data_1XCX # _model_server_result.job_id Juv25Kfx-N84rvfTCGX5Uw _model_server_result.datetime_utc '2024-11-25 21:24:41' _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 1xcx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":499}' # _entry.id 1XCX # _exptl.entry_id 1XCX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _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 1XCX _cell.length_a 53.2 _cell.length_b 69.2 _cell.length_c 131.9 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XCX _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 5 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type 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 ? 2 2 1 GLC BGC C1 O1 . O6 HO6 . sing 2 ? 2 3 2 AC1 GLC 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 2 n B BGC 1 B 1 BGC ? 501 IAB 2 n B GLC 2 B 2 GLC ? 501 IAB 2 n B AC1 3 B 3 AC1 ? 501 IAB # 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 28 A CYS 28 1_555 A SG CYS 86 A CYS 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 70 A CYS 70 1_555 A SG CYS 115 A CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 A SG CYS 141 A CYS 141 1_555 A SG CYS 160 A CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 A SG CYS 378 A CYS 378 1_555 A SG CYS 384 A CYS 384 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 450 A CYS 450 1_555 A SG CYS 462 A CYS 462 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? covale ? covale1 A C PCA 1 A PCA 1 1_555 A N TYR 2 A TYR 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.352 ? covale ? covale2 A ND2 ASN 461 A ASN 461 1_555 E C1 NAG . A NAG 499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 B O6 BGC . B BGC 1 1_555 B C1 GLC . B GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 sing covale ? covale4 B O4 GLC . B GLC 2 1_555 B C1 AC1 . B AC1 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.409 sing metalc ? metalc1 A OD1 ASN 100 A ASN 100 1_555 C CA CA . A CA 497 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? metalc ? metalc2 A O ARG 158 A ARG 158 1_555 C CA CA . A CA 497 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? metalc ? metalc3 A OD2 ASP 167 A ASP 167 1_555 C CA CA . A CA 497 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.484 ? metalc ? metalc4 A OD1 ASP 167 A ASP 167 1_555 C CA CA . A CA 497 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.466 ? metalc ? metalc5 A O HIS 201 A HIS 201 1_555 C CA CA . A CA 497 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? metalc ? metalc6 C CA CA . A CA 497 1_555 F O HOH . A HOH 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.441 ? metalc ? metalc7 C CA CA . A CA 497 1_555 F O HOH . A HOH 533 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? metalc ? metalc8 C CA CA . A CA 497 1_555 F O HOH . A HOH 563 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.653 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE # 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 C2 NAG sing 331 n n C1 O1 NAG sing 332 n n C1 O5 NAG sing 333 n n C1 H1 NAG sing 334 n n C2 C3 NAG sing 335 n n C2 N2 NAG sing 336 n n C2 H2 NAG sing 337 n n C3 C4 NAG sing 338 n n C3 O3 NAG sing 339 n n C3 H3 NAG sing 340 n n C4 C5 NAG sing 341 n n C4 O4 NAG sing 342 n n C4 H4 NAG sing 343 n n C5 C6 NAG sing 344 n n C5 O5 NAG sing 345 n n C5 H5 NAG sing 346 n n C6 O6 NAG sing 347 n n C6 H61 NAG sing 348 n n C6 H62 NAG sing 349 n n C7 C8 NAG sing 350 n n C7 N2 NAG sing 351 n n C7 O7 NAG doub 352 n n C8 H81 NAG sing 353 n n C8 H82 NAG sing 354 n n C8 H83 NAG sing 355 n n N2 HN2 NAG sing 356 n n O1 HO1 NAG sing 357 n n O3 HO3 NAG sing 358 n n O4 HO4 NAG sing 359 n n O6 HO6 NAG sing 360 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 NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 1XCX _atom_sites.fract_transf_matrix[1][1] 0.018797 _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] 0.014451 _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] 0.007582 _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 C 3 CA A 1 497 497 CA CA . D 4 CL A 1 498 498 CL CL . E 5 NAG A 1 499 499 NAG NAG . F 6 HOH A 1 506 506 HOH WAT . F 6 HOH A 2 507 507 HOH WAT . F 6 HOH A 3 508 508 HOH WAT . F 6 HOH A 4 509 509 HOH WAT . F 6 HOH A 5 510 510 HOH WAT . F 6 HOH A 6 511 511 HOH WAT . F 6 HOH A 7 512 512 HOH WAT . F 6 HOH A 8 513 513 HOH WAT . F 6 HOH A 9 514 514 HOH WAT . F 6 HOH A 10 515 515 HOH WAT . F 6 HOH A 11 516 516 HOH WAT . F 6 HOH A 12 517 517 HOH WAT . F 6 HOH A 13 518 518 HOH WAT . F 6 HOH A 14 519 519 HOH WAT . F 6 HOH A 15 520 520 HOH WAT . F 6 HOH A 16 521 521 HOH WAT . F 6 HOH A 17 522 522 HOH WAT . F 6 HOH A 18 523 523 HOH WAT . F 6 HOH A 19 524 524 HOH WAT . F 6 HOH A 20 525 525 HOH WAT . F 6 HOH A 21 526 526 HOH WAT . F 6 HOH A 22 527 527 HOH WAT . F 6 HOH A 23 528 528 HOH WAT . F 6 HOH A 24 529 529 HOH WAT . F 6 HOH A 25 530 530 HOH WAT . F 6 HOH A 26 531 531 HOH WAT . F 6 HOH A 27 532 532 HOH WAT . F 6 HOH A 28 533 533 HOH WAT . F 6 HOH A 29 534 534 HOH WAT . F 6 HOH A 30 535 535 HOH WAT . F 6 HOH A 31 536 536 HOH WAT . F 6 HOH A 32 537 537 HOH WAT . F 6 HOH A 33 538 538 HOH WAT . F 6 HOH A 34 539 539 HOH WAT . F 6 HOH A 35 540 540 HOH WAT . F 6 HOH A 36 541 541 HOH WAT . F 6 HOH A 37 542 542 HOH WAT . F 6 HOH A 38 543 543 HOH WAT . F 6 HOH A 39 544 544 HOH WAT . F 6 HOH A 40 545 545 HOH WAT . F 6 HOH A 41 546 546 HOH WAT . F 6 HOH A 42 547 547 HOH WAT . F 6 HOH A 43 548 548 HOH WAT . F 6 HOH A 44 549 549 HOH WAT . F 6 HOH A 45 550 550 HOH WAT . F 6 HOH A 46 551 551 HOH WAT . F 6 HOH A 47 552 552 HOH WAT . F 6 HOH A 48 553 553 HOH WAT . F 6 HOH A 49 554 554 HOH WAT . F 6 HOH A 50 555 555 HOH WAT . F 6 HOH A 51 556 556 HOH WAT . F 6 HOH A 52 557 557 HOH WAT . F 6 HOH A 53 558 558 HOH WAT . F 6 HOH A 54 559 559 HOH WAT . F 6 HOH A 55 560 560 HOH WAT . F 6 HOH A 56 561 561 HOH WAT . F 6 HOH A 57 562 562 HOH WAT . F 6 HOH A 58 563 563 HOH WAT . F 6 HOH A 59 564 564 HOH WAT . F 6 HOH A 60 565 565 HOH WAT . F 6 HOH A 61 567 567 HOH WAT . F 6 HOH A 62 568 568 HOH WAT . F 6 HOH A 63 569 569 HOH WAT . F 6 HOH A 64 570 570 HOH WAT . F 6 HOH A 65 571 571 HOH WAT . F 6 HOH A 66 572 572 HOH WAT . F 6 HOH A 67 573 573 HOH WAT . F 6 HOH A 68 574 574 HOH WAT . F 6 HOH A 69 575 575 HOH WAT . F 6 HOH A 70 576 576 HOH WAT . F 6 HOH A 71 577 577 HOH WAT . F 6 HOH A 72 578 578 HOH WAT . F 6 HOH A 73 579 579 HOH WAT . F 6 HOH A 74 580 580 HOH WAT . F 6 HOH A 75 581 581 HOH WAT . F 6 HOH A 76 582 582 HOH WAT . F 6 HOH A 77 583 583 HOH WAT . F 6 HOH A 78 584 584 HOH WAT . F 6 HOH A 79 585 585 HOH WAT . F 6 HOH A 80 586 586 HOH WAT . F 6 HOH A 81 587 587 HOH WAT . F 6 HOH A 82 588 588 HOH WAT . F 6 HOH A 83 589 589 HOH WAT . F 6 HOH A 84 590 590 HOH WAT . F 6 HOH A 85 591 591 HOH WAT . F 6 HOH A 86 593 593 HOH WAT . F 6 HOH A 87 594 594 HOH WAT . F 6 HOH A 88 595 595 HOH WAT . F 6 HOH A 89 596 596 HOH WAT . F 6 HOH A 90 597 597 HOH WAT . F 6 HOH A 91 598 598 HOH WAT . F 6 HOH A 92 599 599 HOH WAT . F 6 HOH A 93 600 600 HOH WAT . F 6 HOH A 94 601 601 HOH WAT . F 6 HOH A 95 602 602 HOH WAT . F 6 HOH A 96 603 603 HOH WAT . F 6 HOH A 97 604 604 HOH WAT . F 6 HOH A 98 605 605 HOH WAT . F 6 HOH A 99 606 606 HOH WAT . F 6 HOH A 100 607 607 HOH WAT . F 6 HOH A 101 608 608 HOH WAT . F 6 HOH A 102 610 610 HOH WAT . F 6 HOH A 103 611 611 HOH WAT . F 6 HOH A 104 613 613 HOH WAT . F 6 HOH A 105 614 614 HOH WAT . F 6 HOH A 106 615 615 HOH WAT . F 6 HOH A 107 616 616 HOH WAT . F 6 HOH A 108 617 617 HOH WAT . F 6 HOH A 109 618 618 HOH WAT . F 6 HOH A 110 619 619 HOH WAT . F 6 HOH A 111 620 620 HOH WAT . F 6 HOH A 112 621 621 HOH WAT . F 6 HOH A 113 622 622 HOH WAT . F 6 HOH A 114 623 623 HOH WAT . F 6 HOH A 115 625 625 HOH WAT . F 6 HOH A 116 626 626 HOH WAT . F 6 HOH A 117 627 627 HOH WAT . F 6 HOH A 118 628 628 HOH WAT . F 6 HOH A 119 629 629 HOH WAT . F 6 HOH A 120 630 630 HOH WAT . F 6 HOH A 121 631 631 HOH WAT . F 6 HOH A 122 632 632 HOH WAT . F 6 HOH A 123 634 634 HOH WAT . F 6 HOH A 124 635 635 HOH WAT . F 6 HOH A 125 636 636 HOH WAT . F 6 HOH A 126 638 638 HOH WAT . F 6 HOH A 127 639 639 HOH WAT . F 6 HOH A 128 641 641 HOH WAT . F 6 HOH A 129 643 643 HOH WAT . F 6 HOH A 130 644 644 HOH WAT . F 6 HOH A 131 645 645 HOH WAT . F 6 HOH A 132 646 646 HOH WAT . F 6 HOH A 133 648 648 HOH WAT . F 6 HOH A 134 649 649 HOH WAT . F 6 HOH A 135 650 650 HOH WAT . F 6 HOH A 136 652 652 HOH WAT . F 6 HOH A 137 653 653 HOH WAT . F 6 HOH A 138 655 655 HOH WAT . F 6 HOH A 139 656 656 HOH WAT . F 6 HOH A 140 657 657 HOH WAT . F 6 HOH A 141 659 659 HOH WAT . F 6 HOH A 142 660 660 HOH WAT . F 6 HOH A 143 661 661 HOH WAT . # 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 NAG . . . E 5 6.485 66.436 56.484 1 38.5 ? C1 NAG 499 A 1 HETATM 2 C C2 NAG . . . E 5 7.072 67.002 57.763 1 40.34 ? C2 NAG 499 A 1 HETATM 3 C C3 NAG . . . E 5 6.975 68.517 57.746 1 41.2 ? C3 NAG 499 A 1 HETATM 4 C C4 NAG . . . E 5 7.63 69.119 56.531 1 41.4 ? C4 NAG 499 A 1 HETATM 5 C C5 NAG . . . E 5 7.135 68.433 55.232 1 42.1 ? C5 NAG 499 A 1 HETATM 6 C C6 NAG . . . E 5 7.965 68.807 54.003 1 42.44 ? C6 NAG 499 A 1 HETATM 7 C C7 NAG . . . E 5 6.949 65.876 59.926 1 46.42 ? C7 NAG 499 A 1 HETATM 8 C C8 NAG . . . E 5 6.003 65.406 61.004 1 46.91 ? C8 NAG 499 A 1 HETATM 9 N N2 NAG . . . E 5 6.32 66.471 58.917 1 43.86 ? N2 NAG 499 A 1 HETATM 10 O O3 NAG . . . E 5 7.575 69.021 58.962 1 43.35 ? O3 NAG 499 A 1 HETATM 11 O O4 NAG . . . E 5 7.302 70.504 56.43 1 42.07 ? O4 NAG 499 A 1 HETATM 12 O O5 NAG . . . E 5 7.188 66.973 55.378 1 40.95 ? O5 NAG 499 A 1 HETATM 13 O O6 NAG . . . E 5 7.447 68.155 52.831 1 51.83 ? O6 NAG 499 A 1 HETATM 14 O O7 NAG . . . E 5 8.165 65.716 59.996 1 50.26 ? O7 NAG 499 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #