data_1JVQ # _model_server_result.job_id tGJVKo9T-bRivdwonsBFew _model_server_result.datetime_utc '2024-10-24 04:20:52' _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 1jvq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":801}' # _entry.id 1JVQ # _exptl.entry_id 1JVQ _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-alpha-D-glucopyranose _entity.pdbx_number_of_molecules 7 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 104.42 _cell.angle_gamma 90 _cell.entry_id 1JVQ _cell.length_a 69.144 _cell.length_b 100.622 _cell.length_c 87.157 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1JVQ _symmetry.cell_setting monoclinic _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 PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,L,M,N,O _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 ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N ? 4 K N N ? 4 M 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 8 L CYS 8 1_555 A SG CYS 128 L CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 21 L CYS 21 1_555 A SG CYS 95 L CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf3 A SG CYS 247 L CYS 247 1_555 A SG CYS 430 L CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 B SG CYS 8 I CYS 8 1_555 B SG CYS 128 I CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf5 B SG CYS 21 I CYS 21 1_555 B SG CYS 95 I CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 B SG CYS 247 I CYS 247 1_555 B SG CYS 430 I CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 C C ACE 1 C ACE 1 1_555 C N SER 2 C SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale2 D C PHE 4 D PHE 12 1_555 D N NH2 5 D NH2 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.244 ? # _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 273 n n C1 O5 NDG sing 274 n n C1 O1 NDG sing 275 n n C1 H1 NDG sing 276 n n C2 C3 NDG sing 277 n n C2 N2 NDG sing 278 n n C2 H2 NDG sing 279 n n C3 C4 NDG sing 280 n n C3 O3 NDG sing 281 n n C3 H3 NDG sing 282 n n C4 C5 NDG sing 283 n n C4 O4 NDG sing 284 n n C4 H4 NDG sing 285 n n C5 C6 NDG sing 286 n n C5 O5 NDG sing 287 n n C5 H5 NDG sing 288 n n C6 O6 NDG sing 289 n n C6 H61 NDG sing 290 n n C6 H62 NDG sing 291 n n C7 C8 NDG sing 292 n n C7 O7 NDG doub 293 n n C7 N2 NDG sing 294 n n C8 H81 NDG sing 295 n n C8 H82 NDG sing 296 n n C8 H83 NDG sing 297 n n O3 HO3 NDG sing 298 n n O4 HO4 NDG sing 299 n n O6 HO6 NDG sing 300 n n N2 HN2 NDG sing 301 n n O1 HO1 NDG sing 302 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 1JVQ _atom_sites.fract_transf_matrix[1][1] 0.014463 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003719 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009938 _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] 0.011847 _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 4 NDG L 1 801 801 NDG NAG . F 4 NDG L 1 841 841 NDG NAG . G 4 NDG L 1 842 842 NDG NAG . H 4 NDG L 1 861 861 NDG NAG . I 4 NDG I 1 801 801 NDG NAG . J 5 NAG I 1 841 841 NAG NAG . K 4 NDG I 1 842 842 NDG NAG . L 5 NAG I 1 861 861 NAG NAG . M 4 NDG I 1 862 862 NDG NAG . N 6 HOH L 1 862 2 HOH HOH . N 6 HOH L 2 863 4 HOH HOH . N 6 HOH L 3 864 8 HOH HOH . N 6 HOH L 4 865 15 HOH HOH . N 6 HOH L 5 866 17 HOH HOH . N 6 HOH L 6 867 21 HOH HOH . N 6 HOH L 7 868 22 HOH HOH . N 6 HOH L 8 869 31 HOH HOH . N 6 HOH L 9 870 32 HOH HOH . N 6 HOH L 10 871 36 HOH HOH . N 6 HOH L 11 872 37 HOH HOH . N 6 HOH L 12 873 41 HOH HOH . N 6 HOH L 13 874 42 HOH HOH . N 6 HOH L 14 875 45 HOH HOH . O 6 HOH I 1 863 1 HOH HOH . O 6 HOH I 2 864 3 HOH HOH . O 6 HOH I 3 865 5 HOH HOH . O 6 HOH I 4 866 6 HOH HOH . O 6 HOH I 5 867 7 HOH HOH . O 6 HOH I 6 868 9 HOH HOH . O 6 HOH I 7 869 10 HOH HOH . O 6 HOH I 8 870 11 HOH HOH . O 6 HOH I 9 871 12 HOH HOH . O 6 HOH I 10 872 13 HOH HOH . O 6 HOH I 11 873 14 HOH HOH . O 6 HOH I 12 874 16 HOH HOH . O 6 HOH I 13 875 18 HOH HOH . O 6 HOH I 14 876 19 HOH HOH . O 6 HOH I 15 877 20 HOH HOH . O 6 HOH I 16 878 23 HOH HOH . O 6 HOH I 17 879 25 HOH HOH . O 6 HOH I 18 880 26 HOH HOH . O 6 HOH I 19 881 27 HOH HOH . O 6 HOH I 20 882 29 HOH HOH . O 6 HOH I 21 883 30 HOH HOH . O 6 HOH I 22 884 33 HOH HOH . O 6 HOH I 23 885 34 HOH HOH . O 6 HOH I 24 886 35 HOH HOH . O 6 HOH I 25 887 39 HOH HOH . O 6 HOH I 26 888 40 HOH HOH . O 6 HOH I 27 889 43 HOH HOH . O 6 HOH I 28 890 44 HOH HOH . O 6 HOH I 29 891 46 HOH HOH . O 6 HOH I 30 892 47 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 4 61.811 4.15 15.665 1 109.84 ? C1 NDG 801 I 1 HETATM 2 C C2 NDG . . . I 4 62.891 5.254 15.855 1 114.06 ? C2 NDG 801 I 1 HETATM 3 C C3 NDG . . . I 4 63.014 6.27 14.686 1 120.48 ? C3 NDG 801 I 1 HETATM 4 C C4 NDG . . . I 4 62.814 5.6 13.34 1 124.6 ? C4 NDG 801 I 1 HETATM 5 C C5 NDG . . . I 4 61.484 4.887 13.394 1 120.06 ? C5 NDG 801 I 1 HETATM 6 C C6 NDG . . . I 4 61.036 4.349 12.051 1 119.81 ? C6 NDG 801 I 1 HETATM 7 C C7 NDG . . . I 4 61.474 6.617 17.297 1 115.93 ? C7 NDG 801 I 1 HETATM 8 C C8 NDG . . . I 4 60.512 6.021 18.319 1 114.71 ? C8 NDG 801 I 1 HETATM 9 O O5 NDG . . . I 4 61.605 3.77 14.292 1 114.07 ? O5 NDG 801 I 1 HETATM 10 O O3 NDG . . . I 4 64.297 6.884 14.707 1 119.83 ? O3 NDG 801 I 1 HETATM 11 O O4 NDG . . . I 4 62.822 6.569 12.305 1 131.27 ? O4 NDG 801 I 1 HETATM 12 O O6 NDG . . . I 4 60.502 5.377 11.234 1 118.4 ? O6 NDG 801 I 1 HETATM 13 O O7 NDG . . . I 4 61.162 7.653 16.702 1 116.79 ? O7 NDG 801 I 1 HETATM 14 N N2 NDG . . . I 4 62.634 5.982 17.092 1 113.34 ? N2 NDG 801 I 1 HETATM 15 O O1 NDG . . . I 4 60.599 4.522 16.217 1 61.17 ? O1 NDG 801 I 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 15 #