data_3D0G # _model_server_result.job_id vSVFWeG_N_3zca-v-T8g7Q _model_server_result.datetime_utc '2024-11-21 08:40:01' _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 3d0g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":617}' # _entry.id 3D0G # _exptl.entry_id 3D0G _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-glucopyranose _entity.pdbx_number_of_molecules 5 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 96.22 _cell.angle_gamma 90 _cell.entry_id 3D0G _cell.length_a 80.008 _cell.length_b 119.762 _cell.length_c 108.801 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3D0G _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_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,L,M,N,O,P _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 ? 3 E N N ? 3 H N N ? 3 I N N ? 3 J N N ? 3 N 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 115 A CYS 133 1_555 A SG CYS 123 A CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 A SG CYS 326 A CYS 344 1_555 A SG CYS 343 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf3 A SG CYS 512 A CYS 530 1_555 A SG CYS 524 A CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 B SG CYS 115 B CYS 133 1_555 B SG CYS 123 B CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf5 B SG CYS 326 B CYS 344 1_555 B SG CYS 343 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf6 B SG CYS 512 B CYS 530 1_555 B SG CYS 524 B CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf7 C SG CYS 43 E CYS 366 1_555 C SG CYS 96 E CYS 419 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf8 C SG CYS 144 E CYS 467 1_555 C SG CYS 151 E CYS 474 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf9 D SG CYS 43 F CYS 366 1_555 D SG CYS 96 F CYS 419 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf10 D SG CYS 144 F CYS 467 1_555 D SG CYS 151 F CYS 474 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc1 A NE2 HIS 356 A HIS 374 1_555 F ZN ZN . A ZN 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? metalc ? metalc2 A NE2 HIS 360 A HIS 378 1_555 F ZN ZN . A ZN 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? metalc ? metalc3 A OE1 GLU 384 A GLU 402 1_555 F ZN ZN . A ZN 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.96 ? metalc ? metalc4 B NE2 HIS 360 B HIS 378 1_555 K ZN ZN . B ZN 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.249 ? metalc ? metalc5 B OE1 GLU 384 B GLU 402 1_555 K ZN ZN . B ZN 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NDG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-alpha-D-glucopyranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms N-acetyl-alpha-D-glucosamine;2-acetamido-2-deoxy-alpha-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE # 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 NDG sing 267 n n C1 O5 NDG sing 268 n n C1 O1 NDG sing 269 n n C1 H1 NDG sing 270 n n C2 C3 NDG sing 271 n n C2 N2 NDG sing 272 n n C2 H2 NDG sing 273 n n C3 C4 NDG sing 274 n n C3 O3 NDG sing 275 n n C3 H3 NDG sing 276 n n C4 C5 NDG sing 277 n n C4 O4 NDG sing 278 n n C4 H4 NDG sing 279 n n C5 C6 NDG sing 280 n n C5 O5 NDG sing 281 n n C5 H5 NDG sing 282 n n C6 O6 NDG sing 283 n n C6 H61 NDG sing 284 n n C6 H62 NDG sing 285 n n C7 C8 NDG sing 286 n n C7 O7 NDG doub 287 n n C7 N2 NDG sing 288 n n C8 H81 NDG sing 289 n n C8 H82 NDG sing 290 n n C8 H83 NDG sing 291 n n O3 HO3 NDG sing 292 n n O4 HO4 NDG sing 293 n n O6 HO6 NDG sing 294 n n N2 HN2 NDG sing 295 n n O1 HO1 NDG sing 296 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 NDG DGlcpNAca 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NDG N-acetyl-a-D-glucopyranosamine 'COMMON NAME' GMML 1 NDG a-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NDG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 3D0G _atom_sites.fract_transf_matrix[1][1] 0.012499 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001363 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00835 _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] 0.009246 _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 E 3 NDG A 1 616 90 NDG NDG . F 4 ZN A 1 901 901 ZN ZN . G 5 CL A 1 902 902 CL CL . H 3 NDG B 1 616 90 NDG NDG . I 3 NDG B 1 617 322 NDG NDG . J 3 NDG B 1 618 546 NDG NDG . K 4 ZN B 1 901 901 ZN ZN . L 5 CL B 1 902 902 CL CL . M 6 NAG E 1 91 91 NAG NAG . N 3 NDG F 1 91 91 NDG NDG . O 7 HOH B 1 903 2 HOH HOH . O 7 HOH B 2 904 3 HOH HOH . O 7 HOH B 3 905 4 HOH HOH . O 7 HOH B 4 906 5 HOH HOH . O 7 HOH B 5 907 6 HOH HOH . O 7 HOH B 6 908 7 HOH HOH . O 7 HOH B 7 909 8 HOH HOH . O 7 HOH B 8 910 9 HOH HOH . O 7 HOH B 9 911 10 HOH HOH . O 7 HOH B 10 912 13 HOH HOH . O 7 HOH B 11 913 14 HOH HOH . O 7 HOH B 12 914 15 HOH HOH . O 7 HOH B 13 915 16 HOH HOH . O 7 HOH B 14 916 17 HOH HOH . O 7 HOH B 15 917 18 HOH HOH . O 7 HOH B 16 918 19 HOH HOH . O 7 HOH B 17 919 20 HOH HOH . O 7 HOH B 18 920 21 HOH HOH . O 7 HOH B 19 921 22 HOH HOH . O 7 HOH B 20 922 23 HOH HOH . O 7 HOH B 21 923 27 HOH HOH . P 7 HOH F 1 1 1 HOH HOH . P 7 HOH F 2 11 11 HOH HOH . P 7 HOH F 3 12 12 HOH HOH . P 7 HOH F 4 24 24 HOH HOH . P 7 HOH F 5 25 25 HOH HOH . P 7 HOH F 6 26 26 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 NDG . . . I 3 49.517 41.623 66.472 1 88.24 ? C1 NDG 617 B 1 HETATM 2 C C2 NDG . . . I 3 50.955 41.072 66.468 1 87.28 ? C2 NDG 617 B 1 HETATM 3 C C3 NDG . . . I 3 51.655 41.359 67.818 1 88.53 ? C3 NDG 617 B 1 HETATM 4 C C4 NDG . . . I 3 51.44 42.797 68.317 1 89.66 ? C4 NDG 617 B 1 HETATM 5 C C5 NDG . . . I 3 49.946 43.204 68.258 1 90.19 ? C5 NDG 617 B 1 HETATM 6 C C6 NDG . . . I 3 49.666 44.667 68.648 1 90.9 ? C6 NDG 617 B 1 HETATM 7 C C7 NDG . . . I 3 51.683 39.171 64.985 1 82 ? C7 NDG 617 B 1 HETATM 8 C C8 NDG . . . I 3 53.188 39.286 65.003 1 81.67 ? C8 NDG 617 B 1 HETATM 9 O O5 NDG . . . I 3 49.411 42.959 66.958 1 89.41 ? O5 NDG 617 B 1 HETATM 10 O O3 NDG . . . I 3 53.046 41.163 67.714 1 88.78 ? O3 NDG 617 B 1 HETATM 11 O O4 NDG . . . I 3 51.977 42.891 69.627 1 90.16 ? O4 NDG 617 B 1 HETATM 12 O O6 NDG . . . I 3 49.309 45.452 67.52 1 90.99 ? O6 NDG 617 B 1 HETATM 13 O O7 NDG . . . I 3 51.151 38.631 64.012 1 79.72 ? O7 NDG 617 B 1 HETATM 14 N N2 NDG . . . I 3 50.988 39.657 66.041 1 84.13 ? N2 NDG 617 B 1 HETATM 15 O O1 NDG . . . I 3 48.672 40.783 67.224 1 89.22 ? O1 NDG 617 B 1 # _model_server_stats.io_time_ms 49 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 15 #