data_5CKV # _model_server_result.job_id AYbLaCNEGA9CNfskUfY6gA _model_server_result.datetime_utc '2024-11-18 21:43:15' _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 5ckv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"T","auth_seq_id":509}' # _entry.id 5CKV # _exptl.entry_id 5CKV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 204.225 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description TRYPTOPHAN _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 120 _cell.entry_id 5CKV _cell.length_a 204.76 _cell.length_b 204.76 _cell.length_c 66.774 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CKV _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W _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' 5_554 x-y,-y,-z-2/3 1 0 0 0 -1 0 0 0 -1 0 0 -44.516 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 I N N ? 5 T 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 SG CYS 97 A CYS 87 1_555 J MN MN . A MN 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.693 ? metalc ? metalc2 A NE2 HIS 379 A HIS 369 1_555 J MN MN . A MN 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc3 A OE2 GLU 421 A GLU 411 1_555 J MN MN . A MN 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc4 A OD2 ASP 451 A ASP 441 1_555 J MN MN . A MN 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? metalc ? metalc5 J MN MN . A MN 508 1_555 V O HOH . A HOH 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? metalc ? metalc6 B SG CYS 97 B CYS 87 1_555 M MN MN . B MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.599 ? metalc ? metalc7 B NE2 HIS 379 B HIS 369 1_555 M MN MN . B MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? metalc ? metalc8 B OE2 GLU 421 B GLU 411 1_555 M MN MN . B MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? metalc ? metalc9 B OD2 ASP 451 B ASP 441 1_555 M MN MN . B MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? # _chem_comp.formula 'C11 H12 N2 O2' _chem_comp.formula_weight 204.225 _chem_comp.id TRP _chem_comp.mon_nstd_flag y _chem_comp.name TRYPTOPHAN _chem_comp.type 'l-peptide linking' _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 N CA TRP sing 323 n n N H TRP sing 324 n n N H2 TRP sing 325 n n CA C TRP sing 326 n n CA CB TRP sing 327 n n CA HA TRP sing 328 n n C O TRP doub 329 n n C OXT TRP sing 330 n n CB CG TRP sing 331 n n CB HB2 TRP sing 332 n n CB HB3 TRP sing 333 n n CG CD1 TRP doub 334 n y CG CD2 TRP sing 335 n y CD1 NE1 TRP sing 336 n y CD1 HD1 TRP sing 337 n n CD2 CE2 TRP doub 338 n y CD2 CE3 TRP sing 339 n y NE1 CE2 TRP sing 340 n y NE1 HE1 TRP sing 341 n n CE2 CZ2 TRP sing 342 n y CE3 CZ3 TRP doub 343 n y CE3 HE3 TRP sing 344 n n CZ2 CH2 TRP doub 345 n y CZ2 HZ2 TRP sing 346 n n CZ3 CH2 TRP sing 347 n y CZ3 HZ3 TRP sing 348 n n CH2 HH2 TRP sing 349 n n OXT HXT TRP sing 350 n n # _atom_sites.entry_id 5CKV _atom_sites.fract_transf_matrix[1][1] 0.004884 _atom_sites.fract_transf_matrix[1][2] 0.00282 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005639 _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] 0.014976 _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 C 2 CL A 1 501 5 CL CL . D 3 SO4 A 1 502 2 SO4 SO4 . E 3 SO4 A 1 503 3 SO4 SO4 . F 3 SO4 A 1 504 1 SO4 SO4 . G 4 GOL A 1 505 4 GOL GOL . H 4 GOL A 1 506 7 GOL GOL . I 5 TRP A 1 507 1 TRP TRP . J 6 MN A 1 508 2 MN MN . K 7 PHE A 1 509 3 PHE PHE . L 2 CL B 1 501 4 CL CL . M 6 MN B 1 502 1 MN MN . N 3 SO4 B 1 503 1 SO4 SO4 . O 3 SO4 B 1 504 4 SO4 SO4 . P 4 GOL B 1 505 6 GOL GOL . Q 4 GOL B 1 506 11 GOL GOL . R 4 GOL B 1 507 15 GOL GOL . S 8 TYR B 1 508 1 TYR TYR . T 5 TRP B 1 509 2 TRP TRP . U 7 PHE B 1 510 2 PHE PHE . V 9 HOH A 1 601 25 HOH HOH . V 9 HOH A 2 602 54 HOH HOH . V 9 HOH A 3 603 14 HOH HOH . V 9 HOH A 4 604 48 HOH HOH . V 9 HOH A 5 605 49 HOH HOH . V 9 HOH A 6 606 12 HOH HOH . V 9 HOH A 7 607 15 HOH HOH . V 9 HOH A 8 608 6 HOH HOH . V 9 HOH A 9 609 23 HOH HOH . V 9 HOH A 10 610 39 HOH HOH . V 9 HOH A 11 611 4 HOH HOH . V 9 HOH A 12 612 29 HOH HOH . V 9 HOH A 13 613 33 HOH HOH . V 9 HOH A 14 614 51 HOH HOH . V 9 HOH A 15 615 16 HOH HOH . V 9 HOH A 16 616 34 HOH HOH . V 9 HOH A 17 617 18 HOH HOH . V 9 HOH A 18 618 61 HOH HOH . W 9 HOH B 1 601 63 HOH HOH . W 9 HOH B 2 602 11 HOH HOH . W 9 HOH B 3 603 5 HOH HOH . W 9 HOH B 4 604 2 HOH HOH . W 9 HOH B 5 605 30 HOH HOH . W 9 HOH B 6 606 9 HOH HOH . W 9 HOH B 7 607 1 HOH HOH . W 9 HOH B 8 608 26 HOH HOH . W 9 HOH B 9 609 10 HOH HOH . W 9 HOH B 10 610 32 HOH HOH . W 9 HOH B 11 611 56 HOH HOH . W 9 HOH B 12 612 41 HOH HOH . W 9 HOH B 13 613 62 HOH HOH . W 9 HOH B 14 614 3 HOH HOH . W 9 HOH B 15 615 31 HOH HOH . W 9 HOH B 16 616 57 HOH HOH . W 9 HOH B 17 617 40 HOH HOH . W 9 HOH B 18 618 60 HOH HOH . W 9 HOH B 19 619 59 HOH HOH . W 9 HOH B 20 620 24 HOH HOH . W 9 HOH B 21 621 19 HOH HOH . W 9 HOH B 22 622 58 HOH HOH . W 9 HOH B 23 623 52 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 N N TRP . . . T 5 110.213 -10.183 -22.573 1 30.63 ? N TRP 509 B 1 HETATM 2 C CA TRP . . . T 5 111.486 -9.802 -23.185 1 42.96 ? CA TRP 509 B 1 HETATM 3 C C TRP . . . T 5 112.189 -10.997 -23.813 1 42.69 ? C TRP 509 B 1 HETATM 4 O O TRP . . . T 5 113.125 -10.81 -24.588 1 45.16 ? O TRP 509 B 1 HETATM 5 C CB TRP . . . T 5 112.42 -9.168 -22.156 1 33.89 ? CB TRP 509 B 1 HETATM 6 C CG TRP . . . T 5 112.748 -10.105 -21.036 1 41.87 ? CG TRP 509 B 1 HETATM 7 C CD1 TRP . . . T 5 111.992 -10.346 -19.931 1 37.41 ? CD1 TRP 509 B 1 HETATM 8 C CD2 TRP . . . T 5 113.907 -10.936 -20.917 1 31.82 ? CD2 TRP 509 B 1 HETATM 9 N NE1 TRP . . . T 5 112.603 -11.272 -19.132 1 34.74 ? NE1 TRP 509 B 1 HETATM 10 C CE2 TRP . . . T 5 113.783 -11.65 -19.711 1 32.78 ? CE2 TRP 509 B 1 HETATM 11 C CE3 TRP . . . T 5 115.035 -11.146 -21.711 1 45.47 ? CE3 TRP 509 B 1 HETATM 12 C CZ2 TRP . . . T 5 114.747 -12.556 -19.274 1 31.82 ? CZ2 TRP 509 B 1 HETATM 13 C CZ3 TRP . . . T 5 115.995 -12.051 -21.278 1 38.5 ? CZ3 TRP 509 B 1 HETATM 14 C CH2 TRP . . . T 5 115.845 -12.74 -20.068 1 32.51 ? CH2 TRP 509 B 1 HETATM 15 O OXT TRP . . . T 5 111.854 -12.159 -23.553 1 45.4 ? OXT TRP 509 B 1 HETATM 16 H HA TRP . . . T 5 111.32 -9.15 -23.884 1 51.55 ? HA TRP 509 B 1 HETATM 17 H HB2 TRP . . . T 5 113.249 -8.916 -22.591 1 40.66 ? HB2 TRP 509 B 1 HETATM 18 H HB3 TRP . . . T 5 111.99 -8.385 -21.778 1 40.66 ? HB3 TRP 509 B 1 HETATM 19 H HD1 TRP . . . T 5 111.174 -9.942 -19.748 1 44.89 ? HD1 TRP 509 B 1 HETATM 20 H HE1 TRP . . . T 5 112.299 -11.563 -18.382 1 41.69 ? HE1 TRP 509 B 1 HETATM 21 H HE3 TRP . . . T 5 115.143 -10.688 -22.513 1 54.56 ? HE3 TRP 509 B 1 HETATM 22 H HZ2 TRP . . . T 5 114.647 -13.018 -18.473 1 38.18 ? HZ2 TRP 509 B 1 HETATM 23 H HZ3 TRP . . . T 5 116.753 -12.197 -21.796 1 46.2 ? HZ3 TRP 509 B 1 HETATM 24 H HH2 TRP . . . T 5 116.502 -13.342 -19.802 1 39.01 ? HH2 TRP 509 B 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 46 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 24 #