data_5VLM # _model_server_result.job_id '_UrC02s7LG-7KbscpsWTVw' _model_server_result.datetime_utc '2024-11-29 04:26:08' _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":"I","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 . . . I 2 -39.313 21.117 -8.777 1 50.65 ? C1 CVI 301 A 1 HETATM 2 C C2 CVI . . . I 2 -39.427 22.556 -8.904 1 53.47 ? C2 CVI 301 A 1 HETATM 3 C C3 CVI . . . I 2 -40.518 23.283 -8.378 1 54.58 ? C3 CVI 301 A 1 HETATM 4 C C4 CVI . . . I 2 -40.613 24.664 -8.5 1 56.64 ? C4 CVI 301 A 1 HETATM 5 C C5 CVI . . . I 2 -39.617 25.427 -9.172 1 58.47 ? C5 CVI 301 A 1 HETATM 6 C C6 CVI . . . I 2 -38.522 24.691 -9.705 1 57.9 ? C6 CVI 301 A 1 HETATM 7 C C7 CVI . . . I 2 -38.436 23.311 -9.57 1 56.03 ? C7 CVI 301 A 1 HETATM 8 C C8 CVI . . . I 2 -38.454 20.383 -9.677 1 46.34 ? C8 CVI 301 A 1 HETATM 9 C C9 CVI . . . I 2 -37.539 19.419 -9.195 1 44.53 ? C9 CVI 301 A 1 HETATM 10 C C10 CVI . . . I 2 -36.713 18.703 -10.055 1 43.84 ? C10 CVI 301 A 1 HETATM 11 C C11 CVI . . . I 2 -36.744 18.903 -11.469 1 43.76 ? C11 CVI 301 A 1 HETATM 12 C C12 CVI . . . I 2 -37.672 19.877 -11.938 1 44.54 ? C12 CVI 301 A 1 HETATM 13 C C13 CVI . . . I 2 -38.498 20.587 -11.073 1 45.13 ? C13 CVI 301 A 1 HETATM 14 C C14 CVI . . . I 2 -39.953 20.385 -7.704 1 53.03 ? C14 CVI 301 A 1 HETATM 15 C C15 CVI . . . I 2 -40.169 20.931 -6.416 1 54.45 ? C15 CVI 301 A 1 HETATM 16 C C16 CVI . . . I 2 -40.789 20.201 -5.405 1 56.59 ? C16 CVI 301 A 1 HETATM 17 C C17 CVI . . . I 2 -41.229 18.856 -5.603 1 59.06 ? C17 CVI 301 A 1 HETATM 18 C C18 CVI . . . I 2 -40.997 18.318 -6.899 1 56.43 ? C18 CVI 301 A 1 HETATM 19 C C19 CVI . . . I 2 -40.384 19.055 -7.907 1 54.41 ? C19 CVI 301 A 1 HETATM 20 C C20 CVI . . . I 2 -40.876 27.498 -8.717 1 65.18 ? C20 CVI 301 A 1 HETATM 21 C C21 CVI . . . I 2 -38.749 27.657 -9.961 1 60.45 ? C21 CVI 301 A 1 HETATM 22 C C22 CVI . . . I 2 -34.941 17.167 -11.89 1 41.07 ? C22 CVI 301 A 1 HETATM 23 C C23 CVI . . . I 2 -35.922 18.368 -13.78 1 41.69 ? C23 CVI 301 A 1 HETATM 24 C C24 CVI . . . I 2 -42.09 18.677 -3.231 1 67.38 ? C24 CVI 301 A 1 HETATM 25 C C25 CVI . . . I 2 -42.316 16.754 -4.724 1 65.78 ? C25 CVI 301 A 1 HETATM 26 N N1 CVI . . . I 2 -39.732 26.833 -9.29 1 61.4 ? N1 CVI 301 A 1 HETATM 27 N N2 CVI . . . I 2 -35.89 18.164 -12.349 1 42.14 ? N2 CVI 301 A 1 HETATM 28 N N3 CVI . . . I 2 -41.859 18.118 -4.549 1 64.08 ? N3 CVI 301 A 1 HETATM 29 H H31 CVI . . . I 2 -41.189 22.822 -7.928 1 65.49 ? H31 CVI 301 A 1 HETATM 30 H H41 CVI . . . I 2 -41.355 25.085 -8.13 1 67.97 ? H41 CVI 301 A 1 HETATM 31 H H61 CVI . . . I 2 -37.836 25.13 -10.154 1 69.48 ? H61 CVI 301 A 1 HETATM 32 H H71 CVI . . . I 2 -37.703 22.867 -9.933 1 67.24 ? H71 CVI 301 A 1 HETATM 33 H H91 CVI . . . I 2 -37.492 19.26 -8.28 1 53.43 ? H91 CVI 301 A 1 HETATM 34 H H101 CVI . . . I 2 -36.127 18.079 -9.691 1 52.61 ? H101 CVI 301 A 1 HETATM 35 H H121 CVI . . . I 2 -37.74 20.053 -12.849 1 53.44 ? H121 CVI 301 A 1 HETATM 36 H H131 CVI . . . I 2 -39.089 21.216 -11.42 1 54.15 ? H131 CVI 301 A 1 HETATM 37 H H151 CVI . . . I 2 -39.9 21.805 -6.247 1 65.34 ? H151 CVI 301 A 1 HETATM 38 H H161 CVI . . . I 2 -40.91 20.607 -4.577 1 67.91 ? H161 CVI 301 A 1 HETATM 39 H H181 CVI . . . I 2 -41.262 17.448 -7.095 1 67.72 ? H181 CVI 301 A 1 HETATM 40 H H191 CVI . . . I 2 -40.253 18.663 -8.74 1 65.29 ? H191 CVI 301 A 1 HETATM 41 H H201 CVI . . . I 2 -41.691 27.159 -9.12 1 78.22 ? H201 CVI 301 A 1 HETATM 42 H H202 CVI . . . I 2 -40.848 28.46 -8.837 1 78.22 ? H202 CVI 301 A 1 HETATM 43 H H203 CVI . . . I 2 -40.907 27.305 -7.766 1 78.22 ? H203 CVI 301 A 1 HETATM 44 H H211 CVI . . . I 2 -38.038 27.089 -10.294 1 72.54 ? H211 CVI 301 A 1 HETATM 45 H H212 CVI . . . I 2 -38.363 28.327 -9.375 1 72.54 ? H212 CVI 301 A 1 HETATM 46 H H213 CVI . . . I 2 -39.156 28.106 -10.718 1 72.54 ? H213 CVI 301 A 1 HETATM 47 H H221 CVI . . . I 2 -35.116 16.289 -12.263 1 49.28 ? H221 CVI 301 A 1 HETATM 48 H H222 CVI . . . I 2 -35.005 17.11 -10.924 1 49.28 ? H222 CVI 301 A 1 HETATM 49 H H223 CVI . . . I 2 -34.037 17.428 -12.127 1 49.28 ? H223 CVI 301 A 1 HETATM 50 H H231 CVI . . . I 2 -36.566 19.039 -14.055 1 50.03 ? H231 CVI 301 A 1 HETATM 51 H H232 CVI . . . I 2 -35.041 18.634 -14.085 1 50.03 ? H232 CVI 301 A 1 HETATM 52 H H233 CVI . . . I 2 -36.157 17.527 -14.202 1 50.03 ? H233 CVI 301 A 1 HETATM 53 H H241 CVI . . . I 2 -43.031 18.695 -2.996 1 80.86 ? H241 CVI 301 A 1 HETATM 54 H H242 CVI . . . I 2 -41.622 18.128 -2.582 1 80.86 ? H242 CVI 301 A 1 HETATM 55 H H243 CVI . . . I 2 -41.743 19.581 -3.182 1 80.86 ? H243 CVI 301 A 1 HETATM 56 H H251 CVI . . . I 2 -42.116 16.48 -5.633 1 78.94 ? H251 CVI 301 A 1 HETATM 57 H H252 CVI . . . I 2 -41.893 16.128 -4.116 1 78.94 ? H252 CVI 301 A 1 HETATM 58 H H253 CVI . . . I 2 -43.277 16.718 -4.593 1 78.94 ? H253 CVI 301 A 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 58 #