data_6E4X # _model_server_result.job_id IK-5GHIHnNj-5SkHwPMYNg _model_server_result.datetime_utc '2024-12-02 18:43:12' _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 6e4x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":301}' # _entry.id 6E4X # _exptl.entry_id 6E4X _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 4 _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 6E4X _cell.length_a 115.74 _cell.length_b 163.48 _cell.length_c 136.37 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6E4X _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_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,L,M,N _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 8 H N N ? 8 I N N ? 8 J N N ? 8 K N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 4 oligosaccharide 5 oligosaccharide 6 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 4 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 4 5 1 FUC NAG C1 O1 . O6 HO6 . sing 5 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 6 ? 5 3 2 BMA NAG C1 O1 . O4 HO4 . sing 7 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 8 ? 6 3 2 BMA NAG C1 O1 . O4 HO4 . sing 9 ? 6 4 1 FUC NAG C1 O1 . O3 HO3 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 4 n D NAG 1 A 1 NAG B 313 NAG 4 n D NAG 2 A 2 NAG B 314 NAG 4 n D BMA 3 A 3 BMA B 315 BMA 4 n D MAN 4 A 4 MAN B 316 MAN 4 n D FUC 5 A 5 FUC B 317 FUC 5 n E NAG 1 C 1 NAG B 318 NAG 5 n E NAG 2 C 2 NAG B 319 NAG 5 n E BMA 3 C 3 BMA B 320 BMA 6 n F NAG 1 D 1 NAG B 322 NAG 6 n F NAG 2 D 2 NAG B 323 NAG 6 n F BMA 3 D 3 BMA B 324 BMA 6 n F FUC 4 D 4 FUC B 325 FUC # 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 16 B CYS 52 1_555 A SG CYS 241 B CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf2 A SG CYS 28 B CYS 64 1_555 A SG CYS 40 B CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf3 A SG CYS 61 B CYS 97 1_555 A SG CYS 103 B CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf4 A SG CYS 245 B CYS 281 1_555 A SG CYS 269 B CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf5 B SG CYS 23 Y CYS 23 1_555 B SG CYS 88 Y CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf6 B SG CYS 130 Y CYS 130 1_555 B SG CYS 190 Y CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf7 C SG CYS 22 Z CYS 22 1_555 C SG CYS 97 Z CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? disulf ? disulf8 C SG CYS 157 Z CYS 157 1_555 C SG CYS 213 Z CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? covale ? covale1 A ND2 ASN 2 B ASN 38 1_555 F C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale2 A ND2 ASN 27 B ASN 63 1_555 D C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale3 A ND2 ASN 97 B ASN 133 1_555 E C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 A ND2 ASN 210 B ASN 246 1_555 G C1 NAG . B NAG 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale5 D O4 NAG . A NAG 1 1_555 D C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale6 D O6 NAG . A NAG 1 1_555 D C1 FUC . A FUC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale7 D O4 NAG . A NAG 2 1_555 D C1 BMA . A BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale8 D O3 BMA . A BMA 3 1_555 D C1 MAN . A MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale9 E O4 NAG . C NAG 1 1_555 E C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale10 E O4 NAG . C NAG 2 1_555 E C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale11 F O4 NAG . D NAG 1 1_555 F C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale12 F O3 NAG . D NAG 1 1_555 F C1 FUC . D FUC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale13 F O4 NAG . D NAG 2 1_555 F C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 O1 GOL sing 176 n n C1 C2 GOL sing 177 n n C1 H11 GOL sing 178 n n C1 H12 GOL sing 179 n n O1 HO1 GOL sing 180 n n C2 O2 GOL sing 181 n n C2 C3 GOL sing 182 n n C2 H2 GOL sing 183 n n O2 HO2 GOL sing 184 n n C3 O3 GOL sing 185 n n C3 H31 GOL sing 186 n n C3 H32 GOL sing 187 n n O3 HO3 GOL sing 188 n n # _atom_sites.entry_id 6E4X _atom_sites.fract_transf_matrix[1][1] 0.00864 _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] 0.006117 _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] 0.007333 _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 G 7 NAG B 1 409 321 NAG NAG . H 8 GOL B 1 414 1 GOL GOL . I 8 GOL B 1 415 2 GOL GOL . J 8 GOL B 1 416 4 GOL GOL . K 8 GOL Y 1 301 3 GOL GOL . L 9 HOH B 1 501 143 HOH HOH . L 9 HOH B 2 502 15 HOH HOH . L 9 HOH B 3 503 91 HOH HOH . L 9 HOH B 4 504 97 HOH HOH . L 9 HOH B 5 505 57 HOH HOH . L 9 HOH B 6 506 32 HOH HOH . L 9 HOH B 7 507 131 HOH HOH . L 9 HOH B 8 508 127 HOH HOH . L 9 HOH B 9 509 29 HOH HOH . L 9 HOH B 10 510 23 HOH HOH . L 9 HOH B 11 511 102 HOH HOH . L 9 HOH B 12 512 5 HOH HOH . L 9 HOH B 13 513 88 HOH HOH . L 9 HOH B 14 514 21 HOH HOH . L 9 HOH B 15 515 25 HOH HOH . L 9 HOH B 16 516 126 HOH HOH . L 9 HOH B 17 517 133 HOH HOH . L 9 HOH B 18 518 35 HOH HOH . L 9 HOH B 19 519 8 HOH HOH . L 9 HOH B 20 520 40 HOH HOH . L 9 HOH B 21 521 16 HOH HOH . L 9 HOH B 22 522 1 HOH HOH . L 9 HOH B 23 523 141 HOH HOH . L 9 HOH B 24 524 10 HOH HOH . L 9 HOH B 25 525 3 HOH HOH . L 9 HOH B 26 526 4 HOH HOH . L 9 HOH B 27 527 26 HOH HOH . L 9 HOH B 28 528 128 HOH HOH . L 9 HOH B 29 529 55 HOH HOH . L 9 HOH B 30 530 19 HOH HOH . L 9 HOH B 31 531 17 HOH HOH . L 9 HOH B 32 532 51 HOH HOH . L 9 HOH B 33 533 94 HOH HOH . L 9 HOH B 34 534 30 HOH HOH . L 9 HOH B 35 535 54 HOH HOH . L 9 HOH B 36 536 18 HOH HOH . L 9 HOH B 37 537 101 HOH HOH . L 9 HOH B 38 538 70 HOH HOH . L 9 HOH B 39 539 9 HOH HOH . L 9 HOH B 40 540 6 HOH HOH . L 9 HOH B 41 541 81 HOH HOH . L 9 HOH B 42 542 42 HOH HOH . L 9 HOH B 43 543 46 HOH HOH . L 9 HOH B 44 544 109 HOH HOH . L 9 HOH B 45 545 117 HOH HOH . L 9 HOH B 46 546 144 HOH HOH . L 9 HOH B 47 547 138 HOH HOH . L 9 HOH B 48 548 56 HOH HOH . L 9 HOH B 49 549 69 HOH HOH . L 9 HOH B 50 550 105 HOH HOH . L 9 HOH B 51 551 136 HOH HOH . L 9 HOH B 52 552 53 HOH HOH . L 9 HOH B 53 553 93 HOH HOH . L 9 HOH B 54 554 100 HOH HOH . L 9 HOH B 55 555 89 HOH HOH . L 9 HOH B 56 556 49 HOH HOH . L 9 HOH B 57 557 31 HOH HOH . L 9 HOH B 58 558 112 HOH HOH . L 9 HOH B 59 559 113 HOH HOH . L 9 HOH B 60 560 86 HOH HOH . L 9 HOH B 61 561 99 HOH HOH . L 9 HOH B 62 562 111 HOH HOH . L 9 HOH B 63 563 124 HOH HOH . L 9 HOH B 64 564 132 HOH HOH . L 9 HOH B 65 565 84 HOH HOH . L 9 HOH B 66 566 64 HOH HOH . L 9 HOH B 67 567 106 HOH HOH . L 9 HOH B 68 568 121 HOH HOH . L 9 HOH B 69 569 73 HOH HOH . L 9 HOH B 70 570 125 HOH HOH . L 9 HOH B 71 571 122 HOH HOH . M 9 HOH Y 1 401 76 HOH HOH . M 9 HOH Y 2 402 33 HOH HOH . M 9 HOH Y 3 403 58 HOH HOH . M 9 HOH Y 4 404 12 HOH HOH . M 9 HOH Y 5 405 85 HOH HOH . M 9 HOH Y 6 406 134 HOH HOH . M 9 HOH Y 7 407 20 HOH HOH . M 9 HOH Y 8 408 129 HOH HOH . M 9 HOH Y 9 409 78 HOH HOH . M 9 HOH Y 10 410 28 HOH HOH . M 9 HOH Y 11 411 62 HOH HOH . M 9 HOH Y 12 412 22 HOH HOH . M 9 HOH Y 13 413 37 HOH HOH . M 9 HOH Y 14 414 2 HOH HOH . M 9 HOH Y 15 415 43 HOH HOH . M 9 HOH Y 16 416 65 HOH HOH . M 9 HOH Y 17 417 34 HOH HOH . M 9 HOH Y 18 418 79 HOH HOH . M 9 HOH Y 19 419 61 HOH HOH . M 9 HOH Y 20 420 72 HOH HOH . M 9 HOH Y 21 421 39 HOH HOH . M 9 HOH Y 22 422 14 HOH HOH . M 9 HOH Y 23 423 80 HOH HOH . M 9 HOH Y 24 424 82 HOH HOH . M 9 HOH Y 25 425 92 HOH HOH . M 9 HOH Y 26 426 47 HOH HOH . M 9 HOH Y 27 427 137 HOH HOH . M 9 HOH Y 28 428 116 HOH HOH . M 9 HOH Y 29 429 140 HOH HOH . M 9 HOH Y 30 430 114 HOH HOH . M 9 HOH Y 31 431 50 HOH HOH . M 9 HOH Y 32 432 115 HOH HOH . M 9 HOH Y 33 433 24 HOH HOH . M 9 HOH Y 34 434 90 HOH HOH . M 9 HOH Y 35 435 119 HOH HOH . M 9 HOH Y 36 436 45 HOH HOH . M 9 HOH Y 37 437 95 HOH HOH . M 9 HOH Y 38 438 118 HOH HOH . M 9 HOH Y 39 439 123 HOH HOH . M 9 HOH Y 40 440 96 HOH HOH . M 9 HOH Y 41 441 130 HOH HOH . M 9 HOH Y 42 442 63 HOH HOH . M 9 HOH Y 43 443 104 HOH HOH . M 9 HOH Y 44 444 103 HOH HOH . M 9 HOH Y 45 445 135 HOH HOH . N 9 HOH Z 1 301 110 HOH HOH . N 9 HOH Z 2 302 52 HOH HOH . N 9 HOH Z 3 303 83 HOH HOH . N 9 HOH Z 4 304 87 HOH HOH . N 9 HOH Z 5 305 60 HOH HOH . N 9 HOH Z 6 306 7 HOH HOH . N 9 HOH Z 7 307 67 HOH HOH . N 9 HOH Z 8 308 27 HOH HOH . N 9 HOH Z 9 309 13 HOH HOH . N 9 HOH Z 10 310 44 HOH HOH . N 9 HOH Z 11 311 74 HOH HOH . N 9 HOH Z 12 312 59 HOH HOH . N 9 HOH Z 13 313 38 HOH HOH . N 9 HOH Z 14 314 41 HOH HOH . N 9 HOH Z 15 315 11 HOH HOH . N 9 HOH Z 16 316 48 HOH HOH . N 9 HOH Z 17 317 68 HOH HOH . N 9 HOH Z 18 318 66 HOH HOH . N 9 HOH Z 19 319 120 HOH HOH . N 9 HOH Z 20 320 98 HOH HOH . N 9 HOH Z 21 321 36 HOH HOH . N 9 HOH Z 22 322 142 HOH HOH . N 9 HOH Z 23 323 107 HOH HOH . N 9 HOH Z 24 324 108 HOH HOH . N 9 HOH Z 25 325 77 HOH HOH . N 9 HOH Z 26 326 139 HOH HOH . N 9 HOH Z 27 327 71 HOH HOH . N 9 HOH Z 28 328 75 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 C1 GOL . . . K 8 -8.393 -30.456 17.539 1 71.76 ? C1 GOL 301 Y 1 HETATM 2 O O1 GOL . . . K 8 -9.134 -29.461 18.173 1 63.42 ? O1 GOL 301 Y 1 HETATM 3 C C2 GOL . . . K 8 -7.232 -30.817 18.48 1 77.88 ? C2 GOL 301 Y 1 HETATM 4 O O2 GOL . . . K 8 -6.467 -29.713 18.808 1 84.47 ? O2 GOL 301 Y 1 HETATM 5 C C3 GOL . . . K 8 -6.425 -31.885 17.728 1 69.38 ? C3 GOL 301 Y 1 HETATM 6 O O3 GOL . . . K 8 -6.979 -33.099 18.101 1 71.77 ? O3 GOL 301 Y 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 23 _model_server_stats.element_count 6 #