data_5VLM # _model_server_result.job_id 78FaX4PLYzgGdPkrj7kVWw _model_server_result.datetime_utc '2024-10-15 10:29:21' _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":"N","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 . . . N 2 -49.335 59.688 -41.395 1 67.4 ? C1 CVI 301 F 1 HETATM 2 C C2 CVI . . . N 2 -49.006 58.359 -40.929 1 63.3 ? C2 CVI 301 F 1 HETATM 3 C C3 CVI . . . N 2 -49.834 57.243 -41.182 1 61.14 ? C3 CVI 301 F 1 HETATM 4 C C4 CVI . . . N 2 -49.505 55.971 -40.73 1 60.04 ? C4 CVI 301 F 1 HETATM 5 C C5 CVI . . . N 2 -48.318 55.728 -39.98 1 59.56 ? C5 CVI 301 F 1 HETATM 6 C C6 CVI . . . N 2 -47.49 56.858 -39.726 1 60.86 ? C6 CVI 301 F 1 HETATM 7 C C7 CVI . . . N 2 -47.827 58.124 -40.187 1 62.1 ? C7 CVI 301 F 1 HETATM 8 C C8 CVI . . . N 2 -48.885 60.838 -40.648 1 72.14 ? C8 CVI 301 F 1 HETATM 9 C C9 CVI . . . N 2 -48.266 61.937 -41.288 1 72.69 ? C9 CVI 301 F 1 HETATM 10 C C10 CVI . . . N 2 -47.835 63.05 -40.573 1 73.05 ? C10 CVI 301 F 1 HETATM 11 C C11 CVI . . . N 2 -47.99 63.142 -39.158 1 72.66 ? C11 CVI 301 F 1 HETATM 12 C C12 CVI . . . N 2 -48.614 62.029 -38.527 1 74.92 ? C12 CVI 301 F 1 HETATM 13 C C13 CVI . . . N 2 -49.046 60.918 -39.248 1 76.18 ? C13 CVI 301 F 1 HETATM 14 C C14 CVI . . . N 2 -49.893 59.894 -42.71 1 66.53 ? C14 CVI 301 F 1 HETATM 15 C C15 CVI . . . N 2 -49.65 58.992 -43.77 1 66.51 ? C15 CVI 301 F 1 HETATM 16 C C16 CVI . . . N 2 -50.189 59.196 -45.035 1 66.46 ? C16 CVI 301 F 1 HETATM 17 C C17 CVI . . . N 2 -51.007 60.328 -45.333 1 65.63 ? C17 CVI 301 F 1 HETATM 18 C C18 CVI . . . N 2 -51.238 61.23 -44.256 1 65.46 ? C18 CVI 301 F 1 HETATM 19 C C19 CVI . . . N 2 -50.702 61.018 -42.991 1 65.65 ? C19 CVI 301 F 1 HETATM 20 C C20 CVI . . . N 2 -48.893 53.338 -39.828 1 59.73 ? C20 CVI 301 F 1 HETATM 21 C C21 CVI . . . N 2 -46.809 54.121 -38.759 1 57.92 ? C21 CVI 301 F 1 HETATM 22 C C22 CVI . . . N 2 -46.906 65.421 -39.099 1 68.92 ? C22 CVI 301 F 1 HETATM 23 C C23 CVI . . . N 2 -47.68 64.418 -37.011 1 69.47 ? C23 CVI 301 F 1 HETATM 24 C C24 CVI . . . N 2 -51.313 59.603 -47.742 1 65.46 ? C24 CVI 301 F 1 HETATM 25 C C25 CVI . . . N 2 -52.38 61.662 -46.968 1 67.06 ? C25 CVI 301 F 1 HETATM 26 N N1 CVI . . . N 2 -47.999 54.428 -39.524 1 58.86 ? N1 CVI 301 F 1 HETATM 27 N N2 CVI . . . N 2 -47.538 64.295 -38.444 1 69.75 ? N2 CVI 301 F 1 HETATM 28 N N3 CVI . . . N 2 -51.549 60.521 -46.643 1 66.15 ? N3 CVI 301 F 1 HETATM 29 H H31 CVI . . . N 2 -50.617 57.363 -41.671 1 73.36 ? H31 CVI 301 F 1 HETATM 30 H H41 CVI . . . N 2 -50.087 55.272 -40.928 1 72.04 ? H41 CVI 301 F 1 HETATM 31 H H61 CVI . . . N 2 -46.702 56.764 -39.243 1 73.03 ? H61 CVI 301 F 1 HETATM 32 H H71 CVI . . . N 2 -47.263 58.839 -40.001 1 74.52 ? H71 CVI 301 F 1 HETATM 33 H H91 CVI . . . N 2 -48.148 61.914 -42.21 1 87.23 ? H91 CVI 301 F 1 HETATM 34 H H101 CVI . . . N 2 -47.433 63.748 -41.039 1 87.66 ? H101 CVI 301 F 1 HETATM 35 H H121 CVI . . . N 2 -48.745 62.029 -37.607 1 89.9 ? H121 CVI 301 F 1 HETATM 36 H H131 CVI . . . N 2 -49.449 60.211 -38.798 1 91.42 ? H131 CVI 301 F 1 HETATM 37 H H151 CVI . . . N 2 -49.123 58.242 -43.614 1 79.82 ? H151 CVI 301 F 1 HETATM 38 H H161 CVI . . . N 2 -50.003 58.575 -45.701 1 79.75 ? H161 CVI 301 F 1 HETATM 39 H H181 CVI . . . N 2 -51.764 61.986 -44.387 1 78.55 ? H181 CVI 301 F 1 HETATM 40 H H191 CVI . . . N 2 -50.875 61.632 -42.314 1 78.78 ? H191 CVI 301 F 1 HETATM 41 H H201 CVI . . . N 2 -48.976 53.239 -40.79 1 71.68 ? H201 CVI 301 F 1 HETATM 42 H H202 CVI . . . N 2 -48.593 52.494 -39.455 1 71.68 ? H202 CVI 301 F 1 HETATM 43 H H203 CVI . . . N 2 -49.77 53.543 -39.469 1 71.68 ? H203 CVI 301 F 1 HETATM 44 H H211 CVI . . . N 2 -46.302 54.937 -38.628 1 69.51 ? H211 CVI 301 F 1 HETATM 45 H H212 CVI . . . N 2 -47.012 53.739 -37.891 1 69.51 ? H212 CVI 301 F 1 HETATM 46 H H213 CVI . . . N 2 -46.253 53.496 -39.25 1 69.51 ? H213 CVI 301 F 1 HETATM 47 H H221 CVI . . . N 2 -46.83 65.297 -40.058 1 82.71 ? H221 CVI 301 F 1 HETATM 48 H H222 CVI . . . N 2 -47.444 66.21 -38.933 1 82.71 ? H222 CVI 301 F 1 HETATM 49 H H223 CVI . . . N 2 -46.018 65.567 -38.737 1 82.71 ? H223 CVI 301 F 1 HETATM 50 H H231 CVI . . . N 2 -48.214 65.183 -36.745 1 83.37 ? H231 CVI 301 F 1 HETATM 51 H H232 CVI . . . N 2 -48.089 63.612 -36.659 1 83.37 ? H232 CVI 301 F 1 HETATM 52 H H233 CVI . . . N 2 -46.796 64.513 -36.625 1 83.37 ? H233 CVI 301 F 1 HETATM 53 H H241 CVI . . . N 2 -50.871 60.03 -48.492 1 78.55 ? H241 CVI 301 F 1 HETATM 54 H H242 CVI . . . N 2 -50.748 58.884 -47.42 1 78.55 ? H242 CVI 301 F 1 HETATM 55 H H243 CVI . . . N 2 -52.152 59.226 -48.052 1 78.55 ? H243 CVI 301 F 1 HETATM 56 H H251 CVI . . . N 2 -53.244 61.334 -47.262 1 80.47 ? H251 CVI 301 F 1 HETATM 57 H H252 CVI . . . N 2 -52.008 62.217 -47.671 1 80.47 ? H252 CVI 301 F 1 HETATM 58 H H253 CVI . . . N 2 -52.506 62.204 -46.174 1 80.47 ? H253 CVI 301 F 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 39 _model_server_stats.query_time_ms 339 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 58 #