data_3WMQ # _model_server_result.job_id I4XKy8PbjaHsQNVlGznz1g _model_server_result.datetime_utc '2025-02-18 09:05:19' _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 3wmq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1003}' # _entry.id 3WMQ # _exptl.entry_id 3WMQ _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-alpha-D-galactopyranose _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 3WMQ _cell.length_a 154.246 _cell.length_b 154.246 _cell.length_c 154.246 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3WMQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 211 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 1,2,3,4,5,6 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 3 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 4 'crystal symmetry operation' 38_444 -y-1/2,-x-1/2,-z-1/2 0 -1 0 -1 0 0 0 0 -1 -77.123 -77.123 -77.123 5 'crystal symmetry operation' 43_444 -x-1/2,-z-1/2,-y-1/2 -1 0 0 0 0 -1 0 -1 0 -77.123 -77.123 -77.123 6 'crystal symmetry operation' 48_444 -z-1/2,-y-1/2,-x-1/2 0 0 -1 0 -1 0 -1 0 0 -77.123 -77.123 -77.123 # _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 # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 2 n B NAG 1 B 1 NAG A 1001 NAG 2 n B NAG 2 B 2 NAG A 1002 NAG # 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 8 A CYS 8 1_555 A SG CYS 93 A CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf2 A SG CYS 17 A CYS 17 1_555 A SG CYS 22 A CYS 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? covale ? covale1 A ND2 ASN 60 A ASN 60 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale2 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.384 ? metalc ? metalc1 J NA NA . A NA 1010 1_555 K O HOH . A HOH 1148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.071 ? metalc ? metalc2 J NA NA . A NA 1010 1_555 K O HOH . A HOH 1158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.998 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id A2G _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-alpha-D-galactopyranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms N-acetyl-alpha-D-galactosamine;2-acetamido-2-deoxy-alpha-D-galactose;2-acetamido-2-deoxy-D-galactose;2-acetamido-2-deoxy-galactose;N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE # 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 O5 C5 A2G sing 1 n n C1 O5 A2G sing 2 n n C1 C2 A2G sing 3 n n C1 H1 A2G sing 4 n n O1 C1 A2G sing 5 n n O1 HO1 A2G sing 6 n n C2 C3 A2G sing 7 n n C2 H2 A2G sing 8 n n N2 C2 A2G sing 9 n n N2 HN2 A2G sing 10 n n C3 C4 A2G sing 11 n n C3 O3 A2G sing 12 n n C3 H3 A2G sing 13 n n O3 HO3 A2G sing 14 n n C4 O4 A2G sing 15 n n C4 H4 A2G sing 16 n n O4 HO4 A2G sing 17 n n C5 C4 A2G sing 18 n n C5 C6 A2G sing 19 n n C5 H5 A2G sing 20 n n C6 O6 A2G sing 21 n n C6 H61 A2G sing 22 n n C7 N2 A2G sing 23 n n O7 C7 A2G doub 24 n n C8 C7 A2G sing 25 n n C8 H81 A2G sing 26 n n C8 H82 A2G sing 27 n n C8 H83 A2G sing 28 n n C6 H62 A2G sing 29 n n O6 HO6 A2G sing 30 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 A2G DGalpNAca 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 A2G N-acetyl-a-D-galactopyranosamine 'COMMON NAME' GMML 1 A2G a-D-GalpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 A2G GalNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 3WMQ _atom_sites.fract_transf_matrix[1][1] 0.006483 _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] 0.006483 _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] 0.006483 _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 3 A2G A 1 1003 1003 A2G A2G . D 4 MPD A 1 1004 1004 MPD MPD . E 4 MPD A 1 1005 1005 MPD MPD . F 5 CL A 1 1006 1006 CL CL . G 5 CL A 1 1007 1007 CL CL . H 5 CL A 1 1008 1008 CL CL . I 5 CL A 1 1009 1009 CL CL . J 6 NA A 1 1010 1010 NA NA . K 7 HOH A 1 1101 1101 HOH HOH . K 7 HOH A 2 1102 1102 HOH HOH . K 7 HOH A 3 1103 1103 HOH HOH . K 7 HOH A 4 1104 1104 HOH HOH . K 7 HOH A 5 1105 1105 HOH HOH . K 7 HOH A 6 1106 1106 HOH HOH . K 7 HOH A 7 1107 1107 HOH HOH . K 7 HOH A 8 1108 1108 HOH HOH . K 7 HOH A 9 1109 1109 HOH HOH . K 7 HOH A 10 1110 1110 HOH HOH . K 7 HOH A 11 1111 1111 HOH HOH . K 7 HOH A 12 1112 1112 HOH HOH . K 7 HOH A 13 1113 1113 HOH HOH . K 7 HOH A 14 1114 1114 HOH HOH . K 7 HOH A 15 1115 1115 HOH HOH . K 7 HOH A 16 1116 1116 HOH HOH . K 7 HOH A 17 1117 1117 HOH HOH . K 7 HOH A 18 1118 1118 HOH HOH . K 7 HOH A 19 1119 1119 HOH HOH . K 7 HOH A 20 1120 1121 HOH HOH . K 7 HOH A 21 1121 1122 HOH HOH . K 7 HOH A 22 1122 1123 HOH HOH . K 7 HOH A 23 1123 1124 HOH HOH . K 7 HOH A 24 1124 1125 HOH HOH . K 7 HOH A 25 1125 1126 HOH HOH . K 7 HOH A 26 1126 1127 HOH HOH . K 7 HOH A 27 1127 1128 HOH HOH . K 7 HOH A 28 1128 1129 HOH HOH . K 7 HOH A 29 1129 1130 HOH HOH . K 7 HOH A 30 1130 1131 HOH HOH . K 7 HOH A 31 1131 1132 HOH HOH . K 7 HOH A 32 1132 1133 HOH HOH . K 7 HOH A 33 1133 1134 HOH HOH . K 7 HOH A 34 1134 1135 HOH HOH . K 7 HOH A 35 1135 1136 HOH HOH . K 7 HOH A 36 1136 1137 HOH HOH . K 7 HOH A 37 1137 1138 HOH HOH . K 7 HOH A 38 1138 1139 HOH HOH . K 7 HOH A 39 1139 1140 HOH HOH . K 7 HOH A 40 1140 1141 HOH HOH . K 7 HOH A 41 1141 1142 HOH HOH . K 7 HOH A 42 1142 1143 HOH HOH . K 7 HOH A 43 1143 1144 HOH HOH . K 7 HOH A 44 1144 1145 HOH HOH . K 7 HOH A 45 1145 1146 HOH HOH . K 7 HOH A 46 1146 1147 HOH HOH . K 7 HOH A 47 1147 1148 HOH HOH . K 7 HOH A 48 1148 1150 HOH HOH . K 7 HOH A 49 1149 1151 HOH HOH . K 7 HOH A 50 1150 1152 HOH HOH . K 7 HOH A 51 1151 1153 HOH HOH . K 7 HOH A 52 1152 1154 HOH HOH . K 7 HOH A 53 1153 1155 HOH HOH . K 7 HOH A 54 1154 1156 HOH HOH . K 7 HOH A 55 1155 1157 HOH HOH . K 7 HOH A 56 1156 1159 HOH HOH . K 7 HOH A 57 1157 1160 HOH HOH . K 7 HOH A 58 1158 1161 HOH HOH . K 7 HOH A 59 1159 1162 HOH HOH . K 7 HOH A 60 1160 1163 HOH HOH . K 7 HOH A 61 1161 1164 HOH HOH . K 7 HOH A 62 1162 1165 HOH HOH . K 7 HOH A 63 1163 1166 HOH HOH . K 7 HOH A 64 1164 1167 HOH HOH . K 7 HOH A 65 1165 1168 HOH HOH . K 7 HOH A 66 1166 1169 HOH HOH . K 7 HOH A 67 1167 1170 HOH HOH . K 7 HOH A 68 1168 1171 HOH HOH . K 7 HOH A 69 1169 1172 HOH HOH . K 7 HOH A 70 1170 1173 HOH HOH . K 7 HOH A 71 1171 1174 HOH HOH . K 7 HOH A 72 1172 1175 HOH HOH . K 7 HOH A 73 1173 1176 HOH HOH . K 7 HOH A 74 1174 1177 HOH HOH . K 7 HOH A 75 1175 1178 HOH HOH . K 7 HOH A 76 1176 1179 HOH HOH . K 7 HOH A 77 1177 1180 HOH HOH . K 7 HOH A 78 1178 1181 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 O O5 A2G . . . C 3 -22.935 -6.927 -6.81 1 9.49 ? O5 A2G 1003 A 1 HETATM 2 C C1 A2G . . . C 3 -23.853 -5.824 -6.678 1 10.41 ? C1 A2G 1003 A 1 HETATM 3 O O1 A2G . . . C 3 -24.193 -5.693 -5.341 1 11.61 ? O1 A2G 1003 A 1 HETATM 4 C C2 A2G . . . C 3 -25.126 -6.055 -7.506 1 9.22 ? C2 A2G 1003 A 1 HETATM 5 N N2 A2G . . . C 3 -26.08 -5.002 -7.204 1 10.14 ? N2 A2G 1003 A 1 HETATM 6 C C3 A2G . . . C 3 -25.746 -7.413 -7.151 1 8.31 ? C3 A2G 1003 A 1 HETATM 7 O O3 A2G . . . C 3 -26.832 -7.687 -8.026 1 10.33 ? O3 A2G 1003 A 1 HETATM 8 C C4 A2G . . . C 3 -24.706 -8.531 -7.264 1 8.6 ? C4 A2G 1003 A 1 HETATM 9 O O4 A2G . . . C 3 -24.298 -8.653 -8.62 1 10.22 ? O4 A2G 1003 A 1 HETATM 10 C C5 A2G . . . C 3 -23.509 -8.185 -6.38 1 10.83 ? C5 A2G 1003 A 1 HETATM 11 C C6 A2G . . . C 3 -22.402 -9.239 -6.39 1 10.06 ? C6 A2G 1003 A 1 HETATM 12 O O6 A2G . . . C 3 -21.666 -9.232 -7.615 1 9.16 ? O6 A2G 1003 A 1 HETATM 13 C C7 A2G . . . C 3 -26.644 -4.285 -8.172 1 10.03 ? C7 A2G 1003 A 1 HETATM 14 O O7 A2G . . . C 3 -26.435 -4.47 -9.369 1 10.49 ? O7 A2G 1003 A 1 HETATM 15 C C8 A2G . . . C 3 -27.593 -3.183 -7.727 1 12.03 ? C8 A2G 1003 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 15 #