data_4K24 # _model_server_result.job_id mm8frb-CVuOTF2q38Qw6WA _model_server_result.datetime_utc '2024-11-16 19:24:50' _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 4k24 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":304}' # _entry.id 4K24 # _exptl.entry_id 4K24 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 8 _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 90 _cell.angle_gamma 120 _cell.entry_id 4K24 _cell.length_a 164.659 _cell.length_b 164.659 _cell.length_c 391.582 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4K24 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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 _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 8 _struct_asym.id I _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 6 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 6 _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 6 n F NAG 1 C 1 NAG Y 301 NAG 6 n F NAG 2 C 2 NAG Y 302 NAG 6 n G NAG 1 D 1 NAG Y 305 NAG 6 n G NAG 2 D 2 NAG Y 306 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 13 A CYS 11 1_555 A SG CYS 21 A CYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf2 A SG CYS 15 A CYS 13 1_555 A SG CYS 33 A CYS 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 35 A CYS 33 1_555 A SG CYS 44 A CYS 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 A SG CYS 52 A CYS 50 1_555 A SG CYS 133 A CYS 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf5 A SG CYS 73 A CYS 71 1_555 A SG CYS 115 A CYS 113 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf6 A SG CYS 104 A CYS 102 1_555 A SG CYS 128 A CYS 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf7 B SG CYS 4 B CYS 5 1_555 B SG CYS 20 B CYS 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf8 B SG CYS 8 B CYS 9 1_555 B SG CYS 38 B CYS 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf9 B SG CYS 18 B CYS 19 1_555 B SG CYS 31 B CYS 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf10 B SG CYS 24 B CYS 25 1_555 B SG CYS 30 B CYS 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? disulf ? disulf11 C SG CYS 22 H CYS 22 1_555 C SG CYS 96 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf12 C SG CYS 146 H CYS 140 1_555 C SG CYS 201 H CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf13 D SG CYS 23 L CYS 23 1_555 D SG CYS 93 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf14 D SG CYS 139 L CYS 134 1_555 D SG CYS 199 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf15 E SG CYS 5 U CYS 3 1_555 E SG CYS 19 U CYS 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf16 E SG CYS 8 U CYS 6 1_555 E SG CYS 14 U CYS 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf17 E SG CYS 19 U CYS 17 1_555 E SG CYS 47 U CYS 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf18 E SG CYS 73 U CYS 71 1_555 E SG CYS 78 U CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf19 E SG CYS 97 U CYS 95 1_555 E SG CYS 124 U CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf20 E SG CYS 100 U CYS 98 1_555 E SG CYS 107 U CYS 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf21 E SG CYS 117 U CYS 115 1_555 E SG CYS 149 U CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf22 E SG CYS 155 U CYS 153 1_555 E SG CYS 172 U CYS 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf23 E SG CYS 173 U CYS 171 1_555 E SG CYS 178 U CYS 176 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf24 E SG CYS 196 U CYS 194 1_555 E SG CYS 224 U CYS 222 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf25 E SG CYS 199 U CYS 197 1_555 E SG CYS 207 U CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf26 E SG CYS 217 U CYS 215 1_555 E SG CYS 243 U CYS 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf27 E SG CYS 249 U CYS 247 1_555 E SG CYS 267 U CYS 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf28 E SG CYS 268 U CYS 266 1_555 E SG CYS 273 U CYS 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 E ND2 ASN 174 U ASN 172 1_555 I C1 NAG . U NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.356 ? covale ? covale2 E ND2 ASN 202 U ASN 200 1_555 G C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.519 ? covale ? covale3 F O4 NAG . C NAG 1 1_555 F C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.283 ? covale ? covale4 G O4 NAG . D NAG 1 1_555 G C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.53 ? # _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 259 n n C1 O1 NAG sing 260 n n C1 O5 NAG sing 261 n n C1 H1 NAG sing 262 n n C2 C3 NAG sing 263 n n C2 N2 NAG sing 264 n n C2 H2 NAG sing 265 n n C3 C4 NAG sing 266 n n C3 O3 NAG sing 267 n n C3 H3 NAG sing 268 n n C4 C5 NAG sing 269 n n C4 O4 NAG sing 270 n n C4 H4 NAG sing 271 n n C5 C6 NAG sing 272 n n C5 O5 NAG sing 273 n n C5 H5 NAG sing 274 n n C6 O6 NAG sing 275 n n C6 H61 NAG sing 276 n n C6 H62 NAG sing 277 n n C7 C8 NAG sing 278 n n C7 N2 NAG sing 279 n n C7 O7 NAG doub 280 n n C8 H81 NAG sing 281 n n C8 H82 NAG sing 282 n n C8 H83 NAG sing 283 n n N2 HN2 NAG sing 284 n n O1 HO1 NAG sing 285 n n O3 HO3 NAG sing 286 n n O4 HO4 NAG sing 287 n n O6 HO6 NAG sing 288 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 4K24 _atom_sites.fract_transf_matrix[1][1] 0.006073 _atom_sites.fract_transf_matrix[1][2] 0.003506 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007013 _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] 0.002554 _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 H 7 MAN U 1 303 303 MAN MAN . I 8 NAG U 1 304 304 NAG NAG . # 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 . . . I 8 -11.679 31.371 74.401 1 492.47 ? C1 NAG 304 U 1 HETATM 2 C C2 NAG . . . I 8 -11.411 32.806 73.968 1 494.14 ? C2 NAG 304 U 1 HETATM 3 C C3 NAG . . . I 8 -12.551 33.728 74.393 1 496.17 ? C3 NAG 304 U 1 HETATM 4 C C4 NAG . . . I 8 -13.95 33.083 74.355 1 497.07 ? C4 NAG 304 U 1 HETATM 5 C C5 NAG . . . I 8 -13.994 31.563 74.554 1 495.26 ? C5 NAG 304 U 1 HETATM 6 C C6 NAG . . . I 8 -15.308 30.935 74.081 1 496.56 ? C6 NAG 304 U 1 HETATM 7 C C7 NAG . . . I 8 -9.161 33.736 73.844 1 493.21 ? C7 NAG 304 U 1 HETATM 8 C C8 NAG . . . I 8 -8.46 34.94 74.38 1 493.67 ? C8 NAG 304 U 1 HETATM 9 N N2 NAG . . . I 8 -10.17 33.263 74.573 1 492.94 ? N2 NAG 304 U 1 HETATM 10 O O3 NAG . . . I 8 -12.551 34.859 73.547 1 498.36 ? O3 NAG 304 U 1 HETATM 11 O O4 NAG . . . I 8 -14.723 33.687 75.367 1 498.07 ? O4 NAG 304 U 1 HETATM 12 O O5 NAG . . . I 8 -12.921 30.953 73.879 1 493.77 ? O5 NAG 304 U 1 HETATM 13 O O6 NAG . . . I 8 -16.362 31.272 74.951 1 497.86 ? O6 NAG 304 U 1 HETATM 14 O O7 NAG . . . I 8 -8.793 33.239 72.791 1 493.26 ? O7 NAG 304 U 1 # _model_server_stats.io_time_ms 92 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 658 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 14 #