data_3BPL # _model_server_result.job_id ZYx7K7h6TPwIyvwkZCBHBQ _model_server_result.datetime_utc '2024-11-22 07:36:20' _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 3bpl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":941}' # _entry.id 3BPL # _exptl.entry_id 3BPL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 3 _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 3BPL _cell.length_a 52.578 _cell.length_b 86.652 _cell.length_c 175.671 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3BPL _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 6 F N N ? 6 G N N ? 6 H N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 4 oligosaccharide 5 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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 5 3 1 FUC NAG C1 O1 . O6 HO6 . 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 4 n D NAG 1 D 1 NAG S 901 NAG 4 n D NAG 2 D 2 NAG S 902 NAG 5 n E NAG 1 E 1 NAG S 911 NAG 5 n E NAG 2 E 2 NAG S 912 NAG 5 n E FUC 3 E 3 FUC S 913 FUC # 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 3 A CYS 3 1_555 A SG CYS 127 A CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf2 A SG CYS 24 A CYS 24 1_555 A SG CYS 65 A CYS 65 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf3 A SG CYS 46 A CYS 46 1_555 A SG CYS 99 A CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 B SG CYS 12 B CYS 9 1_555 B SG CYS 22 B CYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf5 B SG CYS 32 B CYS 29 1_555 B SG CYS 62 B CYS 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf6 B SG CYS 52 B CYS 49 1_555 B SG CYS 64 B CYS 61 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? disulf ? disulf7 C SG CYS 7 C CYS 40 1_555 C SG CYS 17 C CYS 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf8 C SG CYS 47 C CYS 80 1_555 C SG CYS 60 C CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf9 C SG CYS 127 C CYS 160 1_555 C SG CYS 176 C CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? covale ? covale1 B ND2 ASN 106 B ASN 103 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale2 B ND2 ASN 187 B ASN 184 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale3 C ND2 ASN 16 C ASN 49 1_555 F C1 NAG . C NAG 921 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale4 C ND2 ASN 29 C ASN 62 1_555 G C1 NAG . C NAG 931 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale5 C ND2 ASN 104 C ASN 137 1_555 H C1 NAG . C NAG 941 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? covale ? covale6 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.42 ? covale ? covale7 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.417 ? covale ? covale8 E O6 NAG . E NAG 1 1_555 E C1 FUC . E FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? # _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 260 n n C1 O1 NAG sing 261 n n C1 O5 NAG sing 262 n n C1 H1 NAG sing 263 n n C2 C3 NAG sing 264 n n C2 N2 NAG sing 265 n n C2 H2 NAG sing 266 n n C3 C4 NAG sing 267 n n C3 O3 NAG sing 268 n n C3 H3 NAG sing 269 n n C4 C5 NAG sing 270 n n C4 O4 NAG sing 271 n n C4 H4 NAG sing 272 n n C5 C6 NAG sing 273 n n C5 O5 NAG sing 274 n n C5 H5 NAG sing 275 n n C6 O6 NAG sing 276 n n C6 H61 NAG sing 277 n n C6 H62 NAG sing 278 n n C7 C8 NAG sing 279 n n C7 N2 NAG sing 280 n n C7 O7 NAG doub 281 n n C8 H81 NAG sing 282 n n C8 H82 NAG sing 283 n n C8 H83 NAG sing 284 n n N2 HN2 NAG sing 285 n n O1 HO1 NAG sing 286 n n O3 HO3 NAG sing 287 n n O4 HO4 NAG sing 288 n n O6 HO6 NAG sing 289 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 3BPL _atom_sites.fract_transf_matrix[1][1] 0.019019 _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] 0.01154 _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] 0.005692 _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 F 6 NAG C 1 921 921 NAG NAG . G 6 NAG C 1 931 931 NAG NAG . H 6 NAG C 1 941 941 NAG NAG . I 7 HOH A 1 130 9 HOH HOH . I 7 HOH A 2 131 14 HOH HOH . I 7 HOH A 3 132 16 HOH HOH . I 7 HOH A 4 133 24 HOH HOH . I 7 HOH A 5 134 25 HOH HOH . I 7 HOH A 6 135 40 HOH HOH . I 7 HOH A 7 136 49 HOH HOH . I 7 HOH A 8 137 57 HOH HOH . I 7 HOH A 9 138 58 HOH HOH . I 7 HOH A 10 139 62 HOH HOH . I 7 HOH A 11 140 64 HOH HOH . I 7 HOH A 12 141 66 HOH HOH . I 7 HOH A 13 142 69 HOH HOH . I 7 HOH A 14 143 75 HOH HOH . I 7 HOH A 15 144 93 HOH HOH . I 7 HOH A 16 145 111 HOH HOH . I 7 HOH A 17 146 115 HOH HOH . I 7 HOH A 18 147 116 HOH HOH . I 7 HOH A 19 148 121 HOH HOH . I 7 HOH A 20 149 123 HOH HOH . I 7 HOH A 21 150 127 HOH HOH . I 7 HOH A 22 151 134 HOH HOH . I 7 HOH A 23 152 138 HOH HOH . I 7 HOH A 24 153 142 HOH HOH . I 7 HOH A 25 154 144 HOH HOH . J 7 HOH B 1 914 1 HOH HOH . J 7 HOH B 2 915 2 HOH HOH . J 7 HOH B 3 916 3 HOH HOH . J 7 HOH B 4 917 4 HOH HOH . J 7 HOH B 5 918 5 HOH HOH . J 7 HOH B 6 919 6 HOH HOH . J 7 HOH B 7 920 7 HOH HOH . J 7 HOH B 8 921 8 HOH HOH . J 7 HOH B 9 922 10 HOH HOH . J 7 HOH B 10 923 12 HOH HOH . J 7 HOH B 11 924 17 HOH HOH . J 7 HOH B 12 925 18 HOH HOH . J 7 HOH B 13 926 19 HOH HOH . J 7 HOH B 14 927 20 HOH HOH . J 7 HOH B 15 928 21 HOH HOH . J 7 HOH B 16 929 22 HOH HOH . J 7 HOH B 17 930 23 HOH HOH . J 7 HOH B 18 931 26 HOH HOH . J 7 HOH B 19 932 27 HOH HOH . J 7 HOH B 20 933 28 HOH HOH . J 7 HOH B 21 934 29 HOH HOH . J 7 HOH B 22 935 31 HOH HOH . J 7 HOH B 23 936 32 HOH HOH . J 7 HOH B 24 937 33 HOH HOH . J 7 HOH B 25 938 34 HOH HOH . J 7 HOH B 26 939 35 HOH HOH . J 7 HOH B 27 940 37 HOH HOH . J 7 HOH B 28 941 39 HOH HOH . J 7 HOH B 29 942 41 HOH HOH . J 7 HOH B 30 943 43 HOH HOH . J 7 HOH B 31 944 44 HOH HOH . J 7 HOH B 32 945 45 HOH HOH . J 7 HOH B 33 946 46 HOH HOH . J 7 HOH B 34 947 50 HOH HOH . J 7 HOH B 35 948 52 HOH HOH . J 7 HOH B 36 949 53 HOH HOH . J 7 HOH B 37 950 54 HOH HOH . J 7 HOH B 38 951 55 HOH HOH . J 7 HOH B 39 952 56 HOH HOH . J 7 HOH B 40 953 60 HOH HOH . J 7 HOH B 41 954 61 HOH HOH . J 7 HOH B 42 955 63 HOH HOH . J 7 HOH B 43 956 65 HOH HOH . J 7 HOH B 44 957 67 HOH HOH . J 7 HOH B 45 958 70 HOH HOH . J 7 HOH B 46 959 72 HOH HOH . J 7 HOH B 47 960 73 HOH HOH . J 7 HOH B 48 961 76 HOH HOH . J 7 HOH B 49 962 77 HOH HOH . J 7 HOH B 50 963 78 HOH HOH . J 7 HOH B 51 964 79 HOH HOH . J 7 HOH B 52 965 80 HOH HOH . J 7 HOH B 53 966 81 HOH HOH . J 7 HOH B 54 967 82 HOH HOH . J 7 HOH B 55 968 83 HOH HOH . J 7 HOH B 56 969 84 HOH HOH . J 7 HOH B 57 970 85 HOH HOH . J 7 HOH B 58 971 86 HOH HOH . J 7 HOH B 59 972 87 HOH HOH . J 7 HOH B 60 973 88 HOH HOH . J 7 HOH B 61 974 89 HOH HOH . J 7 HOH B 62 975 90 HOH HOH . J 7 HOH B 63 976 91 HOH HOH . J 7 HOH B 64 977 92 HOH HOH . J 7 HOH B 65 978 95 HOH HOH . J 7 HOH B 66 979 96 HOH HOH . J 7 HOH B 67 980 97 HOH HOH . J 7 HOH B 68 981 98 HOH HOH . J 7 HOH B 69 982 99 HOH HOH . J 7 HOH B 70 983 101 HOH HOH . J 7 HOH B 71 984 102 HOH HOH . J 7 HOH B 72 985 103 HOH HOH . J 7 HOH B 73 986 105 HOH HOH . J 7 HOH B 74 987 112 HOH HOH . J 7 HOH B 75 988 113 HOH HOH . J 7 HOH B 76 989 114 HOH HOH . J 7 HOH B 77 990 118 HOH HOH . J 7 HOH B 78 991 122 HOH HOH . J 7 HOH B 79 992 128 HOH HOH . J 7 HOH B 80 993 129 HOH HOH . J 7 HOH B 81 994 130 HOH HOH . J 7 HOH B 82 995 132 HOH HOH . J 7 HOH B 83 996 133 HOH HOH . J 7 HOH B 84 997 135 HOH HOH . J 7 HOH B 85 998 136 HOH HOH . J 7 HOH B 86 999 137 HOH HOH . J 7 HOH B 87 1000 140 HOH HOH . J 7 HOH B 88 1001 141 HOH HOH . K 7 HOH C 1 942 11 HOH HOH . K 7 HOH C 2 943 13 HOH HOH . K 7 HOH C 3 944 15 HOH HOH . K 7 HOH C 4 945 30 HOH HOH . K 7 HOH C 5 946 36 HOH HOH . K 7 HOH C 6 947 38 HOH HOH . K 7 HOH C 7 948 42 HOH HOH . K 7 HOH C 8 949 48 HOH HOH . K 7 HOH C 9 950 51 HOH HOH . K 7 HOH C 10 951 59 HOH HOH . K 7 HOH C 11 952 68 HOH HOH . K 7 HOH C 12 953 71 HOH HOH . K 7 HOH C 13 954 74 HOH HOH . K 7 HOH C 14 955 94 HOH HOH . K 7 HOH C 15 956 100 HOH HOH . K 7 HOH C 16 957 104 HOH HOH . K 7 HOH C 17 958 117 HOH HOH . K 7 HOH C 18 959 119 HOH HOH . K 7 HOH C 19 960 120 HOH HOH . K 7 HOH C 20 961 124 HOH HOH . K 7 HOH C 21 962 125 HOH HOH . K 7 HOH C 22 963 131 HOH HOH . K 7 HOH C 23 964 139 HOH HOH . K 7 HOH C 24 965 143 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 . . . H 6 20.992 25.949 -26.788 1 76.03 ? C1 NAG 941 C 1 HETATM 2 C C2 NAG . . . H 6 20.717 27.054 -27.834 1 78.68 ? C2 NAG 941 C 1 HETATM 3 C C3 NAG . . . H 6 20.16 26.443 -29.135 1 79.3 ? C3 NAG 941 C 1 HETATM 4 C C4 NAG . . . H 6 21.094 25.331 -29.616 1 79.1 ? C4 NAG 941 C 1 HETATM 5 C C5 NAG . . . H 6 21.218 24.275 -28.515 1 78.73 ? C5 NAG 941 C 1 HETATM 6 C C6 NAG . . . H 6 22.093 23.097 -28.921 1 78.74 ? C6 NAG 941 C 1 HETATM 7 C C7 NAG . . . H 6 19.643 29.24 -27.76 1 80.76 ? C7 NAG 941 C 1 HETATM 8 C C8 NAG . . . H 6 18.324 29.592 -28.431 1 80.58 ? C8 NAG 941 C 1 HETATM 9 N N2 NAG . . . H 6 19.759 28.001 -27.285 1 79.68 ? N2 NAG 941 C 1 HETATM 10 O O3 NAG . . . H 6 20.007 27.424 -30.155 1 80.01 ? O3 NAG 941 C 1 HETATM 11 O O4 NAG . . . H 6 20.582 24.766 -30.81 1 79.55 ? O4 NAG 941 C 1 HETATM 12 O O5 NAG . . . H 6 21.77 24.867 -27.329 1 77.49 ? O5 NAG 941 C 1 HETATM 13 O O6 NAG . . . H 6 21.395 21.881 -28.71 1 77.77 ? O6 NAG 941 C 1 HETATM 14 O O7 NAG . . . H 6 20.55 30.073 -27.669 1 80.68 ? O7 NAG 941 C 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #