data_3BIV # _model_server_result.job_id H_RLRagWemUYzv2VteWC4g _model_server_result.datetime_utc '2024-10-19 09:18:17' _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 3biv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1}' # _entry.id 3BIV # _exptl.entry_id 3BIV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _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 100.9 _cell.angle_gamma 90 _cell.entry_id 3BIV _cell.length_a 70.7 _cell.length_b 71.5 _cell.length_c 72.8 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3BIV _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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 _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 4 _struct_asym.id D _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 4 L CYS 1 1_555 B SG CYS 119 H CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? disulf ? disulf2 B SG CYS 28 H CYS 42 1_555 B SG CYS 44 H CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf3 B SG CYS 173 H CYS 168 1_555 B SG CYS 187 H CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? disulf ? disulf4 B SG CYS 201 H CYS 191 1_555 B SG CYS 231 H CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? covale ? covale1 D C1 NAG . H NAG 1 1_555 B ND2 ASN 53 H ASN 60 1_555 ? ? ? G ? ? ? ? ? ? ? ? 1.781 ? covale ? covale2 C C GLU 10 I GLU 62 1_555 C N TYS 11 I TYS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale3 C C TYS 11 I TYS 63 1_555 C N LEU 12 I LEU 64 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? # _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 298 n n C1 O1 NAG sing 299 n n C1 O5 NAG sing 300 n n C1 H1 NAG sing 301 n n C2 C3 NAG sing 302 n n C2 N2 NAG sing 303 n n C2 H2 NAG sing 304 n n C3 C4 NAG sing 305 n n C3 O3 NAG sing 306 n n C3 H3 NAG sing 307 n n C4 C5 NAG sing 308 n n C4 O4 NAG sing 309 n n C4 H4 NAG sing 310 n n C5 C6 NAG sing 311 n n C5 O5 NAG sing 312 n n C5 H5 NAG sing 313 n n C6 O6 NAG sing 314 n n C6 H61 NAG sing 315 n n C6 H62 NAG sing 316 n n C7 C8 NAG sing 317 n n C7 N2 NAG sing 318 n n C7 O7 NAG doub 319 n n C8 H81 NAG sing 320 n n C8 H82 NAG sing 321 n n C8 H83 NAG sing 322 n n N2 HN2 NAG sing 323 n n O1 HO1 NAG sing 324 n n O3 HO3 NAG sing 325 n n O4 HO4 NAG sing 326 n n O6 HO6 NAG sing 327 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 3BIV _atom_sites.fract_transf_matrix[1][1] 0.014144 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002724 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013986 _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] 0.013989 _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 D 4 NAG H 1 1 1 NAG NAG . E 5 11U H 1 999 999 11U 11U . F 6 HOH L 1 1004 1004 HOH HOH . F 6 HOH L 2 1007 1007 HOH HOH . F 6 HOH L 3 1023 1023 HOH HOH . F 6 HOH L 4 1029 1029 HOH HOH . F 6 HOH L 5 1031 1031 HOH HOH . F 6 HOH L 6 1033 1033 HOH HOH . F 6 HOH L 7 1034 1034 HOH HOH . F 6 HOH L 8 1042 1042 HOH HOH . F 6 HOH L 9 1048 1048 HOH HOH . F 6 HOH L 10 1049 1049 HOH HOH . F 6 HOH L 11 1060 1060 HOH HOH . F 6 HOH L 12 1068 1068 HOH HOH . F 6 HOH L 13 1070 1070 HOH HOH . F 6 HOH L 14 1076 1076 HOH HOH . F 6 HOH L 15 1083 1083 HOH HOH . F 6 HOH L 16 1088 1088 HOH HOH . F 6 HOH L 17 1089 1089 HOH HOH . F 6 HOH L 18 1104 1104 HOH HOH . F 6 HOH L 19 1127 1127 HOH HOH . F 6 HOH L 20 1129 1129 HOH HOH . F 6 HOH L 21 1135 1135 HOH HOH . F 6 HOH L 22 1140 1140 HOH HOH . G 6 HOH H 1 1001 1001 HOH HOH . G 6 HOH H 2 1002 1002 HOH HOH . G 6 HOH H 3 1003 1003 HOH HOH . G 6 HOH H 4 1005 1005 HOH HOH . G 6 HOH H 5 1006 1006 HOH HOH . G 6 HOH H 6 1008 1008 HOH HOH . G 6 HOH H 7 1009 1009 HOH HOH . G 6 HOH H 8 1010 1010 HOH HOH . G 6 HOH H 9 1011 1011 HOH HOH . G 6 HOH H 10 1012 1012 HOH HOH . G 6 HOH H 11 1013 1013 HOH HOH . G 6 HOH H 12 1014 1014 HOH HOH . G 6 HOH H 13 1015 1015 HOH HOH . G 6 HOH H 14 1016 1016 HOH HOH . G 6 HOH H 15 1017 1017 HOH HOH . G 6 HOH H 16 1018 1018 HOH HOH . G 6 HOH H 17 1019 1019 HOH HOH . G 6 HOH H 18 1020 1020 HOH HOH . G 6 HOH H 19 1021 1021 HOH HOH . G 6 HOH H 20 1022 1022 HOH HOH . G 6 HOH H 21 1024 1024 HOH HOH . G 6 HOH H 22 1025 1025 HOH HOH . G 6 HOH H 23 1026 1026 HOH HOH . G 6 HOH H 24 1027 1027 HOH HOH . G 6 HOH H 25 1028 1028 HOH HOH . G 6 HOH H 26 1030 1030 HOH HOH . G 6 HOH H 27 1032 1032 HOH HOH . G 6 HOH H 28 1035 1035 HOH HOH . G 6 HOH H 29 1036 1036 HOH HOH . G 6 HOH H 30 1037 1037 HOH HOH . G 6 HOH H 31 1038 1038 HOH HOH . G 6 HOH H 32 1039 1039 HOH HOH . G 6 HOH H 33 1041 1041 HOH HOH . G 6 HOH H 34 1043 1043 HOH HOH . G 6 HOH H 35 1044 1044 HOH HOH . G 6 HOH H 36 1045 1045 HOH HOH . G 6 HOH H 37 1046 1046 HOH HOH . G 6 HOH H 38 1047 1047 HOH HOH . G 6 HOH H 39 1050 1050 HOH HOH . G 6 HOH H 40 1051 1051 HOH HOH . G 6 HOH H 41 1052 1052 HOH HOH . G 6 HOH H 42 1053 1053 HOH HOH . G 6 HOH H 43 1054 1054 HOH HOH . G 6 HOH H 44 1055 1055 HOH HOH . G 6 HOH H 45 1056 1056 HOH HOH . G 6 HOH H 46 1057 1057 HOH HOH . G 6 HOH H 47 1058 1058 HOH HOH . G 6 HOH H 48 1059 1059 HOH HOH . G 6 HOH H 49 1061 1061 HOH HOH . G 6 HOH H 50 1062 1062 HOH HOH . G 6 HOH H 51 1063 1063 HOH HOH . G 6 HOH H 52 1064 1064 HOH HOH . G 6 HOH H 53 1065 1065 HOH HOH . G 6 HOH H 54 1066 1066 HOH HOH . G 6 HOH H 55 1067 1067 HOH HOH . G 6 HOH H 56 1069 1069 HOH HOH . G 6 HOH H 57 1071 1071 HOH HOH . G 6 HOH H 58 1072 1072 HOH HOH . G 6 HOH H 59 1073 1073 HOH HOH . G 6 HOH H 60 1074 1074 HOH HOH . G 6 HOH H 61 1075 1075 HOH HOH . G 6 HOH H 62 1077 1077 HOH HOH . G 6 HOH H 63 1078 1078 HOH HOH . G 6 HOH H 64 1079 1079 HOH HOH . G 6 HOH H 65 1080 1080 HOH HOH . G 6 HOH H 66 1081 1081 HOH HOH . G 6 HOH H 67 1082 1082 HOH HOH . G 6 HOH H 68 1084 1084 HOH HOH . G 6 HOH H 69 1085 1085 HOH HOH . G 6 HOH H 70 1086 1086 HOH HOH . G 6 HOH H 71 1087 1087 HOH HOH . G 6 HOH H 72 1090 1090 HOH HOH . G 6 HOH H 73 1091 1091 HOH HOH . G 6 HOH H 74 1092 1092 HOH HOH . G 6 HOH H 75 1093 1093 HOH HOH . G 6 HOH H 76 1094 1094 HOH HOH . G 6 HOH H 77 1095 1095 HOH HOH . G 6 HOH H 78 1096 1096 HOH HOH . G 6 HOH H 79 1097 1097 HOH HOH . G 6 HOH H 80 1098 1098 HOH HOH . G 6 HOH H 81 1099 1099 HOH HOH . G 6 HOH H 82 1100 1100 HOH HOH . G 6 HOH H 83 1101 1101 HOH HOH . G 6 HOH H 84 1102 1102 HOH HOH . G 6 HOH H 85 1103 1103 HOH HOH . G 6 HOH H 86 1105 1105 HOH HOH . G 6 HOH H 87 1107 1107 HOH HOH . G 6 HOH H 88 1108 1108 HOH HOH . G 6 HOH H 89 1109 1109 HOH HOH . G 6 HOH H 90 1110 1110 HOH HOH . G 6 HOH H 91 1111 1111 HOH HOH . G 6 HOH H 92 1112 1112 HOH HOH . G 6 HOH H 93 1113 1113 HOH HOH . G 6 HOH H 94 1114 1114 HOH HOH . G 6 HOH H 95 1115 1115 HOH HOH . G 6 HOH H 96 1116 1116 HOH HOH . G 6 HOH H 97 1117 1117 HOH HOH . G 6 HOH H 98 1118 1118 HOH HOH . G 6 HOH H 99 1119 1119 HOH HOH . G 6 HOH H 100 1120 1120 HOH HOH . G 6 HOH H 101 1121 1121 HOH HOH . G 6 HOH H 102 1122 1122 HOH HOH . G 6 HOH H 103 1123 1123 HOH HOH . G 6 HOH H 104 1124 1124 HOH HOH . G 6 HOH H 105 1125 1125 HOH HOH . G 6 HOH H 106 1126 1126 HOH HOH . G 6 HOH H 107 1128 1128 HOH HOH . G 6 HOH H 108 1130 1130 HOH HOH . G 6 HOH H 109 1131 1131 HOH HOH . G 6 HOH H 110 1132 1132 HOH HOH . G 6 HOH H 111 1133 1133 HOH HOH . G 6 HOH H 112 1134 1134 HOH HOH . G 6 HOH H 113 1136 1136 HOH HOH . G 6 HOH H 114 1137 1137 HOH HOH . G 6 HOH H 115 1138 1138 HOH HOH . G 6 HOH H 116 1139 1139 HOH HOH . G 6 HOH H 117 1141 1141 HOH HOH . G 6 HOH H 118 1142 1142 HOH HOH . G 6 HOH H 119 1143 1143 HOH HOH . G 6 HOH H 120 1145 1145 HOH HOH . G 6 HOH H 121 1146 1146 HOH HOH . H 6 HOH I 1 1040 1040 HOH HOH . H 6 HOH I 2 1106 1106 HOH HOH . H 6 HOH I 3 1144 1144 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 . . . D 4 32.32 -9.023 10.766 1 53.92 ? C1 NAG 1 H 1 HETATM 2 C C2 NAG . . . D 4 33.451 -8.874 11.762 1 58.69 ? C2 NAG 1 H 1 HETATM 3 C C3 NAG . . . D 4 34.252 -7.619 11.439 1 64.96 ? C3 NAG 1 H 1 HETATM 4 C C4 NAG . . . D 4 34.222 -7.377 9.908 1 62.95 ? C4 NAG 1 H 1 HETATM 5 C C5 NAG . . . D 4 32.787 -7.031 9.494 1 55.65 ? C5 NAG 1 H 1 HETATM 6 C C6 NAG . . . D 4 32.47 -7.256 8.042 1 59.41 ? C6 NAG 1 H 1 HETATM 7 C C7 NAG . . . D 4 33.238 -8.086 14.074 1 59.48 ? C7 NAG 1 H 1 HETATM 8 C C8 NAG . . . D 4 33.195 -8.605 15.513 1 30.08 ? C8 NAG 1 H 1 HETATM 9 N N2 NAG . . . D 4 33.07 -9.015 13.134 1 59.68 ? N2 NAG 1 H 1 HETATM 10 O O3 NAG . . . D 4 35.586 -7.769 11.892 1 79.68 ? O3 NAG 1 H 1 HETATM 11 O O4 NAG . . . D 4 35.095 -6.291 9.543 1 76.16 ? O4 NAG 1 H 1 HETATM 12 O O5 NAG . . . D 4 31.849 -7.772 10.281 1 50.07 ? O5 NAG 1 H 1 HETATM 13 O O6 NAG . . . D 4 31.182 -6.758 7.706 1 61.49 ? O6 NAG 1 H 1 HETATM 14 O O7 NAG . . . D 4 32.95 -6.894 13.879 1 65.16 ? O7 NAG 1 H 1 # _model_server_stats.io_time_ms 49 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #