data_6TVY # _model_server_result.job_id Zl8JcUuhSVzx3ugxQCIW-w _model_server_result.datetime_utc '2024-11-15 05:45:06' _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 6tvy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":304}' # _entry.id 6TVY # _exptl.entry_id 6TVY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 556.353 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description Tb-Xo4 _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 6TVY _cell.length_a 78.81 _cell.length_b 78.81 _cell.length_c 38.332 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6TVY _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall 'P 4nw 2abw' _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 6 A CYS 6 1_555 A SG CYS 127 A CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 30 A CYS 30 1_555 A SG CYS 115 A CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf3 A SG CYS 64 A CYS 64 1_555 A SG CYS 80 A CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 A SG CYS 76 A CYS 76 1_555 A SG CYS 94 A CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? metalc ? metalc1 A O SER 60 A SER 60 1_555 B NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.07 ? metalc ? metalc2 A O CYS 64 A CYS 64 1_555 B NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.869 ? metalc ? metalc3 A OG SER 72 A SER 72 1_555 B NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? metalc ? metalc4 A O ARG 73 A ARG 73 1_555 B NA NA . A NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.714 ? metalc ? metalc5 A OD1 ASP 101 A ASP 101 1_555 E TB 7MT . A 7MT 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.732 ? metalc ? metalc6 A OD2 ASP 101 A ASP 101 1_555 E TB 7MT . A 7MT 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc7 B NA NA . A NA 301 1_555 H O HOH . A HOH 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc8 E O25 7MT . A 7MT 304 1_555 F TB TB . A TB 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? metalc ? metalc9 E O25 7MT . A 7MT 304 1_555 G TB TB . A TB 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? # _chem_comp.formula 'C20 H23 N5 O4 Tb 5' _chem_comp.formula_weight 556.353 _chem_comp.id 7MT _chem_comp.mon_nstd_flag . _chem_comp.name Tb-Xo4 _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 C21 C20 7MT doub 1 n y C21 C22 7MT sing 2 n y C10 C13 7MT doub 3 n y C10 C30 7MT sing 4 n n C10 N17 7MT sing 5 n y C11 C19 7MT doub 6 n y C11 C29 7MT sing 7 n n C11 N23 7MT sing 8 n y C01 C03 7MT sing 9 n n C01 N02 7MT sing 10 n n C03 N09 7MT sing 11 n n C04 C05 7MT sing 12 n n C04 N02 7MT sing 13 n n C05 N06 7MT sing 14 n n C07 C08 7MT sing 15 n n C07 N06 7MT sing 16 n n C08 N09 7MT sing 17 n n C13 C14 7MT sing 18 n y C14 C15 7MT doub 19 n y C15 C16 7MT sing 20 n y C16 C18 7MT sing 21 n n C16 N17 7MT doub 22 n y C18 O27 7MT sing 23 n n C18 O28 7MT doub 24 n n C19 C20 7MT sing 25 n y C22 C24 7MT sing 26 n n C22 N23 7MT doub 27 n y C24 O25 7MT doub 28 n n C24 O26 7MT sing 29 n n C29 N09 7MT sing 30 n n C30 N02 7MT sing 31 n n N23 TB 7MT sing 32 n n C21 H211 7MT sing 33 n n C01 H012 7MT sing 34 n n C01 H011 7MT sing 35 n n C03 H031 7MT sing 36 n n C03 H032 7MT sing 37 n n C04 H042 7MT sing 38 n n C04 H041 7MT sing 39 n n C05 H051 7MT sing 40 n n C05 H052 7MT sing 41 n n C07 H072 7MT sing 42 n n C07 H071 7MT sing 43 n n C08 H081 7MT sing 44 n n C08 H082 7MT sing 45 n n C13 H131 7MT sing 46 n n C14 H141 7MT sing 47 n n C15 H151 7MT sing 48 n n C19 H191 7MT sing 49 n n C20 H201 7MT sing 50 n n C29 H292 7MT sing 51 n n C29 H291 7MT sing 52 n n C30 H302 7MT sing 53 n n C30 H301 7MT sing 54 n n N02 TB 7MT sing 55 n n N06 TB 7MT sing 56 n n N06 H061 7MT sing 57 n n N09 TB 7MT sing 58 n n O26 TB 7MT sing 59 n n N17 TB 7MT sing 60 n n O27 TB 7MT sing 61 n n # _atom_sites.entry_id 6TVY _atom_sites.fract_transf_matrix[1][1] 0.012689 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012689 _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] 0.026088 _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 B 2 NA A 1 301 301 NA NA . C 3 CL A 1 302 401 CL CL . D 3 CL A 1 303 402 CL CL . E 4 7MT A 1 304 202 7MT 7MT . F 5 TB A 1 305 203 TB TB . G 5 TB A 1 306 204 TB TB . H 6 HOH A 1 401 146 HOH HOH . H 6 HOH A 2 402 115 HOH HOH . H 6 HOH A 3 403 118 HOH HOH . H 6 HOH A 4 404 102 HOH HOH . H 6 HOH A 5 405 101 HOH HOH . H 6 HOH A 6 406 143 HOH HOH . H 6 HOH A 7 407 122 HOH HOH . H 6 HOH A 8 408 133 HOH HOH . H 6 HOH A 9 409 121 HOH HOH . H 6 HOH A 10 410 136 HOH HOH . H 6 HOH A 11 411 141 HOH HOH . H 6 HOH A 12 412 131 HOH HOH . H 6 HOH A 13 413 134 HOH HOH . H 6 HOH A 14 414 138 HOH HOH . H 6 HOH A 15 415 103 HOH HOH . H 6 HOH A 16 416 123 HOH HOH . H 6 HOH A 17 417 116 HOH HOH . H 6 HOH A 18 418 155 HOH HOH . H 6 HOH A 19 419 132 HOH HOH . H 6 HOH A 20 420 120 HOH HOH . H 6 HOH A 21 421 117 HOH HOH . H 6 HOH A 22 422 154 HOH HOH . H 6 HOH A 23 423 125 HOH HOH . H 6 HOH A 24 424 105 HOH HOH . H 6 HOH A 25 425 112 HOH HOH . H 6 HOH A 26 426 149 HOH HOH . H 6 HOH A 27 427 160 HOH HOH . H 6 HOH A 28 428 147 HOH HOH . H 6 HOH A 29 429 159 HOH HOH . H 6 HOH A 30 430 129 HOH HOH . H 6 HOH A 31 431 110 HOH HOH . H 6 HOH A 32 432 139 HOH HOH . H 6 HOH A 33 433 127 HOH HOH . H 6 HOH A 34 434 126 HOH HOH . H 6 HOH A 35 435 130 HOH HOH . H 6 HOH A 36 436 164 HOH HOH . H 6 HOH A 37 437 107 HOH HOH . H 6 HOH A 38 438 113 HOH HOH . H 6 HOH A 39 439 109 HOH HOH . H 6 HOH A 40 440 202 HOH HOH . H 6 HOH A 41 441 151 HOH HOH . H 6 HOH A 42 442 111 HOH HOH . H 6 HOH A 43 443 128 HOH HOH . H 6 HOH A 44 444 108 HOH HOH . H 6 HOH A 45 445 201 HOH HOH . H 6 HOH A 46 446 119 HOH HOH . H 6 HOH A 47 447 165 HOH HOH . H 6 HOH A 48 448 140 HOH HOH . H 6 HOH A 49 449 144 HOH HOH . H 6 HOH A 50 450 163 HOH HOH . H 6 HOH A 51 451 142 HOH HOH . H 6 HOH A 52 452 150 HOH HOH . H 6 HOH A 53 453 148 HOH HOH . H 6 HOH A 54 454 153 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 C21 7MT . . . E 4 1.035 29.523 -7.405 0.81 51.36 ? C21 7MT 304 A 1 HETATM 2 C C10 7MT . . . E 4 -1.092 24.051 -8.913 0.81 53.23 ? C10 7MT 304 A 1 HETATM 3 C C11 7MT . . . E 4 -0.464 28.584 -5.326 0.81 50.34 ? C11 7MT 304 A 1 HETATM 4 C C01 7MT . . . E 4 -2.86 26.808 -7.016 0.81 49.49 ? C01 7MT 304 A 1 HETATM 5 C C03 7MT . . . E 4 -3.118 27.089 -5.512 0.81 49.81 ? C03 7MT 304 A 1 HETATM 6 C C04 7MT . . . E 4 -3.145 24.416 -6.896 0.81 48.62 ? C04 7MT 304 A 1 HETATM 7 C C05 7MT . . . E 4 -2.445 23.384 -6.008 0.81 47.26 ? C05 7MT 304 A 1 HETATM 8 C C07 7MT . . . E 4 -2.665 24.512 -3.915 0.81 44.89 ? C07 7MT 304 A 1 HETATM 9 C C08 7MT . . . E 4 -2.355 25.958 -3.508 0.81 47.84 ? C08 7MT 304 A 1 HETATM 10 C C13 7MT . . . E 4 -1.375 23.241 -10.01 0.81 55.63 ? C13 7MT 304 A 1 HETATM 11 C C14 7MT . . . E 4 -0.687 22.08 -10.182 0.81 56.43 ? C14 7MT 304 A 1 HETATM 12 C C15 7MT . . . E 4 0.271 21.715 -9.283 0.81 56.52 ? C15 7MT 304 A 1 HETATM 13 C C16 7MT . . . E 4 0.541 22.537 -8.188 0.81 56.51 ? C16 7MT 304 A 1 HETATM 14 C C18 7MT . . . E 4 1.604 22.165 -7.152 0.81 58.56 ? C18 7MT 304 A 1 HETATM 15 C C19 7MT . . . E 4 -0.189 29.939 -5.419 0.81 50.79 ? C19 7MT 304 A 1 HETATM 16 C C20 7MT . . . E 4 0.563 30.4 -6.463 0.81 51.59 ? C20 7MT 304 A 1 HETATM 17 C C22 7MT . . . E 4 0.74 28.162 -7.291 0.81 49.94 ? C22 7MT 304 A 1 HETATM 18 C C24 7MT . . . E 4 1.239 27.139 -8.309 0.81 48.58 ? C24 7MT 304 A 1 HETATM 19 C C29 7MT . . . E 4 -1.315 28.009 -4.171 0.81 50.15 ? C29 7MT 304 A 1 HETATM 20 C C30 7MT . . . E 4 -1.861 25.378 -8.682 0.81 51.56 ? C30 7MT 304 A 1 HETATM 21 N N02 7MT . . . E 4 -2.232 25.487 -7.25 0.81 49.45 ? N02 7MT 304 A 1 HETATM 22 N N06 7MT . . . E 4 -1.72 24.045 -4.913 0.81 44.35 ? N06 7MT 304 A 1 HETATM 23 N N09 7MT . . . E 4 -1.942 26.768 -4.661 0.81 49.05 ? N09 7MT 304 A 1 HETATM 24 N N17 7MT . . . E 4 -0.147 23.691 -8.027 0.81 53.24 ? N17 7MT 304 A 1 HETATM 25 N N23 7MT . . . E 4 -0.003 27.719 -6.245 0.81 50.4 ? N23 7MT 304 A 1 HETATM 26 O O25 7MT . . . E 4 1.681 27.507 -9.429 0.81 47.88 ? O25 7MT 304 A 1 HETATM 27 O O26 7MT . . . E 4 1.195 25.917 -8.018 0.81 47.65 ? O26 7MT 304 A 1 HETATM 28 O O27 7MT . . . E 4 1.651 22.801 -6.066 0.81 58.24 ? O27 7MT 304 A 1 HETATM 29 O O28 7MT . . . E 4 2.42 21.234 -7.38 0.81 60.24 ? O28 7MT 304 A 1 HETATM 30 TB TB 7MT . . . E 4 -0.032 25.596 -6.079 0.81 49.89 ? TB 7MT 304 A 1 HETATM 31 H H211 7MT . . . E 4 1.549 29.832 -8.116 0.81 61.64 ? H211 7MT 304 A 1 HETATM 32 H H012 7MT . . . E 4 -2.272 27.496 -7.364 0.81 59.39 ? H012 7MT 304 A 1 HETATM 33 H H011 7MT . . . E 4 -3.707 26.837 -7.488 0.81 59.39 ? H011 7MT 304 A 1 HETATM 34 H H031 7MT . . . E 4 -3.869 26.549 -5.219 0.81 59.77 ? H031 7MT 304 A 1 HETATM 35 H H032 7MT . . . E 4 -3.334 28.028 -5.404 0.81 59.77 ? H032 7MT 304 A 1 HETATM 36 H H042 7MT . . . E 4 -3.902 24.788 -6.417 0.81 58.35 ? H042 7MT 304 A 1 HETATM 37 H H041 7MT . . . E 4 -3.455 23.982 -7.706 0.81 58.35 ? H041 7MT 304 A 1 HETATM 38 H H051 7MT . . . E 4 -1.817 22.876 -6.545 0.81 56.71 ? H051 7MT 304 A 1 HETATM 39 H H052 7MT . . . E 4 -3.11 22.784 -5.634 0.81 56.71 ? H052 7MT 304 A 1 HETATM 40 H H072 7MT . . . E 4 -3.562 24.47 -4.281 0.81 53.87 ? H072 7MT 304 A 1 HETATM 41 H H071 7MT . . . E 4 -2.609 23.942 -3.132 0.81 53.87 ? H071 7MT 304 A 1 HETATM 42 H H081 7MT . . . E 4 -1.638 25.954 -2.854 0.81 57.4 ? H081 7MT 304 A 1 HETATM 43 H H082 7MT . . . E 4 -3.149 26.352 -3.115 0.81 57.4 ? H082 7MT 304 A 1 HETATM 44 H H131 7MT . . . E 4 -2.03 23.491 -10.62 0.81 66.75 ? H131 7MT 304 A 1 HETATM 45 H H141 7MT . . . E 4 -0.871 21.535 -10.913 0.81 67.72 ? H141 7MT 304 A 1 HETATM 46 H H151 7MT . . . E 4 0.743 20.922 -9.399 0.81 67.82 ? H151 7MT 304 A 1 HETATM 47 H H191 7MT . . . E 4 -0.512 30.529 -4.777 0.81 60.95 ? H191 7MT 304 A 1 HETATM 48 H H201 7MT . . . E 4 0.753 31.307 -6.535 0.81 61.91 ? H201 7MT 304 A 1 HETATM 49 H H292 7MT . . . E 4 -1.999 28.647 -3.914 0.81 60.18 ? H292 7MT 304 A 1 HETATM 50 H H291 7MT . . . E 4 -0.75 27.816 -3.407 0.81 60.18 ? H291 7MT 304 A 1 HETATM 51 H H302 7MT . . . E 4 -2.663 25.387 -9.227 0.81 61.87 ? H302 7MT 304 A 1 HETATM 52 H H301 7MT . . . E 4 -1.295 26.127 -8.928 0.81 61.87 ? H301 7MT 304 A 1 HETATM 53 H H061 7MT . . . E 4 -1.265 24.738 -5.236 0.81 53.22 ? H061 7MT 304 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 53 #