225 n n C7S H7S2 GCG sing 226 n n N6S HNS6 GCG sing 227 n n C8S C9S GCG sing 228 n n C8S H8S1 GCG sing 229 n n C8S H8S2 GCG sing 230 n n C9S N11 GCG sing 231 n n C9S H9S1 GCG sing 232 n n C9S H9S2 GCG sing 233 n n N11 C5 GCG sing 234 n n N11 H10S GCG sing 235 n n C5 CA5 GCG sing 236 n n C5 O5 GCG doub 237 n n N5 CA5 GCG sing 238 n n N5 C6 GCG sing 239 n n N5 H5 GCG sing 240 n n CA5 HA51 GCG sing 241 n n CA5 HA52 GCG sing 242 n n C6 CA6 GCG sing 243 n n C6 O6 GCG doub 244 n n N6 CA6 GCG sing 245 n n N6 CD7 GCG sing 246 n n N6 H6 GCG sing 247 n n CA6 CB6 GCG sing 248 n n CA6 HA6 GCG sing 249 n n CB6 SG6 GCG sing 250 n n CB6 HB61 GCG sing 251 n n CB6 HB62 GCG sing 252 n n SG6 HG6 GCG sing 253 n n CD7 CG7 GCG sing 254 n n CD7 OD7 GCG doub 255 n n C7 CA7 GCG sing 256 n n C7 O17 GCG sing 257 n n C7 O27 GCG doub 258 n n CA7 CB7 GCG sing 259 n n CA7 N7 GCG sing 260 n n CA7 HA7 GCG sing 261 n n O17 HO17 GCG sing 262 n n CB7 CG7 GCG sing 263 n n CB7 HB71 GCG sing 264 n n CB7 HB72 GCG sing 265 n n N7 HN71 GCG sing 266 n n N7 HN72 GCG sing 267 n n CG7 HG71 GCG sing 268 n n CG7 HG72 GCG sing 269 n n # _atom_sites.entry_id 4GRT _atom_sites.fract_transf_matrix[1][1] 0.008349 _atom_sites.fract_transf_matrix[1][2] -0.005187 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013853 _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] 0.015793 _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 FAD A 1 479 479 FAD FAD . C 3 GCG A 1 17 17 GCG TS3 . # 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 GCG . . . C 3 69.796 36.079 16.121 1 40.26 ? C1 GCG 17 A 1 HETATM 2 C CA1 GCG . . . C 3 69.159 35.336 17.28 1 40.26 ? CA1 GCG 17 A 1 HETATM 3 O O11 GCG . . . C 3 70.04 37.295 16.246 1 40.26 ? O11 GCG 17 A 1 HETATM 4 O O21 GCG . . . C 3 70.035 35.432 15.088 1 40.26 ? O21 GCG 17 A 1 HETATM 5 C CB1 GCG . . . C 3 67.856 34.643 16.838 1 40.26 ? CB1 GCG 17 A 1 HETATM 6 N N1 GCG . . . C 3 68.926 36.258 18.421 1 40.26 ? N1 GCG 17 A 1 HETATM 7 C CG1 GCG . . . C 3 66.953 35.41 15.856 1 40.26 ? CG1 GCG 17 A 1 HETATM 8 C CD1 GCG . . . C 3 66.334 36.662 16.451 1 40.26 ? CD1 GCG 17 A 1 HETATM 9 O OD1 GCG . . . C 3 67.003 37.683 16.594 1 40.26 ? OD1 GCG 17 A 1 HETATM 10 N N2 GCG . . . C 3 65.049 36.578 16.787 1 40.26 ? N2 GCG 17 A 1 HETATM 11 C CA2 GCG . . . C 3 64.287 37.686 17.386 1 40.26 ? CA2 GCG 17 A 1 HETATM 12 C C2 GCG . . . C 3 62.82 37.268 17.457 1 40.26 ? C2 GCG 17 A 1 HETATM 13 O O2 GCG . . . C 3 62.015 37.914 18.146 1 40.26 ? O2 GCG 17 A 1 HETATM 14 C CB2 GCG . . . C 3 64.392 38.967 16.55 1 40.26 ? CB2 GCG 17 A 1 HETATM 15 S SG2 GCG . . . C 3 63.313 39.008 15.122 1 40.26 ? SG2 GCG 17 A 1 HETATM 16 N N3 GCG . . . C 3 62.461 36.399 16.503 1 40.26 ? N3 GCG 17 A 1 HETATM 17 C CA3 GCG . . . C 3 61.126 35.824 16.32 1 40.26 ? CA3 GCG 17 A 1 HETATM 18 C C3 GCG . . . C 3 60.287 35.634 17.558 1 40.26 ? C3 GCG 17 A 1 HETATM 19 O O3 GCG . . . C 3 59.494 36.51 17.895 1 40.26 ? O3 GCG 17 A 1 HETATM 20 N N1S GCG . . . C 3 60.685 34.686 18.396 1 40.26 ? N1S GCG 17 A 1 HETATM 21 C C2S GCG . . . C 3 59.977 34.382 19.634 1 40.26 ? C2S GCG 17 A 1 HETATM 22 C C3S GCG . . . C 3 60.604 33.267 20.463 1 40.26 ? C3S GCG 17 A 1 HETATM 23 C C4S GCG . . . C 3 60.718 33.729 21.918 1 40.26 ? C4S GCG 17 A 1 HETATM 24 C C5S GCG . . . C 3 59.423 34.408 22.376 1 40.26 ? C5S GCG 17 A 1 HETATM 25 C C7S GCG . . . C 3 58.874 36.644 22.928 1 40.26 ? C7S GCG 17 A 1 HETATM 26 N N6S GCG . . . C 3 59.708 35.493 23.304 1 40.26 ? N6S GCG 17 A 1 HETATM 27 C C8S GCG . . . C 3 58.335 37.311 24.2 1 40.26 ? C8S GCG 17 A 1 HETATM 28 C C9S GCG . . . C 3 58.107 38.804 24.019 1 40.26 ? C9S GCG 17 A 1 HETATM 29 N N11 GCG . . . C 3 59.357 39.464 23.668 1 40.26 ? N11 GCG 17 A 1 HETATM 30 C C5 GCG . . . C 3 59.474 40.763 23.461 1 40.26 ? C5 GCG 17 A 1 HETATM 31 N N5 GCG . . . C 3 61.539 41.016 21.842 1 40.26 ? N5 GCG 17 A 1 HETATM 32 C CA5 GCG . . . C 3 60.849 41.202 23.109 1 40.26 ? CA5 GCG 17 A 1 HETATM 33 O O5 GCG . . . C 3 58.742 41.566 24.021 1 40.26 ? O5 GCG 17 A 1 HETATM 34 C C6 GCG . . . C 3 62.189 41.997 21.219 1 40.26 ? C6 GCG 17 A 1 HETATM 35 N N6 GCG . . . C 3 63.347 40.247 19.929 1 40.26 ? N6 GCG 17 A 1 HETATM 36 C CA6 GCG . . . C 3 62.898 41.636 19.931 1 5.66 ? CA6 GCG 17 A 1 HETATM 37 O O6 GCG . . . C 3 62.021 43.182 21.495 1 40.26 ? O6 GCG 17 A 1 HETATM 38 C CB6 GCG . . . C 3 62.007 41.956 18.738 1 40.26 ? CB6 GCG 17 A 1 HETATM 39 S SG6 GCG . . . C 3 62.944 42.474 17.272 1 40.26 ? SG6 GCG 17 A 1 HETATM 40 C CD7 GCG . . . C 3 64.395 39.901 20.663 1 40.26 ? CD7 GCG 17 A 1 HETATM 41 C C7 GCG . . . C 3 63.36 37.593 23.233 1 40.26 ? C7 GCG 17 A 1 HETATM 42 C CA7 GCG . . . C 3 64.733 37.04 22.822 1 40.26 ? CA7 GCG 17 A 1 HETATM 43 O O17 GCG . . . C 3 63.21 37.96 24.422 1 40.26 ? O17 GCG 17 A 1 HETATM 44 O O27 GCG . . . C 3 62.449 37.628 22.373 1 40.26 ? O27 GCG 17 A 1 HETATM 45 C CB7 GCG . . . C 3 65.516 38.022 21.931 1 40.26 ? CB7 GCG 17 A 1 HETATM 46 N N7 GCG . . . C 3 64.621 35.702 22.167 1 40.26 ? N7 GCG 17 A 1 HETATM 47 C CG7 GCG . . . C 3 64.816 38.446 20.632 1 40.26 ? CG7 GCG 17 A 1 HETATM 48 O OD7 GCG . . . C 3 65.018 40.719 21.347 1 40.26 ? OD7 GCG 17 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 48 #