data_6YSK # _model_server_result.job_id jCrhEUFSg4dmi2hKjkxbqA _model_server_result.datetime_utc '2024-11-22 21:54:33' _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 6ysk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 6YSK # _exptl.entry_id 6YSK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _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 6YSK _cell.length_a 59.94 _cell.length_b 71.9 _cell.length_c 78.41 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6YSK _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 PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,L,M,N,O,P,Q _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 2 _struct_asym.id B _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 disulf ? disulf1 A SG CYS 24 A CYS 101 1_555 A SG CYS 106 A CYS 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? disulf ? disulf2 A SG CYS 53 A CYS 130 1_555 A SG CYS 59 A CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf3 A SG CYS 202 A CYS 279 1_555 A SG CYS 208 A CYS 285 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf4 A SG CYS 229 A CYS 306 1_555 A SG CYS 241 A CYS 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? disulf ? disulf5 A SG CYS 309 A CYS 386 1_555 A SG CYS 372 A CYS 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 A SG CYS 336 A CYS 413 1_555 A SG CYS 355 A CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf7 A SG CYS 363 A CYS 440 1_555 A SG CYS 368 A CYS 445 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.029 ? disulf ? disulf8 A SG CYS 363 A CYS 440 1_555 A SG CYS 368 A CYS 445 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.019 ? covale ? covale1 A ND2 ASN 19 A ASN 96 1_555 B C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.42 ? # _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 255 n n C1 O1 NAG sing 256 n n C1 O5 NAG sing 257 n n C1 H1 NAG sing 258 n n C2 C3 NAG sing 259 n n C2 N2 NAG sing 260 n n C2 H2 NAG sing 261 n n C3 C4 NAG sing 262 n n C3 O3 NAG sing 263 n n C3 H3 NAG sing 264 n n C4 C5 NAG sing 265 n n C4 O4 NAG sing 266 n n C4 H4 NAG sing 267 n n C5 C6 NAG sing 268 n n C5 O5 NAG sing 269 n n C5 H5 NAG sing 270 n n C6 O6 NAG sing 271 n n C6 H61 NAG sing 272 n n C6 H62 NAG sing 273 n n C7 C8 NAG sing 274 n n C7 N2 NAG sing 275 n n C7 O7 NAG doub 276 n n C8 H81 NAG sing 277 n n C8 H82 NAG sing 278 n n C8 H83 NAG sing 279 n n N2 HN2 NAG sing 280 n n O1 HO1 NAG sing 281 n n O3 HO3 NAG sing 282 n n O4 HO4 NAG sing 283 n n O6 HO6 NAG sing 284 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 6YSK _atom_sites.fract_transf_matrix[1][1] 0.016683 _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] 0.013908 _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] 0.012753 _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 NAG A 1 501 501 NAG NAG . C 3 SO4 A 1 502 505 SO4 SO4 . D 3 SO4 A 1 503 508 SO4 SO4 . E 3 SO4 A 1 504 510 SO4 SO4 . F 4 DMS A 1 505 511 DMS DMS . G 5 EDO A 1 506 517 EDO EDO . H 5 EDO A 1 507 521 EDO EDO . I 6 PJK A 1 508 801 PJK LIG . J 5 EDO A 1 509 901 EDO EDO . K 5 EDO A 1 510 1001 EDO EDO . L 5 EDO A 1 511 1101 EDO EDO . M 5 EDO A 1 512 1301 EDO EDO . N 5 EDO A 1 513 1501 EDO EDO . O 5 EDO A 1 514 1601 EDO EDO . P 3 SO4 A 1 515 1 SO4 SO4 . Q 7 HOH A 1 601 667 HOH HOH . Q 7 HOH A 2 602 654 HOH HOH . Q 7 HOH A 3 603 776 HOH HOH . Q 7 HOH A 4 604 754 HOH HOH . Q 7 HOH A 5 605 704 HOH HOH . Q 7 HOH A 6 606 618 HOH HOH . Q 7 HOH A 7 607 690 HOH HOH . Q 7 HOH A 8 608 672 HOH HOH . Q 7 HOH A 9 609 678 HOH HOH . Q 7 HOH A 10 610 606 HOH HOH . Q 7 HOH A 11 611 602 HOH HOH . Q 7 HOH A 12 612 623 HOH HOH . Q 7 HOH A 13 613 750 HOH HOH . Q 7 HOH A 14 614 622 HOH HOH . Q 7 HOH A 15 615 633 HOH HOH . Q 7 HOH A 16 616 603 HOH HOH . Q 7 HOH A 17 617 636 HOH HOH . Q 7 HOH A 18 618 634 HOH HOH . Q 7 HOH A 19 619 675 HOH HOH . Q 7 HOH A 20 620 607 HOH HOH . Q 7 HOH A 21 621 608 HOH HOH . Q 7 HOH A 22 622 641 HOH HOH . Q 7 HOH A 23 623 620 HOH HOH . Q 7 HOH A 24 624 2 HOH HOH . Q 7 HOH A 25 625 683 HOH HOH . Q 7 HOH A 26 626 616 HOH HOH . Q 7 HOH A 27 627 629 HOH HOH . Q 7 HOH A 28 628 657 HOH HOH . Q 7 HOH A 29 629 663 HOH HOH . Q 7 HOH A 30 630 637 HOH HOH . Q 7 HOH A 31 631 640 HOH HOH . Q 7 HOH A 32 632 714 HOH HOH . Q 7 HOH A 33 633 632 HOH HOH . Q 7 HOH A 34 634 650 HOH HOH . Q 7 HOH A 35 635 643 HOH HOH . Q 7 HOH A 36 636 642 HOH HOH . Q 7 HOH A 37 637 645 HOH HOH . Q 7 HOH A 38 638 638 HOH HOH . Q 7 HOH A 39 639 648 HOH HOH . Q 7 HOH A 40 640 673 HOH HOH . Q 7 HOH A 41 641 652 HOH HOH . Q 7 HOH A 42 642 3 HOH HOH . Q 7 HOH A 43 643 691 HOH HOH . Q 7 HOH A 44 644 682 HOH HOH . Q 7 HOH A 45 645 644 HOH HOH . Q 7 HOH A 46 646 731 HOH HOH . Q 7 HOH A 47 647 1 HOH HOH . Q 7 HOH A 48 648 677 HOH HOH . Q 7 HOH A 49 649 674 HOH HOH . Q 7 HOH A 50 650 631 HOH HOH . Q 7 HOH A 51 651 651 HOH HOH . Q 7 HOH A 52 652 649 HOH HOH . Q 7 HOH A 53 653 659 HOH HOH . Q 7 HOH A 54 654 680 HOH HOH . Q 7 HOH A 55 655 749 HOH HOH . Q 7 HOH A 56 656 723 HOH HOH . Q 7 HOH A 57 657 725 HOH HOH . Q 7 HOH A 58 658 626 HOH HOH . Q 7 HOH A 59 659 665 HOH HOH . Q 7 HOH A 60 660 635 HOH HOH . Q 7 HOH A 61 661 668 HOH HOH . Q 7 HOH A 62 662 676 HOH HOH . Q 7 HOH A 63 663 6 HOH HOH . Q 7 HOH A 64 664 703 HOH HOH . Q 7 HOH A 65 665 653 HOH HOH . Q 7 HOH A 66 666 744 HOH HOH . Q 7 HOH A 67 667 694 HOH HOH . Q 7 HOH A 68 668 647 HOH HOH . Q 7 HOH A 69 669 701 HOH HOH . Q 7 HOH A 70 670 666 HOH HOH . Q 7 HOH A 71 671 658 HOH HOH . Q 7 HOH A 72 672 693 HOH HOH . Q 7 HOH A 73 673 687 HOH HOH . Q 7 HOH A 74 674 655 HOH HOH . Q 7 HOH A 75 675 724 HOH HOH . Q 7 HOH A 76 676 737 HOH HOH . Q 7 HOH A 77 677 707 HOH HOH . Q 7 HOH A 78 678 617 HOH HOH . Q 7 HOH A 79 679 709 HOH HOH . Q 7 HOH A 80 680 670 HOH HOH . Q 7 HOH A 81 681 727 HOH HOH . Q 7 HOH A 82 682 716 HOH HOH . Q 7 HOH A 83 683 698 HOH HOH . Q 7 HOH A 84 684 660 HOH HOH . Q 7 HOH A 85 685 733 HOH HOH . Q 7 HOH A 86 686 681 HOH HOH . Q 7 HOH A 87 687 753 HOH HOH . Q 7 HOH A 88 688 5 HOH HOH . Q 7 HOH A 89 689 720 HOH HOH . Q 7 HOH A 90 690 697 HOH HOH . Q 7 HOH A 91 691 695 HOH HOH . Q 7 HOH A 92 692 721 HOH HOH . Q 7 HOH A 93 693 688 HOH HOH . Q 7 HOH A 94 694 736 HOH HOH . Q 7 HOH A 95 695 718 HOH HOH . Q 7 HOH A 96 696 710 HOH HOH . Q 7 HOH A 97 697 735 HOH HOH . Q 7 HOH A 98 698 696 HOH HOH . Q 7 HOH A 99 699 745 HOH HOH . Q 7 HOH A 100 700 729 HOH HOH . Q 7 HOH A 101 701 732 HOH HOH . Q 7 HOH A 102 702 715 HOH HOH . Q 7 HOH A 103 703 756 HOH HOH . Q 7 HOH A 104 704 755 HOH HOH . Q 7 HOH A 105 705 689 HOH HOH . Q 7 HOH A 106 706 763 HOH HOH . Q 7 HOH A 107 707 747 HOH HOH . Q 7 HOH A 108 708 734 HOH HOH . Q 7 HOH A 109 709 719 HOH HOH . Q 7 HOH A 110 710 699 HOH HOH . Q 7 HOH A 111 711 700 HOH HOH . Q 7 HOH A 112 712 739 HOH HOH . Q 7 HOH A 113 713 621 HOH HOH . Q 7 HOH A 114 714 722 HOH HOH . Q 7 HOH A 115 715 4 HOH HOH . Q 7 HOH A 116 716 669 HOH HOH . Q 7 HOH A 117 717 730 HOH HOH . Q 7 HOH A 118 718 772 HOH HOH . Q 7 HOH A 119 719 761 HOH HOH . Q 7 HOH A 120 720 779 HOH HOH . Q 7 HOH A 121 721 773 HOH HOH . Q 7 HOH A 122 722 782 HOH HOH . Q 7 HOH A 123 723 783 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 NAG . . . B 2 4.332 -20.807 -0.897 1 50.38 ? C1 NAG 501 A 1 HETATM 2 C C2 NAG . . . B 2 5.241 -21.575 -1.852 1 65.98 ? C2 NAG 501 A 1 HETATM 3 C C3 NAG . . . B 2 6.697 -21.487 -1.398 1 66.58 ? C3 NAG 501 A 1 HETATM 4 C C4 NAG . . . B 2 7.099 -20.043 -1.129 1 70.61 ? C4 NAG 501 A 1 HETATM 5 C C5 NAG . . . B 2 6.102 -19.401 -0.174 1 75.53 ? C5 NAG 501 A 1 HETATM 6 C C6 NAG . . . B 2 6.389 -17.946 0.117 1 91.61 ? C6 NAG 501 A 1 HETATM 7 C C7 NAG . . . B 2 4.53 -23.592 -3.074 1 87.99 ? C7 NAG 501 A 1 HETATM 8 C C8 NAG . . . B 2 4.08 -25.018 -2.946 1 90.97 ? C8 NAG 501 A 1 HETATM 9 N N2 NAG . . . B 2 4.81 -22.963 -1.928 1 78.45 ? N2 NAG 501 A 1 HETATM 10 O O3 NAG . . . B 2 7.528 -22.032 -2.415 1 63.77 ? O3 NAG 501 A 1 HETATM 11 O O4 NAG . . . B 2 8.396 -20.003 -0.547 1 68.69 ? O4 NAG 501 A 1 HETATM 12 O O5 NAG . . . B 2 4.796 -19.47 -0.756 1 60.91 ? O5 NAG 501 A 1 HETATM 13 O O6 NAG . . . B 2 5.959 -17.099 -0.939 1 102.57 ? O6 NAG 501 A 1 HETATM 14 O O7 NAG . . . B 2 4.644 -23.041 -4.164 1 91.34 ? O7 NAG 501 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #