data_2JB6 # _model_server_result.job_id CKMF515VWlBKBCdgZVehPw _model_server_result.datetime_utc '2025-01-09 12:08:28' _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 2jb6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1222}' # _entry.id 2JB6 # _exptl.entry_id 2JB6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 771.918 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-{(1E,3Z,5E,7E)-7-[3,3-DIMETHYL-5-SULFO-1-(2-SULFOETHYL)-1,3-DIHYDRO-2H-INDOL-2-YLIDENE]-4-METHYLHEPTA-1,3,5-TRIEN-1-YL}-3,3-DIMETHYL-5-SULFO-1-(2-SULFOETHYL)-3H-INDOLIUM _entity.pdbx_number_of_molecules 2 _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 2JB6 _cell.length_a 77.028 _cell.length_b 77.028 _cell.length_c 379.128 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2JB6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PQS tetrameric 4 software_defined_assembly 1 PQS tetrameric 4 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,G,H 1 1,2 C,D,F,I,J 2 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 8_665 -y+1,-x+1,-z+1/2 0 -1 0 -1 0 0 0 0 -1 77.028 77.028 189.564 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 F N 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 22 A CYS 22 1_555 A SG CYS 90 A CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf2 A SG CYS 139 A CYS 139 1_555 A SG CYS 198 A CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf3 B SG CYS 22 B CYS 22 1_555 B SG CYS 96 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf4 B SG CYS 147 B CYS 147 1_555 B SG CYS 203 B CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf5 C SG CYS 22 H CYS 22 1_555 C SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf6 C SG CYS 147 H CYS 147 1_555 C SG CYS 203 H CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 D SG CYS 22 L CYS 22 1_555 D SG CYS 90 L CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf8 D SG CYS 139 L CYS 139 1_555 D SG CYS 198 L CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? # _chem_comp.formula 'C32 H39 N2 O12 S4 1' _chem_comp.formula_weight 771.918 _chem_comp.id T5C _chem_comp.mon_nstd_flag . _chem_comp.name 2-{(1E,3Z,5E,7E)-7-[3,3-DIMETHYL-5-SULFO-1-(2-SULFOETHYL)-1,3-DIHYDRO-2H-INDOL-2-YLIDENE]-4-METHYLHEPTA-1,3,5-TRIEN-1-YL}-3,3-DIMETHYL-5-SULFO-1-(2-SULFOETHYL)-3H-INDOLIUM _chem_comp.type non-polymer _chem_comp.pdbx_synonyms TETRASULFOCYANINE # 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 O36 S35 T5C doub 290 n n S35 O37 T5C sing 291 n n S35 O38 T5C doub 292 n n S35 C13 T5C sing 293 n n O37 H37 T5C sing 294 n n C13 C12 T5C sing 295 n n C13 H131 T5C sing 296 n n C13 H132 T5C sing 297 n n C12 N1 T5C sing 298 n n C12 H121 T5C sing 299 n n C12 H122 T5C sing 300 n n N1 C9 T5C sing 301 n n N1 C2 T5C sing 302 n n C9 C8 T5C sing 303 n y C9 C4 T5C doub 304 n y C8 C7 T5C doub 305 n y C8 H8 T5C sing 306 n n C7 C6 T5C sing 307 n y C7 H7 T5C sing 308 n n C6 S39 T5C sing 309 n n C6 C5 T5C doub 310 n y S39 O41 T5C doub 311 n n S39 O40 T5C sing 312 n n S39 O42 T5C doub 313 n n O40 H40 T5C sing 314 n n C5 C4 T5C sing 315 n y C5 H5 T5C sing 316 n n C4 C3 T5C sing 317 n n C3 C11 T5C sing 318 n n C3 C10 T5C sing 319 n n C3 C2 T5C sing 320 n n C11 H111 T5C sing 321 n n C11 H112 T5C sing 322 n n C11 H113 T5C sing 323 n n C10 H101 T5C sing 324 n n C10 H102 T5C sing 325 n n C10 H103 T5C sing 326 n n C2 C14 T5C doub 327 e n C14 C15 T5C sing 328 n n C14 H14 T5C sing 329 n n C15 C16 T5C doub 330 e n C15 H15 T5C sing 331 n n C16 C17 T5C sing 332 n n C16 H16 T5C sing 333 n n C17 C34 T5C sing 334 n n C17 C18 T5C doub 335 e n C34 H341 T5C sing 336 n n C34 H342 T5C sing 337 n n C34 H343 T5C sing 338 n n C18 C19 T5C sing 339 n n C18 H18 T5C sing 340 n n C19 H191 T5C sing 341 n n C19 C20 T5C doub 342 n n C20 H201 T5C sing 343 n n C20 C22 T5C sing 344 n n C22 C23 T5C sing 345 n n C22 N21 T5C doub 346 n n C23 C31 T5C sing 347 n n C23 C30 T5C sing 348 n n C23 C24 T5C sing 349 n n C31 H311 T5C sing 350 n n C31 H312 T5C sing 351 n n C31 H313 T5C sing 352 n n C30 H301 T5C sing 353 n n C30 H302 T5C sing 354 n n C30 H303 T5C sing 355 n n C24 C25 T5C sing 356 n y C24 C29 T5C doub 357 n y C25 H25 T5C sing 358 n n C25 C26 T5C doub 359 n y C26 S47 T5C sing 360 n n C26 C27 T5C sing 361 n y S47 O48 T5C doub 362 n n S47 O50 T5C sing 363 n n S47 O49 T5C doub 364 n n O50 H50 T5C sing 365 n n C27 H27 T5C sing 366 n n C27 C28 T5C doub 367 n y C28 H28 T5C sing 368 n n C28 C29 T5C sing 369 n y C29 N21 T5C sing 370 n n N21 C32 T5C sing 371 n n C32 H321 T5C sing 372 n n C32 H322 T5C sing 373 n n C32 C33 T5C sing 374 n n C33 H331 T5C sing 375 n n C33 H332 T5C sing 376 n n C33 S43 T5C sing 377 n n S43 O46 T5C doub 378 n n S43 O44 T5C doub 379 n n S43 O45 T5C sing 380 n n O45 H45 T5C sing 381 n n # _atom_sites.entry_id 2JB6 _atom_sites.fract_transf_matrix[1][1] 0.012982 _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] 0.012982 _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] 0.002638 _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 E 3 T5C B 1 1222 1222 T5C T5C . F 3 T5C H 1 1222 1222 T5C T5C . G 4 HOH A 1 2001 2001 HOH HOH . G 4 HOH A 2 2002 2002 HOH HOH . G 4 HOH A 3 2003 2003 HOH HOH . G 4 HOH A 4 2004 2004 HOH HOH . G 4 HOH A 5 2005 2005 HOH HOH . H 4 HOH B 1 2001 2001 HOH HOH . H 4 HOH B 2 2002 2002 HOH HOH . H 4 HOH B 3 2003 2003 HOH HOH . H 4 HOH B 4 2004 2004 HOH HOH . H 4 HOH B 5 2005 2005 HOH HOH . H 4 HOH B 6 2006 2006 HOH HOH . H 4 HOH B 7 2007 2007 HOH HOH . I 4 HOH H 1 2001 2001 HOH HOH . I 4 HOH H 2 2002 2002 HOH HOH . J 4 HOH L 1 2001 2001 HOH HOH . J 4 HOH L 2 2002 2002 HOH HOH . J 4 HOH L 3 2003 2003 HOH HOH . J 4 HOH L 4 2004 2004 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 O O36 T5C . . . F 3 60.123 11.127 100.911 0.5 48.43 ? O36 T5C 1222 H 1 HETATM 2 S S35 T5C . . . F 3 60.275 12.482 100.298 0.5 47.95 ? S35 T5C 1222 H 1 HETATM 3 O O37 T5C . . . F 3 61.192 13.31 101.141 0.5 48.16 ? O37 T5C 1222 H 1 HETATM 4 O O38 T5C . . . F 3 60.87 12.369 98.934 0.5 48.94 ? O38 T5C 1222 H 1 HETATM 5 C C13 T5C . . . F 3 58.628 13.274 100.205 0.5 49.24 ? C13 T5C 1222 H 1 HETATM 6 C C12 T5C . . . F 3 57.737 12.933 98.989 0.5 50.77 ? C12 T5C 1222 H 1 HETATM 7 N N1 T5C . . . F 3 56.759 14.035 98.915 0.5 50.84 ? N1 T5C 1222 H 1 HETATM 8 C C9 T5C . . . F 3 55.625 14.052 99.628 0.5 50.91 ? C9 T5C 1222 H 1 HETATM 9 C C8 T5C . . . F 3 55.086 13.107 100.5 0.5 50.92 ? C8 T5C 1222 H 1 HETATM 10 C C7 T5C . . . F 3 53.851 13.329 101.099 0.5 51.05 ? C7 T5C 1222 H 1 HETATM 11 C C6 T5C . . . F 3 53.133 14.485 100.821 0.5 50.81 ? C6 T5C 1222 H 1 HETATM 12 S S39 T5C . . . F 3 51.594 14.738 101.589 0.5 50.71 ? S39 T5C 1222 H 1 HETATM 13 O O41 T5C . . . F 3 50.946 13.41 101.843 0.5 50.61 ? O41 T5C 1222 H 1 HETATM 14 O O40 T5C . . . F 3 51.795 15.452 102.894 0.5 51.31 ? O40 T5C 1222 H 1 HETATM 15 O O42 T5C . . . F 3 50.72 15.574 100.704 0.5 50.86 ? O42 T5C 1222 H 1 HETATM 16 C C5 T5C . . . F 3 53.65 15.425 99.936 0.5 50.8 ? C5 T5C 1222 H 1 HETATM 17 C C4 T5C . . . F 3 54.89 15.201 99.332 0.5 50.81 ? C4 T5C 1222 H 1 HETATM 18 C C3 T5C . . . F 3 55.708 16.013 98.34 0.5 50.94 ? C3 T5C 1222 H 1 HETATM 19 C C11 T5C . . . F 3 54.88 16.208 97.058 0.5 50.88 ? C11 T5C 1222 H 1 HETATM 20 C C10 T5C . . . F 3 56.086 17.351 98.987 0.5 50.75 ? C10 T5C 1222 H 1 HETATM 21 C C2 T5C . . . F 3 56.929 15.092 98.117 0.5 50.93 ? C2 T5C 1222 H 1 HETATM 22 C C14 T5C . . . F 3 57.983 15.364 97.23 0.5 50.94 ? C14 T5C 1222 H 1 HETATM 23 C C15 T5C . . . F 3 58.071 16.502 96.436 0.5 51.02 ? C15 T5C 1222 H 1 HETATM 24 C C16 T5C . . . F 3 59.155 16.682 95.588 0.5 50.99 ? C16 T5C 1222 H 1 HETATM 25 C C17 T5C . . . F 3 59.272 17.812 94.782 0.5 50.97 ? C17 T5C 1222 H 1 HETATM 26 C C34 T5C . . . F 3 58.202 18.92 94.787 0.5 50.95 ? C34 T5C 1222 H 1 HETATM 27 C C18 T5C . . . F 3 60.388 17.916 93.961 0.5 50.98 ? C18 T5C 1222 H 1 HETATM 28 C C19 T5C . . . F 3 60.562 19.016 93.133 0.5 51 ? C19 T5C 1222 H 1 HETATM 29 C C20 T5C . . . F 3 61.688 19.089 92.328 0.5 50.93 ? C20 T5C 1222 H 1 HETATM 30 C C22 T5C . . . F 3 61.987 20.139 91.449 0.5 50.95 ? C22 T5C 1222 H 1 HETATM 31 C C23 T5C . . . F 3 61.114 21.401 91.225 0.5 50.98 ? C23 T5C 1222 H 1 HETATM 32 C C31 T5C . . . F 3 60.934 22.221 92.519 0.5 50.93 ? C31 T5C 1222 H 1 HETATM 33 C C30 T5C . . . F 3 59.758 21.057 90.585 0.5 50.88 ? C30 T5C 1222 H 1 HETATM 34 C C24 T5C . . . F 3 61.966 22.186 90.237 0.5 50.98 ? C24 T5C 1222 H 1 HETATM 35 C C25 T5C . . . F 3 61.807 23.436 89.635 0.5 51.05 ? C25 T5C 1222 H 1 HETATM 36 C C26 T5C . . . F 3 62.779 23.898 88.753 0.5 51.08 ? C26 T5C 1222 H 1 HETATM 37 S S47 T5C . . . F 3 62.639 25.443 87.977 0.5 51.02 ? S47 T5C 1222 H 1 HETATM 38 O O48 T5C . . . F 3 62.463 25.244 86.501 0.5 51.45 ? O48 T5C 1222 H 1 HETATM 39 O O50 T5C . . . F 3 61.457 26.181 88.53 0.5 51.14 ? O50 T5C 1222 H 1 HETATM 40 O O49 T5C . . . F 3 63.891 26.228 88.227 0.5 51.18 ? O49 T5C 1222 H 1 HETATM 41 C C27 T5C . . . F 3 63.895 23.123 88.479 0.5 51.23 ? C27 T5C 1222 H 1 HETATM 42 C C28 T5C . . . F 3 64.053 21.88 89.075 0.5 51.06 ? C28 T5C 1222 H 1 HETATM 43 C C29 T5C . . . F 3 63.078 21.394 89.941 0.5 50.95 ? C29 T5C 1222 H 1 HETATM 44 N N21 T5C . . . F 3 63.045 20.262 90.648 0.5 50.9 ? N21 T5C 1222 H 1 HETATM 45 C C32 T5C . . . F 3 64.106 19.239 90.573 0.5 50.81 ? C32 T5C 1222 H 1 HETATM 46 C C33 T5C . . . F 3 63.672 18.308 89.418 0.5 49.5 ? C33 T5C 1222 H 1 HETATM 47 S S43 T5C . . . F 3 64.545 16.709 89.255 0.5 48.42 ? S43 T5C 1222 H 1 HETATM 48 O O46 T5C . . . F 3 64.686 16.067 90.597 0.5 49.32 ? O46 T5C 1222 H 1 HETATM 49 O O44 T5C . . . F 3 65.893 16.958 88.658 0.5 48.83 ? O44 T5C 1222 H 1 HETATM 50 O O45 T5C . . . F 3 63.761 15.792 88.37 0.5 48.68 ? O45 T5C 1222 H 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 123 _model_server_stats.query_time_ms 358 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 50 #