data_7KFE # _model_server_result.job_id 8Lz9TsRtINazv4SmLOeOYw _model_server_result.datetime_utc '2024-11-22 06:34:30' _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 7kfe # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":401}' # _entry.id 7KFE # _exptl.entry_id 7KFE _exptl.method 'ELECTRON MICROSCOPY' # _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details decameric _pdbx_struct_assembly.oligomeric_count 10 _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 _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 ? _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 P N N ? 7 Q N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 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 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 5 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 5 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 5 5 3 MAN BMA C1 O1 . O6 HO6 . sing 5 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . 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 5 n K NAG 1 K 1 NAG D 702 NAG 5 n K NAG 2 K 2 NAG D 703 NAG 5 n K BMA 3 K 3 BMA D 704 BMA 5 n K MAN 4 K 4 MAN D 705 MAN 5 n K MAN 5 K 5 MAN D 706 MAN 6 n L NAG 1 L 1 NAG B 401 NAG 6 n L NAG 2 L 2 NAG B 402 NAG 5 n M NAG 1 M 1 NAG E 702 NAG 5 n M NAG 2 M 2 NAG E 703 NAG 5 n M BMA 3 M 3 BMA E 704 BMA 5 n M MAN 4 M 4 MAN E 705 MAN 5 n M MAN 5 M 5 MAN E 706 MAN 6 n N NAG 1 N 1 NAG C 401 NAG 6 n N NAG 2 N 2 NAG C 402 NAG 5 n O NAG 1 O 1 NAG F 702 NAG 5 n O NAG 2 O 2 NAG F 703 NAG 5 n O BMA 3 O 3 BMA F 704 BMA 5 n O MAN 4 O 4 MAN F 705 MAN 5 n O MAN 5 O 5 MAN F 706 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 22 H CYS 22 1_555 A SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 B SG CYS 23 J CYS 23 1_555 B SG CYS 89 J CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf3 C SG CYS 22 G CYS 22 1_555 C SG CYS 96 G CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 D SG CYS 23 I CYS 23 1_555 D SG CYS 89 I CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf5 E SG CYS 53 A CYS 53 1_555 F SG CYS 108 D CYS 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 E SG CYS 108 A CYS 108 1_555 E SG CYS 135 A CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf7 E SG CYS 121 A CYS 121 1_555 E SG CYS 147 A CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 F SG CYS 10 D CYS 511 1_555 F SG CYS 55 D CYS 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf9 F SG CYS 100 D CYS 601 1_555 F SG CYS 107 D CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf10 G SG CYS 53 B CYS 53 1_555 H SG CYS 108 E CYS 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf11 G SG CYS 108 B CYS 108 1_555 G SG CYS 135 B CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf12 G SG CYS 121 B CYS 121 1_555 G SG CYS 147 B CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.845 ? disulf ? disulf13 H SG CYS 10 E CYS 511 1_555 H SG CYS 55 E CYS 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf14 H SG CYS 100 E CYS 601 1_555 H SG CYS 107 E CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf15 I SG CYS 53 C CYS 53 1_555 J SG CYS 108 F CYS 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf16 I SG CYS 108 C CYS 108 1_555 I SG CYS 135 C CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf17 I SG CYS 121 C CYS 121 1_555 I SG CYS 147 C CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf18 J SG CYS 10 F CYS 511 1_555 J SG CYS 55 F CYS 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf19 J SG CYS 100 F CYS 601 1_555 J SG CYS 107 F CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 F ND2 ASN 62 D ASN 563 1_555 K C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.51 ? covale ? covale2 G ND2 ASN 228 B ASN 228 1_555 P C1 NAG . B NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.53 ? covale ? covale3 G ND2 ASN 257 B ASN 257 1_555 L C1 NAG . L NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.527 ? covale ? covale4 H ND2 ASN 62 E ASN 563 1_555 M C1 NAG . M NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.515 ? covale ? covale5 I ND2 ASN 228 C ASN 228 1_555 Q C1 NAG . C NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.521 ? covale ? covale6 I ND2 ASN 257 C ASN 257 1_555 N C1 NAG . N NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.527 ? covale ? covale7 J ND2 ASN 62 F ASN 563 1_555 O C1 NAG . O NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.512 ? covale ? covale8 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.493 ? covale ? covale9 K O4 NAG . K NAG 2 1_555 K C1 BMA . K BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.5 ? covale ? covale10 K O3 BMA . K BMA 3 1_555 K C1 MAN . K MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.522 ? covale ? covale11 K O6 BMA . K BMA 3 1_555 K C1 MAN . K MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.501 ? covale ? covale12 L O4 NAG . L NAG 1 1_555 L C1 NAG . L NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.509 ? covale ? covale13 M O4 NAG . M NAG 1 1_555 M C1 NAG . M NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.503 ? covale ? covale14 M O4 NAG . M NAG 2 1_555 M C1 BMA . M BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.504 ? covale ? covale15 M O3 BMA . M BMA 3 1_555 M C1 MAN . M MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.519 ? covale ? covale16 M O6 BMA . M BMA 3 1_555 M C1 MAN . M MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.501 ? covale ? covale17 N O4 NAG . N NAG 1 1_555 N C1 NAG . N NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.514 ? covale ? covale18 O O4 NAG . O NAG 1 1_555 O C1 NAG . O NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.501 ? covale ? covale19 O O4 NAG . O NAG 2 1_555 O C1 BMA . O BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.502 ? covale ? covale20 O O3 BMA . O BMA 3 1_555 O C1 MAN . O MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.517 ? covale ? covale21 O O6 BMA . O BMA 3 1_555 O C1 MAN . O MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.491 ? # _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 7KFE _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 P 7 NAG B 1 401 403 NAG NAG . Q 7 NAG C 1 401 403 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 . . . Q 7 124.881 158.714 182.09 1 222.49 ? C1 NAG 401 C 1 HETATM 2 C C2 NAG . . . Q 7 125.431 157.888 183.346 1 226.71 ? C2 NAG 401 C 1 HETATM 3 C C3 NAG . . . Q 7 125.407 156.361 182.983 1 232.4 ? C3 NAG 401 C 1 HETATM 4 C C4 NAG . . . Q 7 123.949 155.924 182.601 1 233.81 ? C4 NAG 401 C 1 HETATM 5 C C5 NAG . . . Q 7 123.459 156.789 181.382 1 231.58 ? C5 NAG 401 C 1 HETATM 6 C C6 NAG . . . Q 7 122.014 156.491 180.97 1 230.05 ? C6 NAG 401 C 1 HETATM 7 C C7 NAG . . . Q 7 127.185 159.115 184.643 1 216.53 ? C7 NAG 401 C 1 HETATM 8 C C8 NAG . . . Q 7 128.624 159.5 184.821 1 207.23 ? C8 NAG 401 C 1 HETATM 9 N N2 NAG . . . Q 7 126.835 158.314 183.62 1 221.15 ? N2 NAG 401 C 1 HETATM 10 O O3 NAG . . . Q 7 125.855 155.603 184.123 1 230.32 ? O3 NAG 401 C 1 HETATM 11 O O4 NAG . . . Q 7 123.948 154.539 182.244 1 232.9 ? O4 NAG 401 C 1 HETATM 12 O O5 NAG . . . Q 7 123.528 158.234 181.747 1 222.76 ? O5 NAG 401 C 1 HETATM 13 O O6 NAG . . . Q 7 121.671 157.14 179.748 1 222.7 ? O6 NAG 401 C 1 HETATM 14 O O7 NAG . . . Q 7 126.343 159.547 185.449 1 217.73 ? O7 NAG 401 C 1 # _model_server_stats.io_time_ms 72 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 43 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #