data_6D7C # _model_server_result.job_id hMV1DmGQCV5RHjgWXnmmlg _model_server_result.datetime_utc '2024-12-01 00:05:10' _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 6d7c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":301}' # _entry.id 6D7C # _exptl.entry_id 6D7C _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 10 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 108.58 _cell.angle_gamma 90 _cell.entry_id 6D7C _cell.length_a 210.014 _cell.length_b 97.527 _cell.length_c 191.809 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6D7C _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA hexameric 6 author_and_software_defined_assembly 1 PISA hexameric 6 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,I,J,M,N,P,Q,T,U 1 1 C,D,G,H,K,L,O,R,S,V 2 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 ? 3 M N N ? 3 N N N ? 3 O N N ? 3 P N N ? 3 Q N N ? 3 R N N ? 3 S N N ? 3 T N N ? 3 U N N ? 3 V N N # 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 4 A CYS 4 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? disulf ? disulf2 A SG CYS 42 A CYS 42 1_555 A SG CYS 268 A CYS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? disulf ? disulf3 A SG CYS 54 A CYS 54 1_555 A SG CYS 66 A CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf4 A SG CYS 87 A CYS 87 1_555 A SG CYS 129 A CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.985 ? disulf ? disulf5 A SG CYS 272 A CYS 272 1_555 A SG CYS 296 A CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? disulf ? disulf7 C SG CYS 4 C CYS 4 1_555 D SG CYS 137 D CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf8 C SG CYS 42 C CYS 42 1_555 C SG CYS 268 C CYS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf9 C SG CYS 54 C CYS 54 1_555 C SG CYS 66 C CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf10 C SG CYS 87 C CYS 87 1_555 C SG CYS 129 C CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? disulf ? disulf11 C SG CYS 272 C CYS 272 1_555 C SG CYS 296 C CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf12 D SG CYS 144 D CYS 144 1_555 D SG CYS 148 D CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? disulf ? disulf13 E SG CYS 4 E CYS 4 1_555 F SG CYS 137 F CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf14 E SG CYS 42 E CYS 42 1_555 E SG CYS 268 E CYS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.923 ? disulf ? disulf15 E SG CYS 54 E CYS 54 1_555 E SG CYS 66 E CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? disulf ? disulf16 E SG CYS 87 E CYS 87 1_555 E SG CYS 129 E CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf17 E SG CYS 272 E CYS 272 1_555 E SG CYS 296 E CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf18 F SG CYS 144 F CYS 144 1_555 F SG CYS 148 F CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? disulf ? disulf19 G SG CYS 4 G CYS 4 1_555 H SG CYS 137 H CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf20 G SG CYS 42 G CYS 42 1_555 G SG CYS 268 G CYS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf21 G SG CYS 54 G CYS 54 1_555 G SG CYS 66 G CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf22 G SG CYS 87 G CYS 87 1_555 G SG CYS 129 G CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf23 G SG CYS 272 G CYS 272 1_555 G SG CYS 296 G CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? disulf ? disulf24 H SG CYS 144 H CYS 144 1_555 H SG CYS 148 H CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf25 I SG CYS 4 I CYS 4 1_555 J SG CYS 137 J CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf26 I SG CYS 42 I CYS 42 1_555 I SG CYS 268 I CYS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf27 I SG CYS 54 I CYS 54 1_555 I SG CYS 66 I CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf28 I SG CYS 87 I CYS 87 1_555 I SG CYS 129 I CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? disulf ? disulf29 I SG CYS 272 I CYS 272 1_555 I SG CYS 296 I CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? disulf ? disulf30 J SG CYS 144 J CYS 144 1_555 J SG CYS 148 J CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? disulf ? disulf31 K SG CYS 4 K CYS 4 1_555 L SG CYS 137 L CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? disulf ? disulf32 K SG CYS 42 K CYS 42 1_555 K SG CYS 268 K CYS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.895 ? disulf ? disulf33 K SG CYS 54 K CYS 54 1_555 K SG CYS 66 K CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf34 K SG CYS 87 K CYS 87 1_555 K SG CYS 129 K CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf35 K SG CYS 272 K CYS 272 1_555 K SG CYS 296 K CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf36 L SG CYS 144 L CYS 144 1_555 L SG CYS 148 L CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? covale ? covale1 A ND2 ASN 231 A ASN 231 1_555 M C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.474 ? covale ? covale2 B ND2 ASN 82 B ASN 82 1_555 N C1 NAG . B NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? covale ? covale3 C ND2 ASN 231 C ASN 231 1_555 O C1 NAG . C NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale4 E ND2 ASN 231 E ASN 231 1_555 P C1 NAG . E NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.468 ? covale ? covale5 F ND2 ASN 82 F ASN 82 1_555 Q C1 NAG . F NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.506 ? covale ? covale6 G ND2 ASN 28 G ASN 28 1_555 R C1 NAG . G NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale7 H ND2 ASN 82 H ASN 82 1_555 S C1 NAG . H NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.494 ? covale ? covale8 I ND2 ASN 231 I ASN 231 1_555 T C1 NAG . I NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale9 J ND2 ASN 82 J ASN 82 1_555 U C1 NAG . J NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale10 L ND2 ASN 82 L ASN 82 1_555 V C1 NAG . L NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.482 ? # _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 235 n n C1 O1 NAG sing 236 n n C1 O5 NAG sing 237 n n C1 H1 NAG sing 238 n n C2 C3 NAG sing 239 n n C2 N2 NAG sing 240 n n C2 H2 NAG sing 241 n n C3 C4 NAG sing 242 n n C3 O3 NAG sing 243 n n C3 H3 NAG sing 244 n n C4 C5 NAG sing 245 n n C4 O4 NAG sing 246 n n C4 H4 NAG sing 247 n n C5 C6 NAG sing 248 n n C5 O5 NAG sing 249 n n C5 H5 NAG sing 250 n n C6 O6 NAG sing 251 n n C6 H61 NAG sing 252 n n C6 H62 NAG sing 253 n n C7 C8 NAG sing 254 n n C7 N2 NAG sing 255 n n C7 O7 NAG doub 256 n n C8 H81 NAG sing 257 n n C8 H82 NAG sing 258 n n C8 H83 NAG sing 259 n n N2 HN2 NAG sing 260 n n O1 HO1 NAG sing 261 n n O3 HO3 NAG sing 262 n n O4 HO4 NAG sing 263 n n O6 HO6 NAG sing 264 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 6D7C _atom_sites.fract_transf_matrix[1][1] 0.004762 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001601 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010254 _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] 0.0055 _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 M 3 NAG A 1 401 404 NAG NAG . N 3 NAG B 1 301 201 NAG NAG . O 3 NAG C 1 401 404 NAG NAG . P 3 NAG E 1 401 404 NAG NAG . Q 3 NAG F 1 301 201 NAG NAG . R 3 NAG G 1 401 401 NAG NAG . S 3 NAG H 1 301 201 NAG NAG . T 3 NAG I 1 401 404 NAG NAG . U 3 NAG J 1 301 201 NAG NAG . V 3 NAG L 1 301 201 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 . . . V 3 5.523 -71.565 86.772 1 85.83 ? C1 NAG 301 L 1 HETATM 2 C C2 NAG . . . V 3 4.799 -72.413 87.877 1 90.2 ? C2 NAG 301 L 1 HETATM 3 C C3 NAG . . . V 3 5.725 -73.464 88.564 1 91.72 ? C3 NAG 301 L 1 HETATM 4 C C4 NAG . . . V 3 6.524 -74.295 87.546 1 94.73 ? C4 NAG 301 L 1 HETATM 5 C C5 NAG . . . V 3 7.296 -73.345 86.617 1 96.19 ? C5 NAG 301 L 1 HETATM 6 C C6 NAG . . . V 3 8.07 -74.155 85.58 1 96.98 ? C6 NAG 301 L 1 HETATM 7 C C7 NAG . . . V 3 3.132 -71.742 89.654 1 95.28 ? C7 NAG 301 L 1 HETATM 8 C C8 NAG . . . V 3 2.648 -70.579 90.46 1 92.23 ? C8 NAG 301 L 1 HETATM 9 N N2 NAG . . . V 3 4.132 -71.466 88.794 1 92.8 ? N2 NAG 301 L 1 HETATM 10 O O3 NAG . . . V 3 4.978 -74.397 89.351 1 88.95 ? O3 NAG 301 L 1 HETATM 11 O O4 NAG . . . V 3 7.397 -75.251 88.191 1 96.01 ? O4 NAG 301 L 1 HETATM 12 O O5 NAG . . . V 3 6.42 -72.381 85.948 1 93.15 ? O5 NAG 301 L 1 HETATM 13 O O6 NAG . . . V 3 8.535 -73.245 84.565 1 97.65 ? O6 NAG 301 L 1 HETATM 14 O O7 NAG . . . V 3 2.629 -72.839 89.815 1 100.97 ? O7 NAG 301 L 1 # _model_server_stats.io_time_ms 72 _model_server_stats.parse_time_ms 60 _model_server_stats.create_model_time_ms 463 _model_server_stats.query_time_ms 576 _model_server_stats.encode_time_ms 21 _model_server_stats.element_count 14 #