data_4L8Q # _model_server_result.job_id ql1qGRxgD7KZG17jo_hYhg _model_server_result.datetime_utc '2024-11-04 23:49:15' _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 4l8q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":303}' # _entry.id 4L8Q # _exptl.entry_id 4L8Q _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 408.629 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description '5-bromo-4-chloro-1H-indol-3-yl alpha-D-mannopyranoside' _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 4L8Q _cell.length_a 63.422 _cell.length_b 65.152 _cell.length_c 106.708 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4L8Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,I,J,K _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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' 2_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 0 -65.152 0 3 'crystal symmetry operation' 3_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 4 'crystal symmetry operation' 4_545 x,-y-1,-z 1 0 0 0 -1 0 0 0 -1 0 -65.152 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 metalc ? metalc1 A OE1 GLU 8 A GLU 8 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc2 A OD2 ASP 10 A ASP 10 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc3 A OD1 ASP 10 A ASP 10 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc4 A OD2 ASP 10 A ASP 10 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.242 ? metalc ? metalc5 A O TYR 12 A TYR 12 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc6 A OD1 ASN 14 A ASN 14 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc7 A OD2 ASP 19 A ASP 19 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc8 A OD1 ASP 19 A ASP 19 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc9 A NE2 HIS 24 A HIS 24 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.935 ? metalc ? metalc10 A OD1 ASP 80 A ASP 80 1_555 G CD CD . A CD 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.646 ? metalc ? metalc11 A OD1 ASP 82 A ASP 82 1_555 G CD CD . A CD 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc12 A OD2 ASP 82 A ASP 82 1_555 G CD CD . A CD 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc13 A OE1 GLU 87 A GLU 87 1_555 F CD CD . A CD 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.578 ? metalc ? metalc14 A OE2 GLU 87 A GLU 87 1_555 F CD CD . A CD 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.696 ? metalc ? metalc15 A OE2 GLU 183 A GLU 183 1_555 F CD CD . A CD 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc16 A OE1 GLU 183 A GLU 183 1_555 F CD CD . A CD 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.536 ? metalc ? metalc17 B CA CA . A CA 301 1_555 K O HOH . A HOH 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc18 B CA CA . A CA 301 1_555 K O HOH . A HOH 423 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? metalc ? metalc19 C MN MN . A MN 302 1_555 K O HOH . A HOH 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc20 C MN MN . A MN 302 1_555 K O HOH . A HOH 478 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? metalc ? metalc21 F CD CD . A CD 305 1_555 K O HOH . A HOH 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc22 F CD CD . A CD 305 1_555 K O HOH . A HOH 456 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? # _chem_comp.formula 'C14 H15 Br Cl N O6' _chem_comp.formula_weight 408.629 _chem_comp.id XMM _chem_comp.mon_nstd_flag n _chem_comp.name '5-bromo-4-chloro-1H-indol-3-yl alpha-D-mannopyranoside' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms '(2R,3S,4S,5S,6R)-2-(5-BROMO-4-CHLORO-1H-INDOL-3-YLOXY)-TETRAHYDRO-6-(HYDROXYMETHYL)-2H-PYRAN-3,4,5-TRIOL;(5-BROMO-4-CHLORO-3-INDOLYL)-Alpha-D-MANNOSE;5-bromo-4-chloro-1H-indol-3-yl alpha-D-mannoside;5-bromo-4-chloro-1H-indol-3-yl D-mannoside;5-bromo-4-chloro-1H-indol-3-yl mannoside' # 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 O2 C2 XMM sing 380 n n O2 HO2 XMM sing 381 n n C2 C3 XMM sing 382 n n C2 C1 XMM sing 383 n n C2 H2 XMM sing 384 n n C3 O3 XMM sing 385 n n C3 C4 XMM sing 386 n n C3 H3 XMM sing 387 n n O3 HO3 XMM sing 388 n n C4 O4 XMM sing 389 n n C4 C5 XMM sing 390 n n C4 H4 XMM sing 391 n n O4 HO4 XMM sing 392 n n C5 O5 XMM sing 393 n n C5 C6 XMM sing 394 n n C5 H5 XMM sing 395 n n O5 C1 XMM sing 396 n n C6 O6 XMM sing 397 n n C6 H61 XMM sing 398 n n C6 H62 XMM sing 399 n n O6 HO6 XMM sing 400 n n C1 O1 XMM sing 401 n n C1 H1 XMM sing 402 n n O1 C7 XMM sing 403 n n C7 C8 XMM sing 404 n y C7 C11 XMM doub 405 n y C8 C9 XMM doub 406 n y C8 C10 XMM sing 407 n y C9 N1 XMM sing 408 n y C9 C12 XMM sing 409 n y N1 C11 XMM sing 410 n y N1 HN1 XMM sing 411 n n C11 H11 XMM sing 412 n n C10 CL XMM sing 413 n n C10 C13 XMM doub 414 n y C13 BR XMM sing 415 n n C13 C14 XMM sing 416 n y C14 C12 XMM doub 417 n y C14 H14 XMM sing 418 n n C12 H12 XMM sing 419 n n # _atom_sites.entry_id 4L8Q _atom_sites.fract_transf_matrix[1][1] 0.015767 _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] 0.015349 _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] 0.009371 _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 CA A 1 301 1 CA CA . C 3 MN A 1 302 1 MN MN . D 4 XMM A 1 303 1 XMM XMM . E 5 SO4 A 1 304 1 SO4 SO4 . F 6 CD A 1 305 1 CD CD . G 6 CD A 1 306 2 CD CD . H 7 GOL A 1 307 1 GOL GOL . I 7 GOL A 1 308 2 GOL GOL . J 7 GOL A 1 309 3 GOL GOL . K 8 HOH A 1 401 1 HOH HOH . K 8 HOH A 2 402 2 HOH HOH . K 8 HOH A 3 403 3 HOH HOH . K 8 HOH A 4 404 4 HOH HOH . K 8 HOH A 5 405 5 HOH HOH . K 8 HOH A 6 406 6 HOH HOH . K 8 HOH A 7 407 7 HOH HOH . K 8 HOH A 8 408 8 HOH HOH . K 8 HOH A 9 409 9 HOH HOH . K 8 HOH A 10 410 10 HOH HOH . K 8 HOH A 11 411 11 HOH HOH . K 8 HOH A 12 412 12 HOH HOH . K 8 HOH A 13 413 13 HOH HOH . K 8 HOH A 14 414 14 HOH HOH . K 8 HOH A 15 415 15 HOH HOH . K 8 HOH A 16 416 16 HOH HOH . K 8 HOH A 17 417 17 HOH HOH . K 8 HOH A 18 418 18 HOH HOH . K 8 HOH A 19 419 19 HOH HOH . K 8 HOH A 20 420 20 HOH HOH . K 8 HOH A 21 421 21 HOH HOH . K 8 HOH A 22 422 22 HOH HOH . K 8 HOH A 23 423 23 HOH HOH . K 8 HOH A 24 424 24 HOH HOH . K 8 HOH A 25 425 25 HOH HOH . K 8 HOH A 26 426 26 HOH HOH . K 8 HOH A 27 427 27 HOH HOH . K 8 HOH A 28 428 28 HOH HOH . K 8 HOH A 29 429 29 HOH HOH . K 8 HOH A 30 430 30 HOH HOH . K 8 HOH A 31 431 31 HOH HOH . K 8 HOH A 32 432 32 HOH HOH . K 8 HOH A 33 433 33 HOH HOH . K 8 HOH A 34 434 34 HOH HOH . K 8 HOH A 35 435 35 HOH HOH . K 8 HOH A 36 436 36 HOH HOH . K 8 HOH A 37 437 37 HOH HOH . K 8 HOH A 38 438 38 HOH HOH . K 8 HOH A 39 439 39 HOH HOH . K 8 HOH A 40 440 40 HOH HOH . K 8 HOH A 41 441 41 HOH HOH . K 8 HOH A 42 442 42 HOH HOH . K 8 HOH A 43 443 43 HOH HOH . K 8 HOH A 44 444 44 HOH HOH . K 8 HOH A 45 445 45 HOH HOH . K 8 HOH A 46 446 46 HOH HOH . K 8 HOH A 47 447 47 HOH HOH . K 8 HOH A 48 448 48 HOH HOH . K 8 HOH A 49 449 49 HOH HOH . K 8 HOH A 50 450 50 HOH HOH . K 8 HOH A 51 451 51 HOH HOH . K 8 HOH A 52 452 52 HOH HOH . K 8 HOH A 53 453 53 HOH HOH . K 8 HOH A 54 454 54 HOH HOH . K 8 HOH A 55 455 55 HOH HOH . K 8 HOH A 56 456 56 HOH HOH . K 8 HOH A 57 457 57 HOH HOH . K 8 HOH A 58 458 58 HOH HOH . K 8 HOH A 59 459 59 HOH HOH . K 8 HOH A 60 460 60 HOH HOH . K 8 HOH A 61 461 61 HOH HOH . K 8 HOH A 62 462 62 HOH HOH . K 8 HOH A 63 463 63 HOH HOH . K 8 HOH A 64 464 64 HOH HOH . K 8 HOH A 65 465 65 HOH HOH . K 8 HOH A 66 466 66 HOH HOH . K 8 HOH A 67 467 67 HOH HOH . K 8 HOH A 68 468 68 HOH HOH . K 8 HOH A 69 469 69 HOH HOH . K 8 HOH A 70 470 70 HOH HOH . K 8 HOH A 71 471 71 HOH HOH . K 8 HOH A 72 472 72 HOH HOH . K 8 HOH A 73 473 73 HOH HOH . K 8 HOH A 74 474 74 HOH HOH . K 8 HOH A 75 475 75 HOH HOH . K 8 HOH A 76 476 76 HOH HOH . K 8 HOH A 77 477 77 HOH HOH . K 8 HOH A 78 478 78 HOH HOH . K 8 HOH A 79 479 79 HOH HOH . K 8 HOH A 80 480 80 HOH HOH . K 8 HOH A 81 481 81 HOH HOH . K 8 HOH A 82 482 82 HOH HOH . K 8 HOH A 83 483 83 HOH HOH . K 8 HOH A 84 484 84 HOH HOH . K 8 HOH A 85 485 85 HOH HOH . K 8 HOH A 86 486 86 HOH HOH . K 8 HOH A 87 487 87 HOH HOH . K 8 HOH A 88 488 88 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 O2 XMM . . . D 4 -25.376 -9.588 21.969 1 30.84 ? O2 XMM 303 A 1 HETATM 2 C C2 XMM . . . D 4 -24.87 -9.492 23.309 1 29.3 ? C2 XMM 303 A 1 HETATM 3 C C3 XMM . . . D 4 -23.686 -10.426 23.495 1 29.28 ? C3 XMM 303 A 1 HETATM 4 O O3 XMM . . . D 4 -24.158 -11.623 22.906 1 35.35 ? O3 XMM 303 A 1 HETATM 5 C C4 XMM . . . D 4 -22.508 -9.932 22.686 1 27.75 ? C4 XMM 303 A 1 HETATM 6 O O4 XMM . . . D 4 -21.428 -10.711 23.054 1 27.78 ? O4 XMM 303 A 1 HETATM 7 C C5 XMM . . . D 4 -22.163 -8.49 23.034 1 25.41 ? C5 XMM 303 A 1 HETATM 8 O O5 XMM . . . D 4 -23.383 -7.774 22.733 1 26.31 ? O5 XMM 303 A 1 HETATM 9 C C6 XMM . . . D 4 -21.019 -8.023 22.177 1 21.65 ? C6 XMM 303 A 1 HETATM 10 O O6 XMM . . . D 4 -21.469 -8.16 20.809 1 19.97 ? O6 XMM 303 A 1 HETATM 11 C C1 XMM . . . D 4 -24.477 -8.069 23.577 1 26.23 ? C1 XMM 303 A 1 HETATM 12 O O1 XMM . . . D 4 -24.071 -7.955 24.937 1 25.74 ? O1 XMM 303 A 1 HETATM 13 C C7 XMM . . . D 4 -23.794 -6.704 25.474 1 26.98 ? C7 XMM 303 A 1 HETATM 14 C C8 XMM . . . D 4 -24.77 -5.824 25.901 1 26.61 ? C8 XMM 303 A 1 HETATM 15 C C9 XMM . . . D 4 -24.083 -4.726 26.378 1 25.25 ? C9 XMM 303 A 1 HETATM 16 N N1 XMM . . . D 4 -22.756 -4.96 26.218 1 25.6 ? N1 XMM 303 A 1 HETATM 17 C C11 XMM . . . D 4 -22.518 -6.19 25.668 1 26.99 ? C11 XMM 303 A 1 HETATM 18 C C10 XMM . . . D 4 -26.136 -5.85 25.944 1 27.74 ? C10 XMM 303 A 1 HETATM 19 CL CL XMM . . . D 4 -26.968 -7.302 25.323 1 32.17 ? CL XMM 303 A 1 HETATM 20 C C13 XMM . . . D 4 -26.84 -4.772 26.469 1 30.07 ? C13 XMM 303 A 1 HETATM 21 BR BR XMM . . . D 4 -28.704 -4.882 26.491 1 36.49 ? BR XMM 303 A 1 HETATM 22 C C14 XMM . . . D 4 -26.2 -3.645 26.937 1 27.75 ? C14 XMM 303 A 1 HETATM 23 C C12 XMM . . . D 4 -24.798 -3.636 26.881 1 25.4 ? C12 XMM 303 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 23 #