data_4F7E # _model_server_result.job_id piHAMvWAxTOsD6kfyD-BFw _model_server_result.datetime_utc '2024-11-17 22:03:33' _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 4f7e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":304}' # _entry.id 4F7E # _exptl.entry_id 4F7E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _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 90 _cell.entry_id 4F7E _cell.length_a 55.785 _cell.length_b 74.479 _cell.length_c 122.917 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4F7E _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 5 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _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 3 n C NAG 1 C 1 NAG A 500 NAG 3 n C NAG 2 C 2 NAG A 501 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 206 A CYS 206 1_555 A SG CYS 261 A CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf2 B SG CYS 25 B CYS 25 1_555 B SG CYS 79 B CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? covale ? covale1 A ND2 ASN 20 A ASN 20 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale2 A ND2 ASN 42 A ASN 42 1_555 E C1 NAG . A NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale3 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? # _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 366 n n C1 O1 NAG sing 367 n n C1 O5 NAG sing 368 n n C1 H1 NAG sing 369 n n C2 C3 NAG sing 370 n n C2 N2 NAG sing 371 n n C2 H2 NAG sing 372 n n C3 C4 NAG sing 373 n n C3 O3 NAG sing 374 n n C3 H3 NAG sing 375 n n C4 C5 NAG sing 376 n n C4 O4 NAG sing 377 n n C4 H4 NAG sing 378 n n C5 C6 NAG sing 379 n n C5 O5 NAG sing 380 n n C5 H5 NAG sing 381 n n C6 O6 NAG sing 382 n n C6 H61 NAG sing 383 n n C6 H62 NAG sing 384 n n C7 C8 NAG sing 385 n n C7 N2 NAG sing 386 n n C7 O7 NAG doub 387 n n C8 H81 NAG sing 388 n n C8 H82 NAG sing 389 n n C8 H83 NAG sing 390 n n N2 HN2 NAG sing 391 n n O1 HO1 NAG sing 392 n n O3 HO3 NAG sing 393 n n O4 HO4 NAG sing 394 n n O6 HO6 NAG sing 395 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 4F7E _atom_sites.fract_transf_matrix[1][1] 0.017926 _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] 0.013427 _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] 0.008136 _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 0SH A 1 301 282 0SH AGH . E 5 NAG A 1 304 502 NAG NAG . F 6 SO4 B 1 101 1 SO4 SO4 . G 7 HOH A 1 401 3 HOH HOH . G 7 HOH A 2 402 4 HOH HOH . G 7 HOH A 3 403 5 HOH HOH . G 7 HOH A 4 404 9 HOH HOH . G 7 HOH A 5 405 12 HOH HOH . G 7 HOH A 6 406 13 HOH HOH . G 7 HOH A 7 407 14 HOH HOH . G 7 HOH A 8 408 18 HOH HOH . G 7 HOH A 9 409 23 HOH HOH . G 7 HOH A 10 410 38 HOH HOH . G 7 HOH A 11 411 45 HOH HOH . G 7 HOH A 12 412 66 HOH HOH . G 7 HOH A 13 413 185 HOH HOH . G 7 HOH A 14 414 186 HOH HOH . G 7 HOH A 15 415 189 HOH HOH . G 7 HOH A 16 416 190 HOH HOH . G 7 HOH A 17 417 191 HOH HOH . G 7 HOH A 18 418 192 HOH HOH . G 7 HOH A 19 419 193 HOH HOH . H 7 HOH B 1 201 1 HOH HOH . H 7 HOH B 2 202 8 HOH HOH . H 7 HOH B 3 203 25 HOH HOH . H 7 HOH B 4 204 26 HOH HOH . H 7 HOH B 5 205 55 HOH HOH . H 7 HOH B 6 206 176 HOH HOH . H 7 HOH B 7 207 184 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 . . . E 5 -36.472 0.242 4.403 1 65.43 ? C1 NAG 304 A 1 HETATM 2 C C2 NAG . . . E 5 -37.941 -0.127 4.094 1 68.24 ? C2 NAG 304 A 1 HETATM 3 C C3 NAG . . . E 5 -38.285 -0.321 2.61 1 67.8 ? C3 NAG 304 A 1 HETATM 4 C C4 NAG . . . E 5 -37.568 0.714 1.739 1 71.24 ? C4 NAG 304 A 1 HETATM 5 C C5 NAG . . . E 5 -36.065 0.562 2.035 1 72.71 ? C5 NAG 304 A 1 HETATM 6 C C6 NAG . . . E 5 -35.146 1.318 1.067 1 68.05 ? C6 NAG 304 A 1 HETATM 7 C C7 NAG . . . E 5 -39.044 -1.396 5.864 1 72.64 ? C7 NAG 304 A 1 HETATM 8 C C8 NAG . . . E 5 -39.23 -2.738 6.5 1 72.75 ? C8 NAG 304 A 1 HETATM 9 N N2 NAG . . . E 5 -38.238 -1.354 4.806 1 67.11 ? N2 NAG 304 A 1 HETATM 10 O O3 NAG . . . E 5 -39.684 -0.235 2.451 1 70.19 ? O3 NAG 304 A 1 HETATM 11 O O4 NAG . . . E 5 -37.877 0.567 0.361 1 73.4 ? O4 NAG 304 A 1 HETATM 12 O O5 NAG . . . E 5 -35.828 0.983 3.375 1 68.98 ? O5 NAG 304 A 1 HETATM 13 O O6 NAG . . . E 5 -35.23 2.713 1.284 1 68.37 ? O6 NAG 304 A 1 HETATM 14 O O7 NAG . . . E 5 -39.629 -0.416 6.324 1 75.88 ? O7 NAG 304 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 36 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 260 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #