data_5VLG # _model_server_result.job_id H4N0csQJ2SPedEDNqYH3Pg _model_server_result.datetime_utc '2024-11-25 16:37:06' _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 5vlg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":300}' # _entry.id 5VLG # _exptl.entry_id 5VLG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 329.458 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MALACHITE GREEN' _entity.pdbx_number_of_molecules 8 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 101.69 _cell.angle_gamma 90 _cell.entry_id 5VLG _cell.length_a 100.145 _cell.length_b 85.985 _cell.length_c 102.275 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VLG _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 PISA dimeric 2 author_and_software_defined_assembly 3 PISA dimeric 2 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,I,J,Q 1 1 C,D,K,L,R,S 2 1 E,F,M,N,T,U 3 1 G,H,O,P,V,W 4 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 I N N ? 2 J N N ? 2 K N N ? 2 L N N ? 2 M N N ? 2 N N N ? 2 O N N ? 2 P N N # _chem_comp.formula 'C23 H25 N2 1' _chem_comp.formula_weight 329.458 _chem_comp.id MGR _chem_comp.mon_nstd_flag . _chem_comp.name 'MALACHITE GREEN' _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 MGR sing 237 n n C1 C8 MGR sing 238 n n C1 C14 MGR doub 239 n n C2 C3 MGR doub 240 n y C2 C7 MGR sing 241 n y C3 C4 MGR sing 242 n y C3 H31 MGR sing 243 n n C4 C5 MGR doub 244 n y C4 H41 MGR sing 245 n n C5 C6 MGR sing 246 n y C5 H51 MGR sing 247 n n C6 C7 MGR doub 248 n y C6 H61 MGR sing 249 n n C7 H71 MGR sing 250 n n C8 C9 MGR doub 251 n y C8 C13 MGR sing 252 n y C9 C10 MGR sing 253 n y C9 H91 MGR sing 254 n n C10 C11 MGR doub 255 n y C10 H101 MGR sing 256 n n C11 C12 MGR sing 257 n y C11 N2 MGR sing 258 n n C12 C13 MGR doub 259 n y C12 H121 MGR sing 260 n n C13 H131 MGR sing 261 n n C14 C15 MGR sing 262 n n C14 C19 MGR sing 263 n n C15 C16 MGR doub 264 n n C15 H151 MGR sing 265 n n C16 C17 MGR sing 266 n n C16 H161 MGR sing 267 n n C17 C18 MGR sing 268 n n C17 N3 MGR doub 269 n n C18 C19 MGR doub 270 n n C18 H181 MGR sing 271 n n C19 H191 MGR sing 272 n n C22 N2 MGR sing 273 n n C22 H221 MGR sing 274 n n C22 H222 MGR sing 275 n n C22 H223 MGR sing 276 n n C23 N2 MGR sing 277 n n C23 H231 MGR sing 278 n n C23 H232 MGR sing 279 n n C23 H233 MGR sing 280 n n C24 N3 MGR sing 281 n n C24 H241 MGR sing 282 n n C24 H242 MGR sing 283 n n C24 H243 MGR sing 284 n n C25 N3 MGR sing 285 n n C25 H251 MGR sing 286 n n C25 H252 MGR sing 287 n n C25 H253 MGR sing 288 n n # _atom_sites.entry_id 5VLG _atom_sites.fract_transf_matrix[1][1] 0.009986 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002067 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01163 _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] 0.009985 _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 I 2 MGR A 1 300 300 MGR MGR . J 2 MGR B 1 300 300 MGR MGR . K 2 MGR C 1 300 300 MGR MGR . L 2 MGR D 1 300 300 MGR MGR . M 2 MGR E 1 300 300 MGR MGR . N 2 MGR F 1 300 300 MGR MGR . O 2 MGR G 1 300 300 MGR MGR . P 2 MGR H 1 300 300 MGR MGR . Q 3 HOH B 1 401 5 HOH HOH . Q 3 HOH B 2 402 15 HOH HOH . Q 3 HOH B 3 403 6 HOH HOH . R 3 HOH C 1 401 1 HOH HOH . R 3 HOH C 2 402 9 HOH HOH . S 3 HOH D 1 401 7 HOH HOH . S 3 HOH D 2 402 10 HOH HOH . S 3 HOH D 3 403 4 HOH HOH . T 3 HOH E 1 401 17 HOH HOH . T 3 HOH E 2 402 8 HOH HOH . T 3 HOH E 3 403 11 HOH HOH . U 3 HOH F 1 401 3 HOH HOH . U 3 HOH F 2 402 13 HOH HOH . U 3 HOH F 3 403 2 HOH HOH . V 3 HOH G 1 401 12 HOH HOH . W 3 HOH H 1 401 14 HOH HOH . W 3 HOH H 2 402 16 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 MGR . . . N 2 7.317 41.204 -6.87 1 50.91 ? C1 MGR 300 F 1 HETATM 2 C C2 MGR . . . N 2 6.393 40.36 -5.993 1 51.33 ? C2 MGR 300 F 1 HETATM 3 C C3 MGR . . . N 2 5.891 40.884 -4.814 1 51.92 ? C3 MGR 300 F 1 HETATM 4 C C4 MGR . . . N 2 5.053 40.123 -4.016 1 52.76 ? C4 MGR 300 F 1 HETATM 5 C C5 MGR . . . N 2 4.719 38.835 -4.397 1 53.92 ? C5 MGR 300 F 1 HETATM 6 C C6 MGR . . . N 2 5.223 38.308 -5.576 1 53.83 ? C6 MGR 300 F 1 HETATM 7 C C7 MGR . . . N 2 6.059 39.071 -6.374 1 52.38 ? C7 MGR 300 F 1 HETATM 8 C C8 MGR . . . N 2 8.396 40.498 -7.691 1 50.11 ? C8 MGR 300 F 1 HETATM 9 C C9 MGR . . . N 2 8.631 40.868 -9.003 1 50.92 ? C9 MGR 300 F 1 HETATM 10 C C10 MGR . . . N 2 9.611 40.221 -9.74 1 52.15 ? C10 MGR 300 F 1 HETATM 11 C C11 MGR . . . N 2 10.355 39.2 -9.17 1 51.27 ? C11 MGR 300 F 1 HETATM 12 C C12 MGR . . . N 2 10.117 38.829 -7.859 1 50.13 ? C12 MGR 300 F 1 HETATM 13 C C13 MGR . . . N 2 9.139 39.477 -7.121 1 49.83 ? C13 MGR 300 F 1 HETATM 14 C C14 MGR . . . N 2 7.035 42.479 -7.075 1 53.39 ? C14 MGR 300 F 1 HETATM 15 C C15 MGR . . . N 2 8.149 43.522 -7.102 1 54.99 ? C15 MGR 300 F 1 HETATM 16 C C16 MGR . . . N 2 7.822 44.997 -7.335 1 56.28 ? C16 MGR 300 F 1 HETATM 17 C C17 MGR . . . N 2 6.378 45.449 -7.543 1 57.94 ? C17 MGR 300 F 1 HETATM 18 C C18 MGR . . . N 2 5.265 44.4 -7.523 1 57.6 ? C18 MGR 300 F 1 HETATM 19 C C19 MGR . . . N 2 5.59 42.924 -7.287 1 56.1 ? C19 MGR 300 F 1 HETATM 20 C C22 MGR . . . N 2 12.507 37.907 -9.252 1 51.63 ? C22 MGR 300 F 1 HETATM 21 C C23 MGR . . . N 2 11.289 38.434 -11.389 1 51.43 ? C23 MGR 300 F 1 HETATM 22 C C24 MGR . . . N 2 7.121 47.53 -8.348 1 60.46 ? C24 MGR 300 F 1 HETATM 23 C C25 MGR . . . N 2 4.882 47.27 -7.276 1 60.64 ? C25 MGR 300 F 1 HETATM 24 N N2 MGR . . . N 2 11.382 38.516 -9.939 1 51.38 ? N2 MGR 300 F 1 HETATM 25 N N3 MGR . . . N 2 6.121 46.662 -7.742 1 59.72 ? N3 MGR 300 F 1 HETATM 26 H H31 MGR . . . N 2 6.115 41.75 -4.558 1 62.33 ? H31 MGR 300 F 1 HETATM 27 H H41 MGR . . . N 2 4.716 40.477 -3.225 1 63.34 ? H41 MGR 300 F 1 HETATM 28 H H51 MGR . . . N 2 4.157 38.323 -3.861 1 64.74 ? H51 MGR 300 F 1 HETATM 29 H H61 MGR . . . N 2 4.997 37.443 -5.832 1 64.64 ? H61 MGR 300 F 1 HETATM 30 H H71 MGR . . . N 2 6.396 38.717 -7.165 1 62.9 ? H71 MGR 300 F 1 HETATM 31 H H91 MGR . . . N 2 8.135 41.553 -9.389 1 61.13 ? H91 MGR 300 F 1 HETATM 32 H H101 MGR . . . N 2 9.769 40.471 -10.622 1 62.61 ? H101 MGR 300 F 1 HETATM 33 H H121 MGR . . . N 2 10.614 38.145 -7.472 1 60.19 ? H121 MGR 300 F 1 HETATM 34 H H131 MGR . . . N 2 8.981 39.225 -6.239 1 59.83 ? H131 MGR 300 F 1 HETATM 35 H H151 MGR . . . N 2 9.031 43.26 -6.972 1 66.03 ? H151 MGR 300 F 1 HETATM 36 H H161 MGR . . . N 2 8.508 45.624 -7.349 1 67.57 ? H161 MGR 300 F 1 HETATM 37 H H181 MGR . . . N 2 4.382 44.663 -7.65 1 69.16 ? H181 MGR 300 F 1 HETATM 38 H H191 MGR . . . N 2 4.905 42.296 -7.272 1 67.36 ? H191 MGR 300 F 1 HETATM 39 H H221 MGR . . . N 2 12.19 37.18 -8.694 1 61.99 ? H221 MGR 300 F 1 HETATM 40 H H222 MGR . . . N 2 13.136 37.564 -9.905 1 61.99 ? H222 MGR 300 F 1 HETATM 41 H H223 MGR . . . N 2 12.945 38.572 -8.699 1 61.99 ? H223 MGR 300 F 1 HETATM 42 H H231 MGR . . . N 2 10.356 38.442 -11.654 1 61.75 ? H231 MGR 300 F 1 HETATM 43 H H232 MGR . . . N 2 11.705 37.613 -11.694 1 61.75 ? H232 MGR 300 F 1 HETATM 44 H H233 MGR . . . N 2 11.743 39.194 -11.785 1 61.75 ? H233 MGR 300 F 1 HETATM 45 H H241 MGR . . . N 2 7.897 47.584 -7.769 1 72.59 ? H241 MGR 300 F 1 HETATM 46 H H242 MGR . . . N 2 7.384 47.169 -9.209 1 72.59 ? H242 MGR 300 F 1 HETATM 47 H H243 MGR . . . N 2 6.747 48.417 -8.471 1 72.59 ? H243 MGR 300 F 1 HETATM 48 H H251 MGR . . . N 2 4.345 46.603 -6.822 1 72.8 ? H251 MGR 300 F 1 HETATM 49 H H252 MGR . . . N 2 4.389 47.62 -8.035 1 72.8 ? H252 MGR 300 F 1 HETATM 50 H H253 MGR . . . N 2 5.087 47.993 -6.663 1 72.8 ? H253 MGR 300 F 1 # _model_server_stats.io_time_ms 31 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 251 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 50 #