data_4ZLB # _model_server_result.job_id CPWUeaHtj1YuQLWnb_3SBQ _model_server_result.datetime_utc '2024-11-28 04:32:37' _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 4zlb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":307}' # _entry.id 4ZLB # _exptl.entry_id 4ZLB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 150.13 _entity.id 8 _entity.src_method man _entity.type non-polymer _entity.pdbx_description beta-D-xylopyranose _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 4ZLB _cell.length_a 129.38 _cell.length_b 139.57 _cell.length_c 45.1 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZLB _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 8 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 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 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 2 1 FUC NAG C1 O1 . O3 HO3 . sing 3 ? 5 2 1 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 6 2 1 GAL BGC C1 O1 . O4 HO4 . 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 3 n C NAG 1 C 1 NAG B 301 NAG 3 n C NAG 2 C 2 NAG B 302 NAG 4 n D NAG 1 D 1 NAG B 303 NAG 4 n D FUC 2 D 2 FUC B 304 FUC 5 n E NAG 1 E 1 NAG B 305 NAG 5 n E BMA 2 E 2 BMA B 306 BMA 6 n F BGC 1 F 1 BGC B 308 LAT 6 n F GAL 2 F 2 GAL B 308 LAT # 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 246 A CYS 246 1_555 B SG CYS 4 B CYS 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf2 B SG CYS 20 B CYS 20 1_555 B SG CYS 39 B CYS 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 B SG CYS 61 B CYS 61 1_555 B SG CYS 78 B CYS 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf4 B SG CYS 148 B CYS 148 1_555 B SG CYS 163 B CYS 163 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf5 B SG CYS 189 B CYS 189 1_555 B SG CYS 206 B CYS 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 108 A ASN 108 1_555 G C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale2 B ND2 ASN 97 B ASN 97 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.483 ? covale ? covale3 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale4 D O3 NAG . D NAG 1 1_555 D C1 FUC . D FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.459 ? covale ? covale5 E O4 NAG . E NAG 1 1_555 E C1 BMA . E BMA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale6 F O4 BGC . F BGC 1 1_555 F C1 GAL . F GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 sing # _chem_comp.formula 'C5 H10 O5' _chem_comp.formula_weight 150.13 _chem_comp.id XYP _chem_comp.mon_nstd_flag . _chem_comp.name beta-D-xylopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms beta-D-xylose;D-xylose;xylose # 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 O1 C1 XYP sing 501 n n O1 HO1 XYP sing 502 n n C1 C2 XYP sing 503 n n C1 O5 XYP sing 504 n n C1 H1 XYP sing 505 n n C2 C3 XYP sing 506 n n C2 O2 XYP sing 507 n n C2 H2 XYP sing 508 n n C3 C4 XYP sing 509 n n C3 O3 XYP sing 510 n n C3 H3 XYP sing 511 n n C4 C5 XYP sing 512 n n C4 O4 XYP sing 513 n n C4 H4 XYP sing 514 n n C5 O5 XYP sing 515 n n C5 H51 XYP sing 516 n n C5 H52 XYP sing 517 n n O2 HO2 XYP sing 518 n n O3 HO3 XYP sing 519 n n O4 HO4 XYP sing 520 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version XYP DXylpb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 XYP b-D-xylopyranose 'COMMON NAME' GMML 1 XYP b-D-Xylp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 XYP Xyl 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 4ZLB _atom_sites.fract_transf_matrix[1][1] 0.007729 _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] 0.007165 _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] 0.022173 _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 A 1 301 301 NAG NAG . H 8 XYP B 1 307 307 XYP XYP . I 9 HOH A 1 401 401 HOH HOH . I 9 HOH A 2 402 402 HOH HOH . I 9 HOH A 3 403 403 HOH HOH . I 9 HOH A 4 404 404 HOH HOH . I 9 HOH A 5 405 405 HOH HOH . I 9 HOH A 6 406 406 HOH HOH . I 9 HOH A 7 407 407 HOH HOH . I 9 HOH A 8 408 408 HOH HOH . I 9 HOH A 9 409 409 HOH HOH . I 9 HOH A 10 410 410 HOH HOH . I 9 HOH A 11 411 411 HOH HOH . I 9 HOH A 12 412 412 HOH HOH . I 9 HOH A 13 413 413 HOH HOH . I 9 HOH A 14 414 414 HOH HOH . I 9 HOH A 15 415 415 HOH HOH . I 9 HOH A 16 416 416 HOH HOH . I 9 HOH A 17 417 417 HOH HOH . I 9 HOH A 18 418 418 HOH HOH . I 9 HOH A 19 419 419 HOH HOH . I 9 HOH A 20 420 420 HOH HOH . I 9 HOH A 21 421 421 HOH HOH . I 9 HOH A 22 422 422 HOH HOH . I 9 HOH A 23 423 423 HOH HOH . I 9 HOH A 24 424 424 HOH HOH . I 9 HOH A 25 425 425 HOH HOH . I 9 HOH A 26 426 426 HOH HOH . I 9 HOH A 27 427 427 HOH HOH . I 9 HOH A 28 428 428 HOH HOH . I 9 HOH A 29 429 429 HOH HOH . I 9 HOH A 30 430 430 HOH HOH . I 9 HOH A 31 431 431 HOH HOH . I 9 HOH A 32 432 432 HOH HOH . I 9 HOH A 33 433 433 HOH HOH . I 9 HOH A 34 434 434 HOH HOH . I 9 HOH A 35 435 435 HOH HOH . I 9 HOH A 36 436 436 HOH HOH . I 9 HOH A 37 437 437 HOH HOH . I 9 HOH A 38 438 438 HOH HOH . I 9 HOH A 39 439 439 HOH HOH . I 9 HOH A 40 440 440 HOH HOH . I 9 HOH A 41 441 441 HOH HOH . I 9 HOH A 42 442 442 HOH HOH . I 9 HOH A 43 443 443 HOH HOH . I 9 HOH A 44 444 444 HOH HOH . I 9 HOH A 45 445 445 HOH HOH . I 9 HOH A 46 446 446 HOH HOH . I 9 HOH A 47 447 447 HOH HOH . I 9 HOH A 48 448 448 HOH HOH . I 9 HOH A 49 449 449 HOH HOH . I 9 HOH A 50 450 450 HOH HOH . I 9 HOH A 51 451 451 HOH HOH . I 9 HOH A 52 452 452 HOH HOH . I 9 HOH A 53 453 453 HOH HOH . I 9 HOH A 54 454 454 HOH HOH . I 9 HOH A 55 455 455 HOH HOH . I 9 HOH A 56 456 456 HOH HOH . I 9 HOH A 57 457 457 HOH HOH . I 9 HOH A 58 458 458 HOH HOH . I 9 HOH A 59 459 459 HOH HOH . I 9 HOH A 60 460 460 HOH HOH . I 9 HOH A 61 461 461 HOH HOH . I 9 HOH A 62 462 462 HOH HOH . I 9 HOH A 63 463 463 HOH HOH . I 9 HOH A 64 464 464 HOH HOH . I 9 HOH A 65 465 465 HOH HOH . I 9 HOH A 66 466 466 HOH HOH . I 9 HOH A 67 467 467 HOH HOH . I 9 HOH A 68 468 468 HOH HOH . I 9 HOH A 69 469 469 HOH HOH . I 9 HOH A 70 470 470 HOH HOH . I 9 HOH A 71 471 471 HOH HOH . I 9 HOH A 72 472 472 HOH HOH . I 9 HOH A 73 473 473 HOH HOH . I 9 HOH A 74 474 474 HOH HOH . I 9 HOH A 75 475 475 HOH HOH . I 9 HOH A 76 476 476 HOH HOH . I 9 HOH A 77 477 477 HOH HOH . I 9 HOH A 78 478 478 HOH HOH . J 9 HOH B 1 401 401 HOH HOH . J 9 HOH B 2 402 402 HOH HOH . J 9 HOH B 3 403 403 HOH HOH . J 9 HOH B 4 404 404 HOH HOH . J 9 HOH B 5 405 405 HOH HOH . J 9 HOH B 6 406 406 HOH HOH . J 9 HOH B 7 407 407 HOH HOH . J 9 HOH B 8 408 408 HOH HOH . J 9 HOH B 9 409 409 HOH HOH . J 9 HOH B 10 410 410 HOH HOH . J 9 HOH B 11 411 411 HOH HOH . J 9 HOH B 12 412 412 HOH HOH . J 9 HOH B 13 413 413 HOH HOH . J 9 HOH B 14 414 414 HOH HOH . J 9 HOH B 15 415 415 HOH HOH . J 9 HOH B 16 416 416 HOH HOH . J 9 HOH B 17 417 417 HOH HOH . J 9 HOH B 18 418 418 HOH HOH . J 9 HOH B 19 419 419 HOH HOH . J 9 HOH B 20 420 420 HOH HOH . J 9 HOH B 21 421 421 HOH HOH . J 9 HOH B 22 422 422 HOH HOH . J 9 HOH B 23 423 423 HOH HOH . J 9 HOH B 24 424 424 HOH HOH . J 9 HOH B 25 425 425 HOH HOH . J 9 HOH B 26 426 426 HOH HOH . J 9 HOH B 27 427 427 HOH HOH . J 9 HOH B 28 428 428 HOH HOH . J 9 HOH B 29 429 429 HOH HOH . J 9 HOH B 30 430 430 HOH HOH . J 9 HOH B 31 431 431 HOH HOH . J 9 HOH B 32 432 432 HOH HOH . J 9 HOH B 33 433 433 HOH HOH . J 9 HOH B 34 434 434 HOH HOH . J 9 HOH B 35 435 435 HOH HOH . J 9 HOH B 36 436 436 HOH HOH . J 9 HOH B 37 437 437 HOH HOH . J 9 HOH B 38 438 438 HOH HOH . J 9 HOH B 39 439 439 HOH HOH . J 9 HOH B 40 440 440 HOH HOH . J 9 HOH B 41 441 441 HOH HOH . J 9 HOH B 42 442 442 HOH HOH . J 9 HOH B 43 443 443 HOH HOH . J 9 HOH B 44 444 444 HOH HOH . J 9 HOH B 45 445 445 HOH HOH . J 9 HOH B 46 446 446 HOH HOH . J 9 HOH B 47 447 447 HOH HOH . J 9 HOH B 48 448 448 HOH HOH . J 9 HOH B 49 449 449 HOH HOH . J 9 HOH B 50 450 450 HOH HOH . J 9 HOH B 51 451 451 HOH HOH . J 9 HOH B 52 452 452 HOH HOH . J 9 HOH B 53 453 453 HOH HOH . J 9 HOH B 54 454 454 HOH HOH . J 9 HOH B 55 455 455 HOH HOH . J 9 HOH B 56 456 456 HOH HOH . J 9 HOH B 57 457 457 HOH HOH . J 9 HOH B 58 458 458 HOH HOH . J 9 HOH B 59 459 459 HOH HOH . J 9 HOH B 60 460 460 HOH HOH . J 9 HOH B 61 461 461 HOH HOH . J 9 HOH B 62 462 462 HOH HOH . J 9 HOH B 63 463 463 HOH HOH . J 9 HOH B 64 464 464 HOH HOH . J 9 HOH B 65 465 465 HOH HOH . J 9 HOH B 66 466 466 HOH HOH . J 9 HOH B 67 467 467 HOH HOH . J 9 HOH B 68 468 468 HOH HOH . J 9 HOH B 69 469 469 HOH HOH . J 9 HOH B 70 470 470 HOH HOH . J 9 HOH B 71 471 471 HOH HOH . J 9 HOH B 72 472 472 HOH HOH . J 9 HOH B 73 473 473 HOH HOH . J 9 HOH B 74 474 474 HOH HOH . J 9 HOH B 75 475 475 HOH HOH . J 9 HOH B 76 476 476 HOH HOH . J 9 HOH B 77 477 477 HOH HOH . J 9 HOH B 78 478 478 HOH HOH . J 9 HOH B 79 479 479 HOH HOH . J 9 HOH B 80 480 480 HOH HOH . J 9 HOH B 81 481 481 HOH HOH . J 9 HOH B 82 482 482 HOH HOH . J 9 HOH B 83 483 483 HOH HOH . J 9 HOH B 84 484 484 HOH HOH . J 9 HOH B 85 485 485 HOH HOH . J 9 HOH B 86 486 486 HOH HOH . J 9 HOH B 87 487 487 HOH HOH . J 9 HOH B 88 488 488 HOH HOH . J 9 HOH B 89 489 489 HOH HOH . J 9 HOH B 90 490 490 HOH HOH . J 9 HOH B 91 491 491 HOH HOH . J 9 HOH B 92 492 492 HOH HOH . J 9 HOH B 93 493 493 HOH HOH . J 9 HOH B 94 494 494 HOH HOH . J 9 HOH B 95 495 495 HOH HOH . J 9 HOH B 96 496 496 HOH HOH . J 9 HOH B 97 497 497 HOH HOH . J 9 HOH B 98 498 498 HOH HOH . J 9 HOH B 99 499 499 HOH HOH . J 9 HOH B 100 500 500 HOH HOH . J 9 HOH B 101 501 501 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 XYP . . . H 8 49.744 141.516 33.327 1 20 ? C1 XYP 307 B 1 HETATM 2 C C2 XYP . . . H 8 49.699 141.265 31.818 1 20 ? C2 XYP 307 B 1 HETATM 3 C C3 XYP . . . H 8 50.915 140.428 31.411 1 20 ? C3 XYP 307 B 1 HETATM 4 C C4 XYP . . . H 8 52.183 141.122 31.922 1 20 ? C4 XYP 307 B 1 HETATM 5 C C5 XYP . . . H 8 52.041 141.384 33.424 1 20 ? C5 XYP 307 B 1 HETATM 6 O O2 XYP . . . H 8 48.5 140.564 31.486 1 20 ? O2 XYP 307 B 1 HETATM 7 O O3 XYP . . . H 8 50.964 140.312 29.988 1 20 ? O3 XYP 307 B 1 HETATM 8 O O4 XYP . . . H 8 53.316 140.284 31.687 1 20 ? O4 XYP 307 B 1 HETATM 9 O O5 XYP . . . H 8 50.927 142.24 33.661 1 20 ? O5 XYP 307 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 250 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 9 #