data_6X4G # _model_server_result.job_id GTeflie6yVHSIchEBE-yHg _model_server_result.datetime_utc '2024-11-05 00:21:52' _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 6x4g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":201}' # _entry.id 6X4G # _exptl.entry_id 6X4G _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 6 _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 6X4G _cell.length_a 104.015 _cell.length_b 104.015 _cell.length_c 123.108 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6X4G _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall 'P 4abw 2nw' _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 ? 5 F N N ? 5 H N N ? 5 I N N ? 5 J N N ? 5 K N N ? 5 L N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 4 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 4 5 3 MAN BMA C1 O1 . O6 HO6 . 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 4 n D NAG 1 B 1 NAG A 202 NAG 4 n D NAG 2 B 2 NAG A 203 NAG 4 n D BMA 3 B 3 BMA A 204 BMA 4 n D MAN 4 B 4 MAN A 205 MAN 4 n D MAN 5 B 5 MAN A 206 MAN 4 n E NAG 1 D 1 NAG C 301 NAG 4 n E NAG 2 D 2 NAG C 302 NAG 4 n E BMA 3 D 3 BMA C 303 BMA 4 n E MAN 4 D 4 MAN C 304 MAN 4 n E MAN 5 D 5 MAN C 305 MAN # 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 24 A CYS 42 1_555 A SG CYS 91 A CYS 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? disulf ? disulf2 A SG CYS 45 A CYS 63 1_555 A SG CYS 65 A CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf3 B SG CYS 21 C CYS 37 1_555 B SG CYS 97 C CYS 113 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf4 B SG CYS 142 C CYS 158 1_555 B SG CYS 199 C CYS 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf5 C SG CYS 24 N CYS 23 1_555 C SG CYS 85 N CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf6 C SG CYS 37 N CYS 36 1_555 C SG CYS 96 N CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf7 C SG CYS 100 N CYS 99 1_555 C SG CYS 110 N CYS 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A ND2 ASN 71 A ASN 89 1_555 F C1 NAG . A NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale2 A ND2 ASN 92 A ASN 110 1_555 D C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.419 ? covale ? covale3 B ND2 ASN 54 C ASN 70 1_555 I C1 NAG . C NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale4 B ND2 ASN 86 C ASN 102 1_555 K C1 NAG . C NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale5 B ND2 ASN 121 C ASN 137 1_555 L C1 NAG . C NAG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale6 B ND2 ASN 157 C ASN 173 1_555 E C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale7 B ND2 ASN 170 C ASN 186 1_555 H C1 NAG . C NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale8 B ND2 ASN 209 C ASN 225 1_555 J C1 NAG . C NAG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale9 D O4 NAG . B NAG 1 1_555 D C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale10 D O4 NAG . B NAG 2 1_555 D C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale11 D O3 BMA . B BMA 3 1_555 D C1 MAN . B MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale12 D O6 BMA . B BMA 3 1_555 D C1 MAN . B MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? covale ? covale13 E O4 NAG . D NAG 1 1_555 E C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale14 E O4 NAG . D NAG 2 1_555 E C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale15 E O3 BMA . D BMA 3 1_555 E C1 MAN . D MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale16 E O6 BMA . D BMA 3 1_555 E C1 MAN . D MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? # _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 296 n n C1 O1 NAG sing 297 n n C1 O5 NAG sing 298 n n C1 H1 NAG sing 299 n n C2 C3 NAG sing 300 n n C2 N2 NAG sing 301 n n C2 H2 NAG sing 302 n n C3 C4 NAG sing 303 n n C3 O3 NAG sing 304 n n C3 H3 NAG sing 305 n n C4 C5 NAG sing 306 n n C4 O4 NAG sing 307 n n C4 H4 NAG sing 308 n n C5 C6 NAG sing 309 n n C5 O5 NAG sing 310 n n C5 H5 NAG sing 311 n n C6 O6 NAG sing 312 n n C6 H61 NAG sing 313 n n C6 H62 NAG sing 314 n n C7 C8 NAG sing 315 n n C7 N2 NAG sing 316 n n C7 O7 NAG doub 317 n n C8 H81 NAG sing 318 n n C8 H82 NAG sing 319 n n C8 H83 NAG sing 320 n n N2 HN2 NAG sing 321 n n O1 HO1 NAG sing 322 n n O3 HO3 NAG sing 323 n n O4 HO4 NAG sing 324 n n O6 HO6 NAG sing 325 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 6X4G _atom_sites.fract_transf_matrix[1][1] 0.009614 _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] 0.009614 _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] 0.008123 _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 F 5 NAG A 1 201 201 NAG NAG . G 6 GOL A 1 202 207 GOL GOL . H 5 NAG C 1 301 307 NAG NAG . I 5 NAG C 1 302 308 NAG NAG . J 5 NAG C 1 303 309 NAG NAG . K 5 NAG C 1 304 310 NAG NAG . L 5 NAG C 1 305 311 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 . . . F 5 40.299 -45.825 9.036 1 133.29 ? C1 NAG 201 A 1 HETATM 2 C C2 NAG . . . F 5 41.691 -45.46 9.574 1 143.36 ? C2 NAG 201 A 1 HETATM 3 C C3 NAG . . . F 5 41.66 -44.055 10.224 1 144.18 ? C3 NAG 201 A 1 HETATM 4 C C4 NAG . . . F 5 40.939 -43.032 9.347 1 143.82 ? C4 NAG 201 A 1 HETATM 5 C C5 NAG . . . F 5 39.616 -43.58 8.826 1 140.35 ? C5 NAG 201 A 1 HETATM 6 C C6 NAG . . . F 5 38.934 -42.664 7.838 1 135.17 ? C6 NAG 201 A 1 HETATM 7 C C7 NAG . . . F 5 42.957 -47.488 10.267 1 133.62 ? C7 NAG 201 A 1 HETATM 8 C C8 NAG . . . F 5 43.49 -47.565 8.867 1 131.25 ? C8 NAG 201 A 1 HETATM 9 N N2 NAG . . . F 5 42.132 -46.464 10.538 1 142.14 ? N2 NAG 201 A 1 HETATM 10 O O3 NAG . . . F 5 42.982 -43.58 10.461 1 141.89 ? O3 NAG 201 A 1 HETATM 11 O O4 NAG . . . F 5 40.677 -41.85 10.099 1 144.64 ? O4 NAG 201 A 1 HETATM 12 O O5 NAG . . . F 5 39.851 -44.818 8.146 1 131.36 ? O5 NAG 201 A 1 HETATM 13 O O6 NAG . . . F 5 37.585 -43.064 7.641 1 130.23 ? O6 NAG 201 A 1 HETATM 14 O O7 NAG . . . F 5 43.267 -48.312 11.126 1 129.57 ? O7 NAG 201 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #