data_5L7U
#
_model_server_result.job_id            Twe0f2L68pD6TIGsDZ3OYg 
_model_server_result.datetime_utc      '2024-12-01 02:14:25' 
_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          5l7u 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":601}' 
#
_entry.id    5L7U 
#
_exptl.entry_id    5L7U 
_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-galactopyranose 
_entity.pdbx_number_of_molecules    2 
_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            5L7U 
_cell.length_a            55.345 
_cell.length_b            142.207 
_cell.length_c            145.806 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5L7U 
_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    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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
? 2 C N N 
? 2 D N 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 132 A CYS 117 1_555 A SG CYS 445 A CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? 
disulf ? disulf2 B SG CYS 132 B CYS 117 1_555 B SG CYS 445 B CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? 
#
_chem_comp.formula           'C8 H15 N O6' 
_chem_comp.formula_weight    221.208 
_chem_comp.id                NGA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              2-acetamido-2-deoxy-beta-D-galactopyranose 
_chem_comp.type              'd-saccharide, beta linking' 
_chem_comp.pdbx_synonyms     N-acetyl-beta-D-galactosamine;2-acetamido-2-deoxy-beta-D-galactose;2-acetamido-2-deoxy-D-galactose;2-acetamido-2-deoxy-galactose;N-ACETYL-D-GALACTOSAMINE 
#
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 NGA sing 237 n n 
C1 O1 NGA sing 238 n n 
C1 O5 NGA sing 239 n n 
C1 H1 NGA sing 240 n n 
C2 C3 NGA sing 241 n n 
C2 N2 NGA sing 242 n n 
C2 H2 NGA sing 243 n n 
C3 C4 NGA sing 244 n n 
C3 O3 NGA sing 245 n n 
C3 H3 NGA sing 246 n n 
C4 C5 NGA sing 247 n n 
C4 O4 NGA sing 248 n n 
C4 H4 NGA sing 249 n n 
C5 C6 NGA sing 250 n n 
C5 O5 NGA sing 251 n n 
C5 H5 NGA sing 252 n n 
C6 O6 NGA sing 253 n n 
C6 H61 NGA sing 254 n n 
C6 H62 NGA sing 255 n n 
C7 C8 NGA sing 256 n n 
C7 N2 NGA sing 257 n n 
C7 O7 NGA doub 258 n n 
C8 H81 NGA sing 259 n n 
C8 H82 NGA sing 260 n n 
C8 H83 NGA sing 261 n n 
N2 HN2 NGA sing 262 n n 
O1 HO1 NGA sing 263 n n 
O3 HO3 NGA sing 264 n n 
O4 HO4 NGA sing 265 n n 
O6 HO6 NGA sing 266 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
NGA DGalpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 
NGA N-acetyl-b-D-galactopyranosamine 'COMMON NAME' GMML 1 
NGA b-D-GalpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 
NGA GalNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 
#
_atom_sites.entry_id                     5L7U 
_atom_sites.fract_transf_matrix[1][1]    0.018068 
_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]    0.007032 
_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]    0.006858 
_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 2 NGA A 1 601 2 NGA NGA . 
D 2 NGA B 1 601 1 NGA NGA . 
E 3 CL B 1 602 1 CL CL . 
F 4 HOH A 1 701 57 HOH HOH . 
F 4 HOH A 2 702 69 HOH HOH . 
F 4 HOH A 3 703 58 HOH HOH . 
F 4 HOH A 4 704 145 HOH HOH . 
F 4 HOH A 5 705 56 HOH HOH . 
F 4 HOH A 6 706 52 HOH HOH . 
F 4 HOH A 7 707 141 HOH HOH . 
F 4 HOH A 8 708 142 HOH HOH . 
F 4 HOH A 9 709 148 HOH HOH . 
F 4 HOH A 10 710 97 HOH HOH . 
F 4 HOH A 11 711 111 HOH HOH . 
F 4 HOH A 12 712 95 HOH HOH . 
F 4 HOH A 13 713 11 HOH HOH . 
F 4 HOH A 14 714 34 HOH HOH . 
F 4 HOH A 15 715 112 HOH HOH . 
F 4 HOH A 16 716 19 HOH HOH . 
F 4 HOH A 17 717 143 HOH HOH . 
F 4 HOH A 18 718 139 HOH HOH . 
F 4 HOH A 19 719 2 HOH HOH . 
F 4 HOH A 20 720 173 HOH HOH . 
F 4 HOH A 21 721 26 HOH HOH . 
F 4 HOH A 22 722 118 HOH HOH . 
F 4 HOH A 23 723 24 HOH HOH . 
F 4 HOH A 24 724 88 HOH HOH . 
F 4 HOH A 25 725 140 HOH HOH . 
F 4 HOH A 26 726 63 HOH HOH . 
F 4 HOH A 27 727 170 HOH HOH . 
F 4 HOH A 28 728 16 HOH HOH . 
F 4 HOH A 29 729 154 HOH HOH . 
F 4 HOH A 30 730 85 HOH HOH . 
F 4 HOH A 31 731 172 HOH HOH . 
F 4 HOH A 32 732 4 HOH HOH . 
F 4 HOH A 33 733 76 HOH HOH . 
F 4 HOH A 34 734 86 HOH HOH . 
F 4 HOH A 35 735 3 HOH HOH . 
F 4 HOH A 36 736 27 HOH HOH . 
F 4 HOH A 37 737 94 HOH HOH . 
F 4 HOH A 38 738 144 HOH HOH . 
F 4 HOH A 39 739 65 HOH HOH . 
F 4 HOH A 40 740 98 HOH HOH . 
F 4 HOH A 41 741 59 HOH HOH . 
F 4 HOH A 42 742 115 HOH HOH . 
F 4 HOH A 43 743 82 HOH HOH . 
F 4 HOH A 44 744 1 HOH HOH . 
F 4 HOH A 45 745 46 HOH HOH . 
F 4 HOH A 46 746 175 HOH HOH . 
F 4 HOH A 47 747 106 HOH HOH . 
F 4 HOH A 48 748 42 HOH HOH . 
F 4 HOH A 49 749 47 HOH HOH . 
F 4 HOH A 50 750 105 HOH HOH . 
F 4 HOH A 51 751 25 HOH HOH . 
F 4 HOH A 52 752 14 HOH HOH . 
F 4 HOH A 53 753 39 HOH HOH . 
F 4 HOH A 54 754 169 HOH HOH . 
F 4 HOH A 55 755 156 HOH HOH . 
F 4 HOH A 56 756 55 HOH HOH . 
F 4 HOH A 57 757 68 HOH HOH . 
F 4 HOH A 58 758 21 HOH HOH . 
F 4 HOH A 59 759 67 HOH HOH . 
F 4 HOH A 60 760 78 HOH HOH . 
F 4 HOH A 61 761 159 HOH HOH . 
F 4 HOH A 62 762 164 HOH HOH . 
F 4 HOH A 63 763 185 HOH HOH . 
F 4 HOH A 64 764 89 HOH HOH . 
F 4 HOH A 65 765 90 HOH HOH . 
F 4 HOH A 66 766 100 HOH HOH . 
F 4 HOH A 67 767 121 HOH HOH . 
F 4 HOH A 68 768 122 HOH HOH . 
F 4 HOH A 69 769 38 HOH HOH . 
F 4 HOH A 70 770 103 HOH HOH . 
F 4 HOH A 71 771 15 HOH HOH . 
F 4 HOH A 72 772 60 HOH HOH . 
F 4 HOH A 73 773 12 HOH HOH . 
F 4 HOH A 74 774 23 HOH HOH . 
F 4 HOH A 75 775 113 HOH HOH . 
F 4 HOH A 76 776 158 HOH HOH . 
F 4 HOH A 77 777 155 HOH HOH . 
F 4 HOH A 78 778 180 HOH HOH . 
F 4 HOH A 79 779 22 HOH HOH . 
F 4 HOH A 80 780 72 HOH HOH . 
F 4 HOH A 81 781 174 HOH HOH . 
F 4 HOH A 82 782 49 HOH HOH . 
F 4 HOH A 83 783 119 HOH HOH . 
F 4 HOH A 84 784 150 HOH HOH . 
F 4 HOH A 85 785 64 HOH HOH . 
F 4 HOH A 86 786 157 HOH HOH . 
F 4 HOH A 87 787 30 HOH HOH . 
F 4 HOH A 88 788 120 HOH HOH . 
F 4 HOH A 89 789 107 HOH HOH . 
F 4 HOH A 90 790 54 HOH HOH . 
F 4 HOH A 91 791 138 HOH HOH . 
F 4 HOH A 92 792 53 HOH HOH . 
F 4 HOH A 93 793 92 HOH HOH . 
F 4 HOH A 94 794 109 HOH HOH . 
F 4 HOH A 95 795 110 HOH HOH . 
F 4 HOH A 96 796 177 HOH HOH . 
F 4 HOH A 97 797 153 HOH HOH . 
F 4 HOH A 98 798 137 HOH HOH . 
F 4 HOH A 99 799 161 HOH HOH . 
F 4 HOH A 100 800 131 HOH HOH . 
F 4 HOH A 101 801 166 HOH HOH . 
F 4 HOH A 102 802 43 HOH HOH . 
F 4 HOH A 103 803 184 HOH HOH . 
F 4 HOH A 104 804 160 HOH HOH . 
F 4 HOH A 105 805 117 HOH HOH . 
F 4 HOH A 106 806 75 HOH HOH . 
F 4 HOH A 107 807 152 HOH HOH . 
F 4 HOH A 108 808 165 HOH HOH . 
F 4 HOH A 109 809 5 HOH HOH . 
F 4 HOH A 110 810 66 HOH HOH . 
F 4 HOH A 111 811 126 HOH HOH . 
F 4 HOH A 112 812 73 HOH HOH . 
F 4 HOH A 113 813 116 HOH HOH . 
G 4 HOH B 1 701 17 HOH HOH . 
G 4 HOH B 2 702 99 HOH HOH . 
G 4 HOH B 3 703 44 HOH HOH . 
G 4 HOH B 4 704 168 HOH HOH . 
G 4 HOH B 5 705 129 HOH HOH . 
G 4 HOH B 6 706 37 HOH HOH . 
G 4 HOH B 7 707 28 HOH HOH . 
G 4 HOH B 8 708 51 HOH HOH . 
G 4 HOH B 9 709 62 HOH HOH . 
G 4 HOH B 10 710 29 HOH HOH . 
G 4 HOH B 11 711 128 HOH HOH . 
G 4 HOH B 12 712 132 HOH HOH . 
G 4 HOH B 13 713 108 HOH HOH . 
G 4 HOH B 14 714 80 HOH HOH . 
G 4 HOH B 15 715 87 HOH HOH . 
G 4 HOH B 16 716 48 HOH HOH . 
G 4 HOH B 17 717 134 HOH HOH . 
G 4 HOH B 18 718 96 HOH HOH . 
G 4 HOH B 19 719 101 HOH HOH . 
G 4 HOH B 20 720 79 HOH HOH . 
G 4 HOH B 21 721 91 HOH HOH . 
G 4 HOH B 22 722 74 HOH HOH . 
G 4 HOH B 23 723 179 HOH HOH . 
G 4 HOH B 24 724 61 HOH HOH . 
G 4 HOH B 25 725 135 HOH HOH . 
G 4 HOH B 26 726 133 HOH HOH . 
G 4 HOH B 27 727 178 HOH HOH . 
G 4 HOH B 28 728 77 HOH HOH . 
G 4 HOH B 29 729 71 HOH HOH . 
G 4 HOH B 30 730 167 HOH HOH . 
G 4 HOH B 31 731 40 HOH HOH . 
G 4 HOH B 32 732 127 HOH HOH . 
G 4 HOH B 33 733 104 HOH HOH . 
G 4 HOH B 34 734 70 HOH HOH . 
G 4 HOH B 35 735 136 HOH HOH . 
G 4 HOH B 36 736 83 HOH HOH . 
G 4 HOH B 37 737 13 HOH HOH . 
G 4 HOH B 38 738 146 HOH HOH . 
G 4 HOH B 39 739 123 HOH HOH . 
G 4 HOH B 40 740 147 HOH HOH . 
G 4 HOH B 41 741 130 HOH HOH . 
G 4 HOH B 42 742 84 HOH HOH . 
G 4 HOH B 43 743 124 HOH HOH . 
G 4 HOH B 44 744 182 HOH HOH . 
G 4 HOH B 45 745 102 HOH HOH . 
G 4 HOH B 46 746 6 HOH HOH . 
G 4 HOH B 47 747 93 HOH HOH . 
G 4 HOH B 48 748 183 HOH HOH . 
G 4 HOH B 49 749 171 HOH HOH . 
G 4 HOH B 50 750 163 HOH HOH . 
G 4 HOH B 51 751 20 HOH HOH . 
G 4 HOH B 52 752 181 HOH HOH . 
G 4 HOH B 53 753 186 HOH HOH . 
G 4 HOH B 54 754 50 HOH HOH . 
G 4 HOH B 55 755 9 HOH HOH . 
G 4 HOH B 56 756 41 HOH HOH . 
G 4 HOH B 57 757 81 HOH HOH . 
G 4 HOH B 58 758 36 HOH HOH . 
G 4 HOH B 59 759 149 HOH HOH . 
G 4 HOH B 60 760 125 HOH HOH . 
G 4 HOH B 61 761 45 HOH HOH . 
G 4 HOH B 62 762 176 HOH HOH . 
G 4 HOH B 63 763 151 HOH HOH . 
G 4 HOH B 64 764 162 HOH HOH . 
G 4 HOH B 65 765 187 HOH HOH . 
G 4 HOH B 66 766 35 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 NGA . . . C 2 -27.042 1.424 -7.819 1 73.04 ? C1 NGA 601 A 1 
HETATM 2 C C2 NGA . . . C 2 -26.575 1.233 -6.37 1 69 ? C2 NGA 601 A 1 
HETATM 3 C C3 NGA . . . C 2 -25.051 1.181 -6.224 1 63.93 ? C3 NGA 601 A 1 
HETATM 4 C C4 NGA . . . C 2 -24.385 0.455 -7.386 1 65.48 ? C4 NGA 601 A 1 
HETATM 5 C C5 NGA . . . C 2 -24.876 1.024 -8.7 1 65.18 ? C5 NGA 601 A 1 
HETATM 6 C C6 NGA . . . C 2 -24.088 0.476 -9.881 1 60.28 ? C6 NGA 601 A 1 
HETATM 7 C C7 NGA . . . C 2 -26.878 3.652 -5.691 1 76.77 ? C7 NGA 601 A 1 
HETATM 8 C C8 NGA . . . C 2 -27.476 4.57 -4.662 1 75.89 ? C8 NGA 601 A 1 
HETATM 9 N N2 NGA . . . C 2 -27.096 2.316 -5.522 1 71.52 ? N2 NGA 601 A 1 
HETATM 10 O O1 NGA . . . C 2 -28.367 0.887 -7.876 1 81.28 ? O1 NGA 601 A 1 
HETATM 11 O O3 NGA . . . C 2 -24.701 0.538 -4.996 1 55.5 ? O3 NGA 601 A 1 
HETATM 12 O O4 NGA . . . C 2 -24.68 -0.94 -7.425 1 68.89 ? O4 NGA 601 A 1 
HETATM 13 O O5 NGA . . . C 2 -26.27 0.701 -8.775 1 74.25 ? O5 NGA 601 A 1 
HETATM 14 O O6 NGA . . . C 2 -24.124 1.463 -10.907 1 54.3 ? O6 NGA 601 A 1 
HETATM 15 O O7 NGA . . . C 2 -26.232 4.152 -6.605 1 78.5 ? O7 NGA 601 A 1 
#
_model_server_stats.io_time_ms              132 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           286 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           15 
#