data_6E3L # _model_server_result.job_id wQqvid4-BgN7OQBiMwCUkQ _model_server_result.datetime_utc '2024-10-28 02:29:59' _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 6e3l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":201}' # _entry.id 6E3L # _exptl.entry_id 6E3L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-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 90 _cell.angle_gamma 90 _cell.entry_id 6E3L _cell.length_a 78.694 _cell.length_b 150.212 _cell.length_c 212.668 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6E3L _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 ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,Q,R,S,T _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 ? 7 N N N ? 7 O N N ? 7 P N N ? 7 Q N N ? 7 R N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 4 oligosaccharide 5 oligosaccharide 6 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 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 5 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 5 ? 6 3 2 BMA NAG C1 O1 . O4 HO4 . sing 6 ? 6 4 3 MAN BMA C1 O1 . O6 HO6 . sing 7 ? 6 5 4 MAN MAN C1 O1 . O6 HO6 . sing 8 ? 6 6 3 MAN BMA C1 O1 . O3 HO3 . 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 G NAG 1 F 1 NAG C 224 NAG 4 n G NAG 2 F 2 NAG C 225 NAG 5 n H NAG 1 G 1 NAG D 222 NAG 5 n H NAG 2 G 2 NAG D 223 NAG 5 n H BMA 3 G 3 BMA D 225 BMA 5 n I NAG 1 H 1 NAG E 241 NAG 5 n I NAG 2 H 2 NAG E 242 NAG 5 n I BMA 3 H 3 BMA E 243 BMA 4 n J NAG 1 J 1 NAG E 246 NAG 4 n J NAG 2 J 2 NAG E 247 NAG 5 n K NAG 1 K 1 NAG I 241 NAG 5 n K NAG 2 K 2 NAG I 242 NAG 5 n K BMA 3 K 3 BMA I 243 BMA 6 n L NAG 1 L 1 NAG I 244 NAG 6 n L NAG 2 L 2 NAG I 246 NAG 6 n L BMA 3 L 3 BMA I 247 BMA 6 n L MAN 4 L 4 MAN I 248 MAN 6 n L MAN 5 L 5 MAN I 252 MAN 6 n L MAN 6 L 6 MAN I 249 MAN 4 n M NAG 1 M 1 NAG I 250 NAG 4 n M NAG 2 M 2 NAG I 251 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 C SG CYS 62 C CYS 60 1_555 C SG CYS 70 C CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 C SG CYS 107 C CYS 105 1_555 C SG CYS 152 C CYS 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 C SG CYS 180 C CYS 178 1_555 C SG CYS 185 C CYS 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 C SG CYS 199 C CYS 197 1_555 C SG CYS 220 C CYS 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 D SG CYS 62 D CYS 60 1_555 D SG CYS 70 D CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf6 D SG CYS 107 D CYS 105 1_555 D SG CYS 152 D CYS 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf7 D SG CYS 180 D CYS 178 1_555 D SG CYS 185 D CYS 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf8 D SG CYS 199 D CYS 197 1_555 D SG CYS 220 D CYS 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf9 E SG CYS 61 E CYS 86 1_555 E SG CYS 69 E CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf10 E SG CYS 149 E CYS 174 1_555 S SG CYS . E CYS 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf11 E SG CYS 184 E CYS 209 1_555 E SG CYS 209 E CYS 234 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf12 F SG CYS 61 I CYS 86 1_555 F SG CYS 69 I CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf13 F SG CYS 149 I CYS 174 1_555 T SG CYS . I CYS 312 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf14 F SG CYS 184 I CYS 209 1_555 F SG CYS 209 I CYS 234 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A ND2 ASN 29 A ASN 25 1_555 N C1 NAG . A NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale2 B ND2 ASN 29 B ASN 25 1_555 O C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 C ND2 ASN 71 C ASN 69 1_555 G C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale4 D ND2 ASN 19 D ASN 17 1_555 P C1 NAG . D NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale5 D ND2 ASN 71 D ASN 69 1_555 H C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale6 E ND2 ASN 31 E ASN 56 1_555 R C1 NAG . E NAG 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.475 ? covale ? covale7 E ND2 ASN 60 E ASN 85 1_555 I C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale8 E ND2 ASN 85 E ASN 110 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale9 E ND2 ASN 112 E ASN 137 1_555 Q C1 NAG . E NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale10 F ND2 ASN 60 I ASN 85 1_555 K C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale11 F ND2 ASN 85 I ASN 110 1_555 M C1 NAG . M NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale12 F ND2 ASN 112 I ASN 137 1_555 L C1 NAG . L NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale13 G O4 NAG . F NAG 1 1_555 G C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale14 H O4 NAG . G NAG 1 1_555 H C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale15 H O4 NAG . G NAG 2 1_555 H C1 BMA . G BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale16 I O4 NAG . H NAG 1 1_555 I C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale17 I O4 NAG . H NAG 2 1_555 I C1 BMA . H BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale18 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale19 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale20 K O4 NAG . K NAG 2 1_555 K C1 BMA . K BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale21 L O4 NAG . L NAG 1 1_555 L C1 NAG . L NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale22 L O4 NAG . L NAG 2 1_555 L C1 BMA . L BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale23 L O6 BMA . L BMA 3 1_555 L C1 MAN . L MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale24 L O3 BMA . L BMA 3 1_555 L C1 MAN . L MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale25 L O6 MAN . L MAN 4 1_555 L C1 MAN . L MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale26 M O4 NAG . M NAG 1 1_555 M C1 NAG . M NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? # _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 283 n n C1 O1 NAG sing 284 n n C1 O5 NAG sing 285 n n C1 H1 NAG sing 286 n n C2 C3 NAG sing 287 n n C2 N2 NAG sing 288 n n C2 H2 NAG sing 289 n n C3 C4 NAG sing 290 n n C3 O3 NAG sing 291 n n C3 H3 NAG sing 292 n n C4 C5 NAG sing 293 n n C4 O4 NAG sing 294 n n C4 H4 NAG sing 295 n n C5 C6 NAG sing 296 n n C5 O5 NAG sing 297 n n C5 H5 NAG sing 298 n n C6 O6 NAG sing 299 n n C6 H61 NAG sing 300 n n C6 H62 NAG sing 301 n n C7 C8 NAG sing 302 n n C7 N2 NAG sing 303 n n C7 O7 NAG doub 304 n n C8 H81 NAG sing 305 n n C8 H82 NAG sing 306 n n C8 H83 NAG sing 307 n n N2 HN2 NAG sing 308 n n O1 HO1 NAG sing 309 n n O3 HO3 NAG sing 310 n n O4 HO4 NAG sing 311 n n O6 HO6 NAG sing 312 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 6E3L _atom_sites.fract_transf_matrix[1][1] 0.012707 _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] 0.006657 _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] 0.004702 _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 N 7 NAG A 1 201 124 NAG NAG . O 7 NAG B 1 201 125 NAG NAG . P 7 NAG D 1 304 224 NAG NAG . Q 7 NAG E 1 304 244 NAG NAG . R 7 NAG E 1 307 248 NAG NAG . S 8 CYS E 1 308 300 CYS CYS . T 8 CYS I 1 312 300 CYS CYS . # 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 . . . N 7 -3.883 -7.617 -11.609 1 233.71 ? C1 NAG 201 A 1 HETATM 2 C C2 NAG . . . N 7 -3.102 -6.327 -11.319 1 233.71 ? C2 NAG 201 A 1 HETATM 3 C C3 NAG . . . N 7 -1.795 -6.313 -12.111 1 233.71 ? C3 NAG 201 A 1 HETATM 4 C C4 NAG . . . N 7 -0.999 -7.585 -11.844 1 233.71 ? C4 NAG 201 A 1 HETATM 5 C C5 NAG . . . N 7 -1.864 -8.819 -12.1 1 233.71 ? C5 NAG 201 A 1 HETATM 6 C C6 NAG . . . N 7 -1.17 -10.118 -11.761 1 233.71 ? C6 NAG 201 A 1 HETATM 7 C C7 NAG . . . N 7 -4.758 -4.922 -12.547 1 233.71 ? C7 NAG 201 A 1 HETATM 8 C C8 NAG . . . N 7 -5.442 -3.587 -12.571 1 233.71 ? C8 NAG 201 A 1 HETATM 9 N N2 NAG . . . N 7 -3.883 -5.114 -11.548 1 233.71 ? N2 NAG 201 A 1 HETATM 10 O O3 NAG . . . N 7 -1.021 -5.17 -11.762 1 233.71 ? O3 NAG 201 A 1 HETATM 11 O O4 NAG . . . N 7 0.141 -7.623 -12.695 1 233.71 ? O4 NAG 201 A 1 HETATM 12 O O5 NAG . . . N 7 -3.06 -8.762 -11.306 1 233.71 ? O5 NAG 201 A 1 HETATM 13 O O6 NAG . . . N 7 -0.689 -10.116 -10.424 1 233.71 ? O6 NAG 201 A 1 HETATM 14 O O7 NAG . . . N 7 -4.96 -5.761 -13.416 1 233.71 ? O7 NAG 201 A 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 14 #