data_6CSM # _model_server_result.job_id WB1fGzOucfAxtMRBV_Tm0g _model_server_result.datetime_utc '2025-02-26 21:55:03' _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 6csm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":401}' # _entry.id 6CSM # _exptl.entry_id 6CSM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.436 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description RETINAL _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 97.43 _cell.angle_gamma 90 _cell.entry_id 6CSM _cell.length_a 56.78 _cell.length_b 150.03 _cell.length_c 90.69 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6CSM _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H,I,N,O 1 1 C,D,J,K,L,M,P 2 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 E N N ? 2 H N N ? 2 J N N ? 2 L 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 disulf ? disulf1 A SG CYS 3 A CYS 6 1_555 B SG CYS 3 B CYS 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 18 A CYS 21 1_555 A SG CYS 216 A CYS 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 B SG CYS 18 B CYS 21 1_555 B SG CYS 216 B CYS 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 C SG CYS 3 C CYS 6 1_555 D SG CYS 3 D CYS 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 C SG CYS 18 C CYS 21 1_555 C SG CYS 216 C CYS 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 D SG CYS 18 D CYS 21 1_555 D SG CYS 216 D CYS 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A NZ LYS 235 A LYS 238 1_555 E C15 RET . A RET 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.473 ? covale ? covale2 B NZ LYS 235 B LYS 238 1_555 H C15 RET . B RET 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.469 ? covale ? covale3 C NZ LYS 235 C LYS 238 1_555 J C15 RET . C RET 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.47 ? covale ? covale4 D NZ LYS 235 D LYS 238 1_555 L C15 RET . D RET 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.473 ? # _chem_comp.formula 'C20 H28 O' _chem_comp.formula_weight 284.436 _chem_comp.id RET _chem_comp.mon_nstd_flag . _chem_comp.name RETINAL _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 RET sing 330 n n C1 C6 RET sing 331 n n C1 C16 RET sing 332 n n C1 C17 RET sing 333 n n C2 C3 RET sing 334 n n C2 H21 RET sing 335 n n C2 H22 RET sing 336 n n C3 C4 RET sing 337 n n C3 H31 RET sing 338 n n C3 H32 RET sing 339 n n C4 C5 RET sing 340 n n C4 H41 RET sing 341 n n C4 H42 RET sing 342 n n C5 C6 RET doub 343 n n C5 C18 RET sing 344 n n C6 C7 RET sing 345 n n C7 C8 RET doub 346 e n C7 H7 RET sing 347 n n C8 C9 RET sing 348 n n C8 H8 RET sing 349 n n C9 C10 RET doub 350 e n C9 C19 RET sing 351 n n C10 C11 RET sing 352 n n C10 H10 RET sing 353 n n C11 C12 RET doub 354 e n C11 H11 RET sing 355 n n C12 C13 RET sing 356 n n C12 H12 RET sing 357 n n C13 C14 RET doub 358 e n C13 C20 RET sing 359 n n C14 C15 RET sing 360 n n C14 H14 RET sing 361 n n C15 O1 RET doub 362 n n C15 H15 RET sing 363 n n C16 H161 RET sing 364 n n C16 H162 RET sing 365 n n C16 H163 RET sing 366 n n C17 H171 RET sing 367 n n C17 H172 RET sing 368 n n C17 H173 RET sing 369 n n C18 H181 RET sing 370 n n C18 H182 RET sing 371 n n C18 H183 RET sing 372 n n C19 H191 RET sing 373 n n C19 H192 RET sing 374 n n C19 H193 RET sing 375 n n C20 H201 RET sing 376 n n C20 H202 RET sing 377 n n C20 H203 RET sing 378 n n # _atom_sites.entry_id 6CSM _atom_sites.fract_transf_matrix[1][1] 0.017612 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002297 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006665 _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] 0.01112 _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 E 2 RET A 1 401 401 RET RET . F 3 OLA A 1 402 1 OLA OLA . G 3 OLA A 1 403 3 OLA OLA . H 2 RET B 1 401 401 RET RET . I 3 OLA B 1 402 2 OLA OLA . J 2 RET C 1 401 401 RET RET . K 3 OLA C 1 402 5 OLA OLA . L 2 RET D 1 401 401 RET RET . M 3 OLA D 1 402 4 OLA OLA . N 4 HOH A 1 501 3 HOH HOH . O 4 HOH B 1 501 1 HOH HOH . O 4 HOH B 2 502 4 HOH HOH . P 4 HOH C 1 501 2 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 RET . . . J 2 32.311 67.905 49.946 1 47.44 ? C1 RET 401 C 1 HETATM 2 C C2 RET . . . J 2 31.277 66.9 49.453 1 50.05 ? C2 RET 401 C 1 HETATM 3 C C3 RET . . . J 2 30.989 67.046 47.972 1 42.84 ? C3 RET 401 C 1 HETATM 4 C C4 RET . . . J 2 30.352 68.406 47.764 1 51.47 ? C4 RET 401 C 1 HETATM 5 C C5 RET . . . J 2 31.289 69.471 48.279 1 51.74 ? C5 RET 401 C 1 HETATM 6 C C6 RET . . . J 2 32.181 69.263 49.257 1 49.74 ? C6 RET 401 C 1 HETATM 7 C C7 RET . . . J 2 33.013 70.451 49.611 1 45.56 ? C7 RET 401 C 1 HETATM 8 C C8 RET . . . J 2 33.967 70.487 50.542 1 45.58 ? C8 RET 401 C 1 HETATM 9 C C9 RET . . . J 2 34.757 71.694 50.847 1 50.09 ? C9 RET 401 C 1 HETATM 10 C C10 RET . . . J 2 35.682 71.601 51.811 1 50.05 ? C10 RET 401 C 1 HETATM 11 C C11 RET . . . J 2 36.536 72.713 52.214 1 53.94 ? C11 RET 401 C 1 HETATM 12 C C12 RET . . . J 2 37.406 72.465 53.188 1 55.94 ? C12 RET 401 C 1 HETATM 13 C C13 RET . . . J 2 38.34 73.478 53.711 1 50.21 ? C13 RET 401 C 1 HETATM 14 C C14 RET . . . J 2 39.173 73.114 54.696 1 51.29 ? C14 RET 401 C 1 HETATM 15 C C15 RET . . . J 2 40.138 74.035 55.285 1 53.36 ? C15 RET 401 C 1 HETATM 16 C C16 RET . . . J 2 32.09 68.023 51.452 1 45.64 ? C16 RET 401 C 1 HETATM 17 C C17 RET . . . J 2 33.691 67.322 49.669 1 45.18 ? C17 RET 401 C 1 HETATM 18 C C18 RET . . . J 2 31.212 70.826 47.643 1 48.92 ? C18 RET 401 C 1 HETATM 19 C C19 RET . . . J 2 34.539 72.978 50.102 1 48.44 ? C19 RET 401 C 1 HETATM 20 C C20 RET . . . J 2 38.356 74.872 53.157 1 43.34 ? C20 RET 401 C 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 20 #