data_5M5E # _model_server_result.job_id 2nx37a6Jq6OLggsEDY0OiQ _model_server_result.datetime_utc '2024-11-26 03:01:37' _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 5m5e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":310}' # _entry.id 5M5E # _exptl.entry_id 5M5E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 96.063 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SULFATE ION' _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 120 _cell.entry_id 5M5E _cell.length_a 127.965 _cell.length_b 127.965 _cell.length_c 135.073 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5M5E _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details 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,L,M,N,O,P,Q,R _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 I N N ? 8 J N N ? 8 N N N ? 8 O 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 1 FUC NAG C1 O1 . O6 HO6 . sing 3 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 4 ? 6 2 1 FUC NAG C1 O1 . O6 HO6 . 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 220 NAG 4 n D NAG 2 A 2 NAG B 227 NAG 4 n D FUC 3 A 3 FUC B 221 FUC 4 n E NAG 1 E 1 NAG B 222 NAG 4 n E NAG 2 E 2 NAG B 224 NAG 4 n E FUC 3 E 3 FUC B 228 FUC 5 n F NAG 1 F 1 NAG B 225 NAG 5 n F NAG 2 F 2 NAG B 226 NAG 6 n G NAG 1 G 1 NAG C 227 NAG 6 n G FUC 2 G 2 FUC C 228 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 10 B CYS 10 1_555 A SG CYS 20 B CYS 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? disulf ? disulf2 A SG CYS 33 B CYS 33 1_555 A SG CYS 84 B CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf3 A SG CYS 48 B CYS 48 1_555 A SG CYS 60 B CYS 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? disulf ? disulf4 A SG CYS 168 B CYS 168 1_555 K SG CYS . B CYS 312 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 B SG CYS 40 C CYS 40 1_555 B SG CYS 50 C CYS 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? disulf ? disulf6 B SG CYS 80 C CYS 80 1_555 B SG CYS 93 C CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? disulf ? disulf7 B SG CYS 160 C CYS 160 1_555 B SG CYS 209 C CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? disulf ? disulf8 C SG CYS 77 D CYS 58 1_555 C SG CYS 124 D CYS 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? covale ? covale1 A ND2 ASN 17 B ASN 17 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale2 A ND2 ASN 45 B ASN 45 1_555 D C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale3 A ND2 ASN 123 B ASN 123 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale4 A CD1 TRP 194 B TRP 194 1_555 H C1 MAN . B MAN 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.553 ? covale ? covale5 B ND2 ASN 49 C ASN 49 1_555 L C1 NAG . C NAG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale6 B ND2 ASN 62 C ASN 62 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale7 B ND2 ASN 137 C ASN 137 1_555 M C1 NAG . C NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale8 D O4 NAG . A NAG 1 1_555 D C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale9 D O6 NAG . A NAG 1 1_555 D C1 FUC . A FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.406 ? covale ? covale10 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale11 E O6 NAG . E NAG 1 1_555 E C1 FUC . E FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale12 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale13 G O6 NAG . G NAG 1 1_555 G C1 FUC . G FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? # _chem_comp.formula 'O4 S -2' _chem_comp.formula_weight 96.063 _chem_comp.id SO4 _chem_comp.mon_nstd_flag . _chem_comp.name 'SULFATE ION' _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 S O1 SO4 doub 367 n n S O2 SO4 doub 368 n n S O3 SO4 sing 369 n n S O4 SO4 sing 370 n n # _atom_sites.entry_id 5M5E _atom_sites.fract_transf_matrix[1][1] 0.007815 _atom_sites.fract_transf_matrix[1][2] 0.004512 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009024 _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] 0.007403 _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 H 7 MAN B 1 309 302 MAN MAN . I 8 SO4 B 1 310 3 SO4 SO4 . J 8 SO4 B 1 311 5 SO4 SO4 . K 9 CYS B 1 312 1 CYS CYS . L 10 NAG C 1 303 229 NAG NAG . M 10 NAG C 1 304 230 NAG NAG . N 8 SO4 C 1 305 1 SO4 SO4 . O 8 SO4 D 1 201 4 SO4 SO4 . P 11 HOH B 1 401 450 HOH HOH . P 11 HOH B 2 402 355 HOH HOH . P 11 HOH B 3 403 101 HOH HOH . P 11 HOH B 4 404 90 HOH HOH . P 11 HOH B 5 405 410 HOH HOH . P 11 HOH B 6 406 3 HOH HOH . P 11 HOH B 7 407 20 HOH HOH . P 11 HOH B 8 408 74 HOH HOH . P 11 HOH B 9 409 49 HOH HOH . P 11 HOH B 10 410 201 HOH HOH . P 11 HOH B 11 411 107 HOH HOH . P 11 HOH B 12 412 446 HOH HOH . P 11 HOH B 13 413 433 HOH HOH . P 11 HOH B 14 414 431 HOH HOH . P 11 HOH B 15 415 16 HOH HOH . P 11 HOH B 16 416 425 HOH HOH . P 11 HOH B 17 417 103 HOH HOH . P 11 HOH B 18 418 146 HOH HOH . P 11 HOH B 19 419 96 HOH HOH . P 11 HOH B 20 420 270 HOH HOH . P 11 HOH B 21 421 357 HOH HOH . P 11 HOH B 22 422 417 HOH HOH . P 11 HOH B 23 423 193 HOH HOH . P 11 HOH B 24 424 273 HOH HOH . P 11 HOH B 25 425 11 HOH HOH . P 11 HOH B 26 426 401 HOH HOH . P 11 HOH B 27 427 42 HOH HOH . P 11 HOH B 28 428 359 HOH HOH . P 11 HOH B 29 429 194 HOH HOH . P 11 HOH B 30 430 84 HOH HOH . P 11 HOH B 31 431 32 HOH HOH . P 11 HOH B 32 432 2 HOH HOH . P 11 HOH B 33 433 169 HOH HOH . P 11 HOH B 34 434 415 HOH HOH . P 11 HOH B 35 435 437 HOH HOH . P 11 HOH B 36 436 93 HOH HOH . P 11 HOH B 37 437 56 HOH HOH . P 11 HOH B 38 438 30 HOH HOH . P 11 HOH B 39 439 313 HOH HOH . P 11 HOH B 40 440 204 HOH HOH . P 11 HOH B 41 441 286 HOH HOH . P 11 HOH B 42 442 112 HOH HOH . P 11 HOH B 43 443 174 HOH HOH . P 11 HOH B 44 444 439 HOH HOH . P 11 HOH B 45 445 424 HOH HOH . P 11 HOH B 46 446 409 HOH HOH . P 11 HOH B 47 447 62 HOH HOH . P 11 HOH B 48 448 48 HOH HOH . P 11 HOH B 49 449 23 HOH HOH . P 11 HOH B 50 450 41 HOH HOH . P 11 HOH B 51 451 46 HOH HOH . P 11 HOH B 52 452 13 HOH HOH . P 11 HOH B 53 453 5 HOH HOH . P 11 HOH B 54 454 436 HOH HOH . P 11 HOH B 55 455 170 HOH HOH . P 11 HOH B 56 456 34 HOH HOH . P 11 HOH B 57 457 66 HOH HOH . P 11 HOH B 58 458 47 HOH HOH . P 11 HOH B 59 459 97 HOH HOH . P 11 HOH B 60 460 232 HOH HOH . P 11 HOH B 61 461 14 HOH HOH . P 11 HOH B 62 462 440 HOH HOH . P 11 HOH B 63 463 25 HOH HOH . P 11 HOH B 64 464 105 HOH HOH . P 11 HOH B 65 465 398 HOH HOH . P 11 HOH B 66 466 438 HOH HOH . P 11 HOH B 67 467 335 HOH HOH . P 11 HOH B 68 468 420 HOH HOH . P 11 HOH B 69 469 138 HOH HOH . P 11 HOH B 70 470 230 HOH HOH . P 11 HOH B 71 471 411 HOH HOH . P 11 HOH B 72 472 38 HOH HOH . P 11 HOH B 73 473 287 HOH HOH . P 11 HOH B 74 474 213 HOH HOH . P 11 HOH B 75 475 54 HOH HOH . P 11 HOH B 76 476 158 HOH HOH . P 11 HOH B 77 477 275 HOH HOH . P 11 HOH B 78 478 442 HOH HOH . P 11 HOH B 79 479 24 HOH HOH . P 11 HOH B 80 480 423 HOH HOH . P 11 HOH B 81 481 131 HOH HOH . P 11 HOH B 82 482 9 HOH HOH . P 11 HOH B 83 483 57 HOH HOH . P 11 HOH B 84 484 422 HOH HOH . P 11 HOH B 85 485 316 HOH HOH . P 11 HOH B 86 486 241 HOH HOH . P 11 HOH B 87 487 183 HOH HOH . P 11 HOH B 88 488 123 HOH HOH . Q 11 HOH C 1 401 427 HOH HOH . Q 11 HOH C 2 402 44 HOH HOH . Q 11 HOH C 3 403 447 HOH HOH . Q 11 HOH C 4 404 70 HOH HOH . Q 11 HOH C 5 405 15 HOH HOH . Q 11 HOH C 6 406 36 HOH HOH . Q 11 HOH C 7 407 195 HOH HOH . Q 11 HOH C 8 408 418 HOH HOH . Q 11 HOH C 9 409 198 HOH HOH . Q 11 HOH C 10 410 39 HOH HOH . Q 11 HOH C 11 411 445 HOH HOH . Q 11 HOH C 12 412 414 HOH HOH . Q 11 HOH C 13 413 83 HOH HOH . Q 11 HOH C 14 414 92 HOH HOH . Q 11 HOH C 15 415 21 HOH HOH . Q 11 HOH C 16 416 416 HOH HOH . Q 11 HOH C 17 417 26 HOH HOH . Q 11 HOH C 18 418 196 HOH HOH . Q 11 HOH C 19 419 269 HOH HOH . Q 11 HOH C 20 420 217 HOH HOH . Q 11 HOH C 21 421 419 HOH HOH . Q 11 HOH C 22 422 430 HOH HOH . Q 11 HOH C 23 423 421 HOH HOH . Q 11 HOH C 24 424 451 HOH HOH . Q 11 HOH C 25 425 171 HOH HOH . Q 11 HOH C 26 426 118 HOH HOH . Q 11 HOH C 27 427 72 HOH HOH . Q 11 HOH C 28 428 444 HOH HOH . Q 11 HOH C 29 429 303 HOH HOH . Q 11 HOH C 30 430 239 HOH HOH . Q 11 HOH C 31 431 124 HOH HOH . Q 11 HOH C 32 432 43 HOH HOH . Q 11 HOH C 33 433 434 HOH HOH . Q 11 HOH C 34 434 68 HOH HOH . Q 11 HOH C 35 435 191 HOH HOH . Q 11 HOH C 36 436 53 HOH HOH . Q 11 HOH C 37 437 356 HOH HOH . Q 11 HOH C 38 438 149 HOH HOH . Q 11 HOH C 39 439 77 HOH HOH . Q 11 HOH C 40 440 59 HOH HOH . Q 11 HOH C 41 441 448 HOH HOH . Q 11 HOH C 42 442 221 HOH HOH . Q 11 HOH C 43 443 27 HOH HOH . Q 11 HOH C 44 444 28 HOH HOH . Q 11 HOH C 45 445 435 HOH HOH . Q 11 HOH C 46 446 79 HOH HOH . Q 11 HOH C 47 447 87 HOH HOH . Q 11 HOH C 48 448 426 HOH HOH . Q 11 HOH C 49 449 354 HOH HOH . Q 11 HOH C 50 450 441 HOH HOH . R 11 HOH D 1 301 412 HOH HOH . R 11 HOH D 2 302 276 HOH HOH . R 11 HOH D 3 303 99 HOH HOH . R 11 HOH D 4 304 52 HOH HOH . R 11 HOH D 5 305 35 HOH HOH . R 11 HOH D 6 306 376 HOH HOH . R 11 HOH D 7 307 7 HOH HOH . R 11 HOH D 8 308 429 HOH HOH . R 11 HOH D 9 309 6 HOH HOH . R 11 HOH D 10 310 17 HOH HOH . R 11 HOH D 11 311 100 HOH HOH . R 11 HOH D 12 312 40 HOH HOH . R 11 HOH D 13 313 4 HOH HOH . R 11 HOH D 14 314 271 HOH HOH . R 11 HOH D 15 315 208 HOH HOH . R 11 HOH D 16 316 18 HOH HOH . R 11 HOH D 17 317 197 HOH HOH . R 11 HOH D 18 318 392 HOH HOH . R 11 HOH D 19 319 449 HOH HOH . R 11 HOH D 20 320 443 HOH HOH . R 11 HOH D 21 321 12 HOH HOH . R 11 HOH D 22 322 200 HOH HOH . R 11 HOH D 23 323 31 HOH HOH . R 11 HOH D 24 324 432 HOH HOH . R 11 HOH D 25 325 155 HOH HOH . R 11 HOH D 26 326 281 HOH HOH . R 11 HOH D 27 327 218 HOH HOH . R 11 HOH D 28 328 89 HOH HOH . R 11 HOH D 29 329 428 HOH HOH . R 11 HOH D 30 330 199 HOH HOH . R 11 HOH D 31 331 91 HOH HOH . R 11 HOH D 32 332 452 HOH HOH . R 11 HOH D 33 333 206 HOH HOH . R 11 HOH D 34 334 400 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 S S SO4 . . . I 8 63.52 -27.212 20.351 1 66.41 ? S SO4 310 B 1 HETATM 2 O O1 SO4 . . . I 8 63.652 -26.474 19.073 1 73.37 ? O1 SO4 310 B 1 HETATM 3 O O2 SO4 . . . I 8 62.782 -28.471 20.106 1 60.26 ? O2 SO4 310 B 1 HETATM 4 O O3 SO4 . . . I 8 64.888 -27.444 20.885 1 62.3 ? O3 SO4 310 B 1 HETATM 5 O O4 SO4 . . . I 8 62.72 -26.392 21.285 1 67.52 ? O4 SO4 310 B 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 5 #