data_6VYA # _model_server_result.job_id v2_HBvIDuQk7q4G5Nbfvhw _model_server_result.datetime_utc '2024-11-05 14:37:39' _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 6vya # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"IA","auth_seq_id":501}' # _entry.id 6VYA # _exptl.entry_id 6VYA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 283.325 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (3S,8aS)-3-(1H-indol-3-ylmethyl)hexahydropyrrolo[1,2-a]pyrazine-1,4-dione _entity.pdbx_number_of_molecules 24 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 78.255 _cell.angle_beta 65.051 _cell.angle_gamma 66.396 _cell.entry_id 6VYA _cell.length_a 157.893 _cell.length_b 163.069 _cell.length_c 167.857 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VYA _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall 'P 1' _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? tetrameric 4 author_defined_assembly 1 ? tetrameric 4 author_defined_assembly 2 ? tetrameric 4 author_defined_assembly 3 ? tetrameric 4 author_defined_assembly 4 ? tetrameric 4 author_defined_assembly 5 ? tetrameric 4 author_defined_assembly 6 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,D,E,Y,Z,AA,BA,EA,FA,GA,HA 1 1 C,V,W,X,CA,DA,OB,PB,QB,RB,SB,TB 2 1 F,G,H,I,IA,JA,KA,LA,MA,NA,OA,PA 3 1 J,K,L,M,QA,RA,SA,TA,UA,VA,WA,XA 4 1 N,O,P,Q,YA,ZA,AB,BB,CB,DB,EB,FB 5 1 R,S,T,U,GB,HB,IB,JB,KB,LB,MB,NB 6 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 ? 2 Y N N ? 2 AA N N ? 2 CA N N ? 2 EA N N ? 2 GA N N ? 2 IA N N ? 2 KA N N ? 2 MA N N ? 2 OA N N ? 2 QA N N ? 2 SA N N ? 2 UA N N ? 2 WA N N ? 2 YA N N ? 2 AB N N ? 2 CB N N ? 2 EB N N ? 2 GB N N ? 2 IB N N ? 2 KB N N ? 2 MB N N ? 2 OB N N ? 2 QB N N ? 2 SB N N # _chem_comp.formula 'C16 H17 N3 O2' _chem_comp.formula_weight 283.325 _chem_comp.id QRP _chem_comp.mon_nstd_flag . _chem_comp.name (3S,8aS)-3-(1H-indol-3-ylmethyl)hexahydropyrrolo[1,2-a]pyrazine-1,4-dione _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Brevianamide F;cyclo-L-Trp-L-Pro' # 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 O C QRP doub 300 n n C CA QRP sing 301 n n C NAU QRP sing 302 n n CA N QRP sing 303 n n N CAN QRP sing 304 n n N HN QRP sing 305 n n CB CA QRP sing 306 n n CA HA QRP sing 307 n n CB CG QRP sing 308 n n CB HB QRP sing 309 n n CB HBA QRP sing 310 n n CD2 CG QRP sing 311 n y CG CD1 QRP doub 312 n y CAN OAA QRP doub 313 n n CAJ CAH QRP sing 314 n n CAH CAI QRP sing 315 n n CAH HAH QRP sing 316 n n CAH HAHA QRP sing 317 n n CAT CAI QRP sing 318 n n CAI HAI QRP sing 319 n n CAI HAIA QRP sing 320 n n NAU CAJ QRP sing 321 n n CAJ HAJ QRP sing 322 n n CAJ HAJA QRP sing 323 n n CAT CAN QRP sing 324 n n NAU CAT QRP sing 325 n n CAT HAT QRP sing 326 n n NE1 CD1 QRP sing 327 n y CD1 HD1 QRP sing 328 n n CE3 CD2 QRP doub 329 n y CD2 CE2 QRP sing 330 n y CE2 NE1 QRP sing 331 n y CZ2 CE2 QRP doub 332 n y CZ3 CE3 QRP sing 333 n y CE3 HE3 QRP sing 334 n n CZ3 CH2 QRP doub 335 n y CH2 CZ2 QRP sing 336 n y CH2 HH2 QRP sing 337 n n CZ2 HZ2 QRP sing 338 n n CZ3 HZ3 QRP sing 339 n n NE1 HNE1 QRP sing 340 n n # _atom_sites.entry_id 6VYA _atom_sites.fract_transf_matrix[1][1] 0.006333 _atom_sites.fract_transf_matrix[1][2] -0.002768 _atom_sites.fract_transf_matrix[1][3] -0.002833 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006692 _atom_sites.fract_transf_matrix[2][3] -0.000279 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.006576 _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 Y 2 QRP C 1 501 501 QRP QRP . Z 3 DST C 1 502 601 DST DST . AA 2 QRP A 1 501 501 QRP QRP . BA 3 DST A 1 502 601 DST DST . CA 2 QRP V 1 501 501 QRP QRP . DA 3 DST V 1 502 601 DST DST . EA 2 QRP E 1 501 501 QRP QRP . FA 3 DST E 1 502 601 DST DST . GA 2 QRP G 1 501 501 QRP QRP . HA 3 DST G 1 502 601 DST DST . IA 2 QRP B 1 501 501 QRP QRP . JA 3 DST B 1 502 601 DST DST . KA 2 QRP D 1 501 501 QRP QRP . LA 3 DST D 1 502 601 DST DST . MA 2 QRP F 1 501 501 QRP QRP . NA 3 DST F 1 502 601 DST DST . OA 2 QRP H 1 501 501 QRP QRP . PA 3 DST H 1 502 601 DST DST . QA 2 QRP I 1 501 501 QRP QRP . RA 3 DST I 1 502 601 DST DST . SA 2 QRP J 1 501 501 QRP QRP . TA 3 DST J 1 502 601 DST DST . UA 2 QRP K 1 501 501 QRP QRP . VA 3 DST K 1 502 601 DST DST . WA 2 QRP L 1 501 501 QRP QRP . XA 3 DST L 1 502 601 DST DST . YA 2 QRP M 1 501 501 QRP QRP . ZA 3 DST M 1 502 601 DST DST . AB 2 QRP N 1 501 501 QRP QRP . BB 3 DST N 1 502 601 DST DST . CB 2 QRP O 1 501 501 QRP QRP . DB 3 DST O 1 502 601 DST DST . EB 2 QRP P 1 501 501 QRP QRP . FB 3 DST P 1 502 601 DST DST . GB 2 QRP Q 1 501 501 QRP QRP . HB 3 DST Q 1 502 601 DST DST . IB 2 QRP R 1 501 501 QRP QRP . JB 3 DST R 1 502 601 DST DST . KB 2 QRP S 1 501 501 QRP QRP . LB 3 DST S 1 502 601 DST DST . MB 2 QRP T 1 501 501 QRP QRP . NB 3 DST T 1 502 601 DST DST . OB 2 QRP U 1 501 501 QRP QRP . PB 3 DST U 1 502 601 DST DST . QB 2 QRP W 1 501 501 QRP QRP . RB 3 DST W 1 502 601 DST DST . SB 2 QRP X 1 501 501 QRP QRP . TB 3 DST X 1 502 601 DST DST . # 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 C QRP . . . IA 2 114.289 34.111 -67.816 1 130.11 ? C QRP 501 B 1 HETATM 2 N N QRP . . . IA 2 116.063 35.732 -68.342 1 132.78 ? N QRP 501 B 1 HETATM 3 O O QRP . . . IA 2 113.442 33.372 -68.213 1 107.53 ? O QRP 501 B 1 HETATM 4 C CA QRP . . . IA 2 114.606 35.466 -68.474 1 137.23 ? CA QRP 501 B 1 HETATM 5 C CB QRP . . . IA 2 114.186 35.494 -69.944 1 111.05 ? CB QRP 501 B 1 HETATM 6 C CG QRP . . . IA 2 112.91 36.336 -70.091 1 118.2 ? CG QRP 501 B 1 HETATM 7 O OAA QRP . . . IA 2 118.062 35.39 -67.169 1 130.93 ? OAA QRP 501 B 1 HETATM 8 C CAH QRP . . . IA 2 116.009 32.462 -64.83 1 150.33 ? CAH QRP 501 B 1 HETATM 9 C CAI QRP . . . IA 2 117 33.576 -65.215 1 152.58 ? CAI QRP 501 B 1 HETATM 10 C CAJ QRP . . . IA 2 114.88 32.396 -65.941 1 144.89 ? CAJ QRP 501 B 1 HETATM 11 C CAN QRP . . . IA 2 116.887 35.209 -67.22 1 137.12 ? CAN QRP 501 B 1 HETATM 12 C CAT QRP . . . IA 2 116.166 34.483 -66.056 1 145.46 ? CAT QRP 501 B 1 HETATM 13 N NAU QRP . . . IA 2 115.06 33.705 -66.654 1 136.89 ? NAU QRP 501 B 1 HETATM 14 C CD1 QRP . . . IA 2 112.794 37.56 -70.74 1 142.22 ? CD1 QRP 501 B 1 HETATM 15 C CD2 QRP . . . IA 2 111.529 35.972 -69.711 1 127.4 ? CD2 QRP 501 B 1 HETATM 16 N NE1 QRP . . . IA 2 111.605 37.855 -70.677 1 150.29 ? NE1 QRP 501 B 1 HETATM 17 C CE2 QRP . . . IA 2 110.771 37.086 -70.146 1 145.31 ? CE2 QRP 501 B 1 HETATM 18 C CE3 QRP . . . IA 2 110.878 34.926 -69.072 1 124.92 ? CE3 QRP 501 B 1 HETATM 19 C CH2 QRP . . . IA 2 108.742 36.085 -69.311 1 127.24 ? CH2 QRP 501 B 1 HETATM 20 C CZ2 QRP . . . IA 2 109.41 37.135 -69.949 1 141.85 ? CZ2 QRP 501 B 1 HETATM 21 C CZ3 QRP . . . IA 2 109.488 34.975 -68.87 1 127.79 ? CZ3 QRP 501 B 1 HETATM 22 H HN QRP . . . IA 2 116.51 36.29 -69.042 1 159.09 ? HN QRP 501 B 1 HETATM 23 H HA QRP . . . IA 2 114.041 36.239 -67.969 1 164.44 ? HA QRP 501 B 1 HETATM 24 H HB QRP . . . IA 2 113.994 34.482 -70.286 1 133.02 ? HB QRP 501 B 1 HETATM 25 H HBA QRP . . . IA 2 114.98 35.932 -70.54 1 133.02 ? HBA QRP 501 B 1 HETATM 26 H HAH QRP . . . IA 2 116.559 31.531 -64.902 1 180.15 ? HAH QRP 501 B 1 HETATM 27 H HAHA QRP . . . IA 2 115.52 32.795 -63.921 1 180.15 ? HAHA QRP 501 B 1 HETATM 28 H HAI QRP . . . IA 2 117.363 34.093 -64.333 1 182.85 ? HAI QRP 501 B 1 HETATM 29 H HAIA QRP . . . IA 2 117.83 33.174 -65.787 1 182.85 ? HAIA QRP 501 B 1 HETATM 30 H HAJ QRP . . . IA 2 113.895 32.332 -65.49 1 173.63 ? HAJ QRP 501 B 1 HETATM 31 H HAJA QRP . . . IA 2 115.046 31.562 -66.614 1 173.63 ? HAJA QRP 501 B 1 HETATM 32 H HAT QRP . . . IA 2 115.844 35.255 -65.368 1 174.31 ? HAT QRP 501 B 1 HETATM 33 H HD1 QRP . . . IA 2 113.587 38.134 -71.204 1 170.42 ? HD1 QRP 501 B 1 HETATM 34 H HE3 QRP . . . IA 2 111.443 34.069 -68.727 1 149.67 ? HE3 QRP 501 B 1 HETATM 35 H HH2 QRP . . . IA 2 107.671 36.126 -69.158 1 152.45 ? HH2 QRP 501 B 1 HETATM 36 H HZ2 QRP . . . IA 2 108.85 37.997 -70.292 1 169.98 ? HZ2 QRP 501 B 1 HETATM 37 H HZ3 QRP . . . IA 2 108.987 34.154 -68.373 1 153.1 ? HZ3 QRP 501 B 1 HETATM 38 H HNE1 QRP . . . IA 2 111.372 38.831 -70.714 1 180.1 ? HNE1 QRP 501 B 1 # _model_server_stats.io_time_ms 81 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 290 _model_server_stats.query_time_ms 225 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 38 #