data_6YV4
#
_model_server_result.job_id            '_aXy9XOITCJN2vcYJtzHxA' 
_model_server_result.datetime_utc      '2024-11-05 16:29:29' 
_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          6yv4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":502}' 
#
_entry.id    6YV4 
#
_exptl.entry_id    6YV4 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              221.208 
_entity.id                          3 
_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            6YV4 
_cell.length_a            59.24 
_cell.length_b            73.46 
_cell.length_c            79.38 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6YV4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    'P 2ac 2ab' 
_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 
_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                      3 
_struct_asym.id                             C 
_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 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
disulf ? disulf2 A SG CYS 53 A CYS 130 1_555 A SG CYS 59 A CYS 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? 
disulf ? disulf3 A SG CYS 202 A CYS 279 1_555 A SG CYS 208 A CYS 285 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf4 A SG CYS 229 A CYS 306 1_555 A SG CYS 241 A CYS 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? 
disulf ? disulf5 A SG CYS 309 A CYS 386 1_555 A SG CYS 372 A CYS 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf6 A SG CYS 336 A CYS 413 1_555 A SG CYS 355 A CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? 
disulf ? disulf7 A SG CYS 363 A CYS 440 1_555 A SG CYS 368 A CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
covale ? covale1 A ND2 ASN 19 A ASN 96 1_555 C C1 NAG . A NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? 
#
_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 246 n n 
C1 O1 NAG sing 247 n n 
C1 O5 NAG sing 248 n n 
C1 H1 NAG sing 249 n n 
C2 C3 NAG sing 250 n n 
C2 N2 NAG sing 251 n n 
C2 H2 NAG sing 252 n n 
C3 C4 NAG sing 253 n n 
C3 O3 NAG sing 254 n n 
C3 H3 NAG sing 255 n n 
C4 C5 NAG sing 256 n n 
C4 O4 NAG sing 257 n n 
C4 H4 NAG sing 258 n n 
C5 C6 NAG sing 259 n n 
C5 O5 NAG sing 260 n n 
C5 H5 NAG sing 261 n n 
C6 O6 NAG sing 262 n n 
C6 H61 NAG sing 263 n n 
C6 H62 NAG sing 264 n n 
C7 C8 NAG sing 265 n n 
C7 N2 NAG sing 266 n n 
C7 O7 NAG doub 267 n n 
C8 H81 NAG sing 268 n n 
C8 H82 NAG sing 269 n n 
C8 H83 NAG sing 270 n n 
N2 HN2 NAG sing 271 n n 
O1 HO1 NAG sing 272 n n 
O3 HO3 NAG sing 273 n n 
O4 HO4 NAG sing 274 n n 
O6 HO6 NAG sing 275 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                     6YV4 
_atom_sites.fract_transf_matrix[1][1]    0.01688 
_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]    0.013613 
_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]    0.012598 
_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 PQK A 1 501 501 PQK 686 . 
C 3 NAG A 1 502 1102 NAG NAG . 
D 4 SO4 A 1 503 701 SO4 SO4 . 
E 5 EDO A 1 504 1201 EDO EDO . 
F 5 EDO A 1 505 1501 EDO EDO . 
G 5 EDO A 1 506 1601 EDO EDO . 
H 5 EDO A 1 507 1701 EDO EDO . 
I 5 EDO A 1 508 1801 EDO EDO . 
J 4 SO4 A 1 509 1901 SO4 SO4 . 
K 6 HOH A 1 601 135 HOH HOH . 
K 6 HOH A 2 602 143 HOH HOH . 
K 6 HOH A 3 603 46 HOH HOH . 
K 6 HOH A 4 604 49 HOH HOH . 
K 6 HOH A 5 605 128 HOH HOH . 
K 6 HOH A 6 606 67 HOH HOH . 
K 6 HOH A 7 607 10 HOH HOH . 
K 6 HOH A 8 608 68 HOH HOH . 
K 6 HOH A 9 609 32 HOH HOH . 
K 6 HOH A 10 610 84 HOH HOH . 
K 6 HOH A 11 611 44 HOH HOH . 
K 6 HOH A 12 612 50 HOH HOH . 
K 6 HOH A 13 613 96 HOH HOH . 
K 6 HOH A 14 614 137 HOH HOH . 
K 6 HOH A 15 615 4 HOH HOH . 
K 6 HOH A 16 616 118 HOH HOH . 
K 6 HOH A 17 617 36 HOH HOH . 
K 6 HOH A 18 618 35 HOH HOH . 
K 6 HOH A 19 619 26 HOH HOH . 
K 6 HOH A 20 620 53 HOH HOH . 
K 6 HOH A 21 621 47 HOH HOH . 
K 6 HOH A 22 622 30 HOH HOH . 
K 6 HOH A 23 623 31 HOH HOH . 
K 6 HOH A 24 624 140 HOH HOH . 
K 6 HOH A 25 625 64 HOH HOH . 
K 6 HOH A 26 626 39 HOH HOH . 
K 6 HOH A 27 627 23 HOH HOH . 
K 6 HOH A 28 628 122 HOH HOH . 
K 6 HOH A 29 629 133 HOH HOH . 
K 6 HOH A 30 630 69 HOH HOH . 
K 6 HOH A 31 631 7 HOH HOH . 
K 6 HOH A 32 632 42 HOH HOH . 
K 6 HOH A 33 633 1 HOH HOH . 
K 6 HOH A 34 634 16 HOH HOH . 
K 6 HOH A 35 635 101 HOH HOH . 
K 6 HOH A 36 636 24 HOH HOH . 
K 6 HOH A 37 637 131 HOH HOH . 
K 6 HOH A 38 638 37 HOH HOH . 
K 6 HOH A 39 639 5 HOH HOH . 
K 6 HOH A 40 640 108 HOH HOH . 
K 6 HOH A 41 641 38 HOH HOH . 
K 6 HOH A 42 642 3 HOH HOH . 
K 6 HOH A 43 643 22 HOH HOH . 
K 6 HOH A 44 644 61 HOH HOH . 
K 6 HOH A 45 645 60 HOH HOH . 
K 6 HOH A 46 646 76 HOH HOH . 
K 6 HOH A 47 647 27 HOH HOH . 
K 6 HOH A 48 648 63 HOH HOH . 
K 6 HOH A 49 649 129 HOH HOH . 
K 6 HOH A 50 650 45 HOH HOH . 
K 6 HOH A 51 651 130 HOH HOH . 
K 6 HOH A 52 652 2 HOH HOH . 
K 6 HOH A 53 653 125 HOH HOH . 
K 6 HOH A 54 654 17 HOH HOH . 
K 6 HOH A 55 655 134 HOH HOH . 
K 6 HOH A 56 656 81 HOH HOH . 
K 6 HOH A 57 657 18 HOH HOH . 
K 6 HOH A 58 658 52 HOH HOH . 
K 6 HOH A 59 659 13 HOH HOH . 
K 6 HOH A 60 660 28 HOH HOH . 
K 6 HOH A 61 661 86 HOH HOH . 
K 6 HOH A 62 662 120 HOH HOH . 
K 6 HOH A 63 663 82 HOH HOH . 
K 6 HOH A 64 664 11 HOH HOH . 
K 6 HOH A 65 665 21 HOH HOH . 
K 6 HOH A 66 666 20 HOH HOH . 
K 6 HOH A 67 667 48 HOH HOH . 
K 6 HOH A 68 668 33 HOH HOH . 
K 6 HOH A 69 669 56 HOH HOH . 
K 6 HOH A 70 670 62 HOH HOH . 
K 6 HOH A 71 671 104 HOH HOH . 
K 6 HOH A 72 672 109 HOH HOH . 
K 6 HOH A 73 673 79 HOH HOH . 
K 6 HOH A 74 674 112 HOH HOH . 
K 6 HOH A 75 675 89 HOH HOH . 
K 6 HOH A 76 676 15 HOH HOH . 
K 6 HOH A 77 677 6 HOH HOH . 
K 6 HOH A 78 678 19 HOH HOH . 
K 6 HOH A 79 679 72 HOH HOH . 
K 6 HOH A 80 680 25 HOH HOH . 
K 6 HOH A 81 681 77 HOH HOH . 
K 6 HOH A 82 682 29 HOH HOH . 
K 6 HOH A 83 683 55 HOH HOH . 
K 6 HOH A 84 684 117 HOH HOH . 
K 6 HOH A 85 685 12 HOH HOH . 
K 6 HOH A 86 686 87 HOH HOH . 
K 6 HOH A 87 687 70 HOH HOH . 
K 6 HOH A 88 688 73 HOH HOH . 
K 6 HOH A 89 689 8 HOH HOH . 
K 6 HOH A 90 690 9 HOH HOH . 
K 6 HOH A 91 691 102 HOH HOH . 
K 6 HOH A 92 692 119 HOH HOH . 
K 6 HOH A 93 693 14 HOH HOH . 
K 6 HOH A 94 694 97 HOH HOH . 
K 6 HOH A 95 695 40 HOH HOH . 
K 6 HOH A 96 696 107 HOH HOH . 
K 6 HOH A 97 697 136 HOH HOH . 
K 6 HOH A 98 698 99 HOH HOH . 
K 6 HOH A 99 699 92 HOH HOH . 
K 6 HOH A 100 700 41 HOH HOH . 
K 6 HOH A 101 701 65 HOH HOH . 
K 6 HOH A 102 702 91 HOH HOH . 
K 6 HOH A 103 703 58 HOH HOH . 
K 6 HOH A 104 704 146 HOH HOH . 
K 6 HOH A 105 705 90 HOH HOH . 
K 6 HOH A 106 706 106 HOH HOH . 
K 6 HOH A 107 707 94 HOH HOH . 
K 6 HOH A 108 708 34 HOH HOH . 
K 6 HOH A 109 709 127 HOH HOH . 
K 6 HOH A 110 710 126 HOH HOH . 
K 6 HOH A 111 711 83 HOH HOH . 
K 6 HOH A 112 712 123 HOH HOH . 
K 6 HOH A 113 713 88 HOH HOH . 
K 6 HOH A 114 714 78 HOH HOH . 
K 6 HOH A 115 715 66 HOH HOH . 
K 6 HOH A 116 716 100 HOH HOH . 
K 6 HOH A 117 717 115 HOH HOH . 
K 6 HOH A 118 718 110 HOH HOH . 
K 6 HOH A 119 719 142 HOH HOH . 
K 6 HOH A 120 720 113 HOH HOH . 
K 6 HOH A 121 721 51 HOH HOH . 
K 6 HOH A 122 722 114 HOH HOH . 
K 6 HOH A 123 723 57 HOH HOH . 
K 6 HOH A 124 724 74 HOH HOH . 
K 6 HOH A 125 725 124 HOH HOH . 
K 6 HOH A 126 726 71 HOH HOH . 
K 6 HOH A 127 727 43 HOH HOH . 
K 6 HOH A 128 728 59 HOH HOH . 
K 6 HOH A 129 729 144 HOH HOH . 
K 6 HOH A 130 730 54 HOH HOH . 
K 6 HOH A 131 731 132 HOH HOH . 
K 6 HOH A 132 732 75 HOH HOH . 
K 6 HOH A 133 733 139 HOH HOH . 
K 6 HOH A 134 734 103 HOH HOH . 
K 6 HOH A 135 735 141 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 . . . C 3 -4.295 21.239 -2.551 1 85.17 ? C1 NAG 502 A 1 
HETATM 2 C C2 NAG . . . C 3 -5.354 21.153 -3.69 1 78.55 ? C2 NAG 502 A 1 
HETATM 3 C C3 NAG . . . C 3 -6.751 20.966 -3.103 1 70.43 ? C3 NAG 502 A 1 
HETATM 4 C C4 NAG . . . C 3 -6.779 19.713 -2.245 1 91.72 ? C4 NAG 502 A 1 
HETATM 5 C C5 NAG . . . C 3 -5.786 19.886 -1.095 1 99.5 ? C5 NAG 502 A 1 
HETATM 6 C C6 NAG . . . C 3 -5.711 18.677 -0.189 1 91.95 ? C6 NAG 502 A 1 
HETATM 7 C C7 NAG . . . C 3 -4.267 22.903 -5.106 1 90.59 ? C7 NAG 502 A 1 
HETATM 8 C C8 NAG . . . C 3 -4.547 24.014 -6.079 1 84.94 ? C8 NAG 502 A 1 
HETATM 9 N N2 NAG . . . C 3 -5.347 22.287 -4.608 1 81.22 ? N2 NAG 502 A 1 
HETATM 10 O O3 NAG . . . C 3 -7.698 20.853 -4.158 1 62.34 ? O3 NAG 502 A 1 
HETATM 11 O O4 NAG . . . C 3 -8.103 19.444 -1.788 1 68.04 ? O4 NAG 502 A 1 
HETATM 12 O O5 NAG . . . C 3 -4.462 20.094 -1.623 1 89.9 ? O5 NAG 502 A 1 
HETATM 13 O O6 NAG . . . C 3 -5.733 19.06 1.18 1 85.5 ? O6 NAG 502 A 1 
HETATM 14 O O7 NAG . . . C 3 -3.121 22.6 -4.774 1 103.19 ? O7 NAG 502 A 1 
#
_model_server_stats.io_time_ms              21 
_model_server_stats.parse_time_ms           24 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           275 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           14 
#