data_5VLM # _model_server_result.job_id vt0XAyliTmq8n0ocAld45A _model_server_result.datetime_utc '2024-11-29 04:25:15' _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 5vlm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":301}' # _entry.id 5VLM # _exptl.entry_id 5VLM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 372.526 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CRYSTAL VIOLET' _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 97.1 _cell.angle_gamma 90 _cell.entry_id 5VLM _cell.length_a 97.397 _cell.length_b 79.229 _cell.length_c 105.579 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VLM _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 1 1 C,D,K,L 2 1 E,F,M,N 3 1 G,H,O,P 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 'C25 H30 N3 1' _chem_comp.formula_weight 372.526 _chem_comp.id CVI _chem_comp.mon_nstd_flag . _chem_comp.name 'CRYSTAL VIOLET' _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 CVI doub 70 n n C1 C8 CVI sing 71 n n C1 C14 CVI sing 72 n n C2 C3 CVI sing 73 n n C2 C7 CVI sing 74 n n C3 C4 CVI doub 75 n n C3 H31 CVI sing 76 n n C4 C5 CVI sing 77 n n C4 H41 CVI sing 78 n n C5 C6 CVI sing 79 n n C5 N1 CVI doub 80 n n C6 C7 CVI doub 81 n n C6 H61 CVI sing 82 n n C7 H71 CVI sing 83 n n C8 C9 CVI doub 84 n y C8 C13 CVI sing 85 n y C9 C10 CVI sing 86 n y C9 H91 CVI sing 87 n n C10 C11 CVI doub 88 n y C10 H101 CVI sing 89 n n C11 C12 CVI sing 90 n y C11 N2 CVI sing 91 n n C12 C13 CVI doub 92 n y C12 H121 CVI sing 93 n n C13 H131 CVI sing 94 n n C14 C15 CVI doub 95 n y C14 C19 CVI sing 96 n y C15 C16 CVI sing 97 n y C15 H151 CVI sing 98 n n C16 C17 CVI doub 99 n y C16 H161 CVI sing 100 n n C17 C18 CVI sing 101 n y C17 N3 CVI sing 102 n n C18 C19 CVI doub 103 n y C18 H181 CVI sing 104 n n C19 H191 CVI sing 105 n n C20 N1 CVI sing 106 n n C20 H201 CVI sing 107 n n C20 H202 CVI sing 108 n n C20 H203 CVI sing 109 n n C21 N1 CVI sing 110 n n C21 H211 CVI sing 111 n n C21 H212 CVI sing 112 n n C21 H213 CVI sing 113 n n C22 N2 CVI sing 114 n n C22 H221 CVI sing 115 n n C22 H222 CVI sing 116 n n C22 H223 CVI sing 117 n n C23 N2 CVI sing 118 n n C23 H231 CVI sing 119 n n C23 H232 CVI sing 120 n n C23 H233 CVI sing 121 n n C24 N3 CVI sing 122 n n C24 H241 CVI sing 123 n n C24 H242 CVI sing 124 n n C24 H243 CVI sing 125 n n C25 N3 CVI sing 126 n n C25 H251 CVI sing 127 n n C25 H252 CVI sing 128 n n C25 H253 CVI sing 129 n n # _atom_sites.entry_id 5VLM _atom_sites.fract_transf_matrix[1][1] 0.010267 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00128 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012622 _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] 0.009545 _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 CVI A 1 301 301 CVI CVI . J 2 CVI B 1 301 301 CVI CVI . K 2 CVI C 1 301 301 CVI CVI . L 2 CVI D 1 301 301 CVI CVI . M 2 CVI E 1 301 301 CVI CVI . N 2 CVI F 1 301 301 CVI CVI . O 2 CVI G 1 301 301 CVI CVI . P 2 CVI H 1 301 301 CVI CVI . # 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 CVI . . . O 2 2.931 40.305 -55.86 1 76.27 ? C1 CVI 301 G 1 HETATM 2 C C2 CVI . . . O 2 3.1 38.872 -55.974 1 75.37 ? C2 CVI 301 G 1 HETATM 3 C C3 CVI . . . O 2 3.999 38.151 -55.156 1 74.82 ? C3 CVI 301 G 1 HETATM 4 C C4 CVI . . . O 2 4.152 36.773 -55.273 1 75.24 ? C4 CVI 301 G 1 HETATM 5 C C5 CVI . . . O 2 3.413 36.016 -56.227 1 75.68 ? C5 CVI 301 G 1 HETATM 6 C C6 CVI . . . O 2 2.512 36.749 -57.05 1 75.38 ? C6 CVI 301 G 1 HETATM 7 C C7 CVI . . . O 2 2.365 38.124 -56.921 1 75.37 ? C7 CVI 301 G 1 HETATM 8 C C8 CVI . . . O 2 2.45 41.09 -56.97 1 75.19 ? C8 CVI 301 G 1 HETATM 9 C C9 CVI . . . O 2 1.516 42.131 -56.765 1 73.6 ? C9 CVI 301 G 1 HETATM 10 C C10 CVI . . . O 2 1.049 42.908 -57.818 1 73.09 ? C10 CVI 301 G 1 HETATM 11 C C11 CVI . . . O 2 1.489 42.694 -59.158 1 75.21 ? C11 CVI 301 G 1 HETATM 12 C C12 CVI . . . O 2 2.431 41.647 -59.348 1 77.19 ? C12 CVI 301 G 1 HETATM 13 C C13 CVI . . . O 2 2.899 40.876 -58.29 1 76.57 ? C13 CVI 301 G 1 HETATM 14 C C14 CVI . . . O 2 3.329 41.028 -54.676 1 78.76 ? C14 CVI 301 G 1 HETATM 15 C C15 CVI . . . O 2 3.061 40.566 -53.368 1 82.59 ? C15 CVI 301 G 1 HETATM 16 C C16 CVI . . . O 2 3.455 41.294 -52.248 1 80.88 ? C16 CVI 301 G 1 HETATM 17 C C17 CVI . . . O 2 4.138 42.544 -52.363 1 78.82 ? C17 CVI 301 G 1 HETATM 18 C C18 CVI . . . O 2 4.392 42.996 -53.686 1 78.64 ? C18 CVI 301 G 1 HETATM 19 C C19 CVI . . . O 2 4 42.263 -54.8 1 78.16 ? C19 CVI 301 G 1 HETATM 20 C C20 CVI . . . O 2 4.509 33.937 -55.47 1 78.21 ? C20 CVI 301 G 1 HETATM 21 C C21 CVI . . . O 2 2.845 33.815 -57.294 1 75.76 ? C21 CVI 301 G 1 HETATM 22 C C22 CVI . . . O 2 0.043 44.566 -60.046 1 76.33 ? C22 CVI 301 G 1 HETATM 23 C C23 CVI . . . O 2 1.444 43.285 -61.593 1 76.69 ? C23 CVI 301 G 1 HETATM 24 C C24 CVI . . . O 2 4.27 42.807 -49.857 1 78.99 ? C24 CVI 301 G 1 HETATM 25 C C25 CVI . . . O 2 5.225 44.548 -51.287 1 77.62 ? C25 CVI 301 G 1 HETATM 26 N N1 CVI . . . O 2 3.578 34.615 -56.338 1 76.54 ? N1 CVI 301 G 1 HETATM 27 N N2 CVI . . . O 2 1.003 43.496 -60.234 1 75.89 ? N2 CVI 301 G 1 HETATM 28 N N3 CVI . . . O 2 4.533 43.279 -51.202 1 78.75 ? N3 CVI 301 G 1 HETATM 29 H H31 CVI . . . O 2 4.498 38.61 -54.52 1 89.78 ? H31 CVI 301 G 1 HETATM 30 H H41 CVI . . . O 2 4.757 36.352 -54.707 1 90.29 ? H41 CVI 301 G 1 HETATM 31 H H61 CVI . . . O 2 1.999 36.312 -57.691 1 90.46 ? H61 CVI 301 G 1 HETATM 32 H H71 CVI . . . O 2 1.766 38.569 -57.477 1 90.44 ? H71 CVI 301 G 1 HETATM 33 H H91 CVI . . . O 2 1.209 42.298 -55.903 1 88.32 ? H91 CVI 301 G 1 HETATM 34 H H101 CVI . . . O 2 0.432 43.58 -57.635 1 87.71 ? H101 CVI 301 G 1 HETATM 35 H H121 CVI . . . O 2 2.755 41.462 -60.2 1 92.63 ? H121 CVI 301 G 1 HETATM 36 H H131 CVI . . . O 2 3.514 40.198 -58.455 1 91.89 ? H131 CVI 301 G 1 HETATM 37 H H151 CVI . . . O 2 2.62 39.755 -53.255 1 99.11 ? H151 CVI 301 G 1 HETATM 38 H H161 CVI . . . O 2 3.262 40.95 -51.406 1 97.06 ? H161 CVI 301 G 1 HETATM 39 H H181 CVI . . . O 2 4.833 43.803 -53.826 1 94.37 ? H181 CVI 301 G 1 HETATM 40 H H191 CVI . . . O 2 4.183 42.594 -55.65 1 93.79 ? H191 CVI 301 G 1 HETATM 41 H H201 CVI . . . O 2 5.403 34.289 -55.606 1 93.86 ? H201 CVI 301 G 1 HETATM 42 H H202 CVI . . . O 2 4.528 32.978 -55.619 1 93.86 ? H202 CVI 301 G 1 HETATM 43 H H203 CVI . . . O 2 4.257 34.103 -54.548 1 93.86 ? H203 CVI 301 G 1 HETATM 44 H H211 CVI . . . O 2 2.322 33.154 -56.813 1 90.91 ? H211 CVI 301 G 1 HETATM 45 H H212 CVI . . . O 2 2.246 34.345 -57.843 1 90.91 ? H212 CVI 301 G 1 HETATM 46 H H213 CVI . . . O 2 3.463 33.345 -57.875 1 90.91 ? H213 CVI 301 G 1 HETATM 47 H H221 CVI . . . O 2 -0.774 44.423 -60.549 1 91.59 ? H221 CVI 301 G 1 HETATM 48 H H222 CVI . . . O 2 0.449 45.394 -60.347 1 91.59 ? H222 CVI 301 G 1 HETATM 49 H H223 CVI . . . O 2 -0.184 44.653 -59.107 1 91.59 ? H223 CVI 301 G 1 HETATM 50 H H231 CVI . . . O 2 2.084 42.562 -61.68 1 92.03 ? H231 CVI 301 G 1 HETATM 51 H H232 CVI . . . O 2 1.844 44.101 -61.931 1 92.03 ? H232 CVI 301 G 1 HETATM 52 H H233 CVI . . . O 2 0.668 43.073 -62.135 1 92.03 ? H233 CVI 301 G 1 HETATM 53 H H241 CVI . . . O 2 3.806 41.955 -49.847 1 94.79 ? H241 CVI 301 G 1 HETATM 54 H H242 CVI . . . O 2 5.12 42.7 -49.401 1 94.79 ? H242 CVI 301 G 1 HETATM 55 H H243 CVI . . . O 2 3.735 43.454 -49.371 1 94.79 ? H243 CVI 301 G 1 HETATM 56 H H251 CVI . . . O 2 6.082 44.457 -50.841 1 93.15 ? H251 CVI 301 G 1 HETATM 57 H H252 CVI . . . O 2 4.74 45.277 -50.87 1 93.15 ? H252 CVI 301 G 1 HETATM 58 H H253 CVI . . . O 2 5.381 44.767 -52.219 1 93.15 ? H253 CVI 301 G 1 # _model_server_stats.io_time_ms 32 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 58 #