data_5F4U # _model_server_result.job_id 29PEsIFGrjUFOgLMwqIdsQ _model_server_result.datetime_utc '2024-10-18 02:13:57' _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 5f4u # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":506}' # _entry.id 5F4U # _exptl.entry_id 5F4U _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 13 _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 5F4U _cell.length_a 67.439 _cell.length_b 128.123 _cell.length_c 193.599 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5F4U _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 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,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 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 ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N N ? 2 J N N ? 2 K N N ? 2 L N N ? 2 M N N ? 2 N N N ? 2 O N N ? 2 P 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 6 A CYS 54 1_555 A SG CYS 26 A CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf2 A SG CYS 71 A CYS 119 1_555 A SG CYS 84 A CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 A SG CYS 97 A CYS 218 1_555 A SG CYS 126 A CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 107 A CYS 228 1_555 A SG CYS 118 A CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf5 A SG CYS 175 A CYS 296 1_555 A SG CYS 194 A CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 A SG CYS 240 A CYS 378 1_555 A SG CYS 304 A CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 A SG CYS 247 A CYS 385 1_555 A SG CYS 277 A CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf8 B SG CYS 6 B CYS 54 1_555 B SG CYS 26 B CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf9 B SG CYS 71 B CYS 119 1_555 B SG CYS 84 B CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf10 B SG CYS 97 B CYS 218 1_555 B SG CYS 126 B CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf11 B SG CYS 107 B CYS 228 1_555 B SG CYS 118 B CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf12 B SG CYS 175 B CYS 296 1_555 B SG CYS 194 B CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf13 B SG CYS 240 B CYS 378 1_555 B SG CYS 304 B CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf14 B SG CYS 247 B CYS 385 1_555 B SG CYS 277 B CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? # _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 297 n n C1 O1 NAG sing 298 n n C1 O5 NAG sing 299 n n C1 H1 NAG sing 300 n n C2 C3 NAG sing 301 n n C2 N2 NAG sing 302 n n C2 H2 NAG sing 303 n n C3 C4 NAG sing 304 n n C3 O3 NAG sing 305 n n C3 H3 NAG sing 306 n n C4 C5 NAG sing 307 n n C4 O4 NAG sing 308 n n C4 H4 NAG sing 309 n n C5 C6 NAG sing 310 n n C5 O5 NAG sing 311 n n C5 H5 NAG sing 312 n n C6 O6 NAG sing 313 n n C6 H61 NAG sing 314 n n C6 H62 NAG sing 315 n n C7 C8 NAG sing 316 n n C7 N2 NAG sing 317 n n C7 O7 NAG doub 318 n n C8 H81 NAG sing 319 n n C8 H82 NAG sing 320 n n C8 H83 NAG sing 321 n n N2 HN2 NAG sing 322 n n O1 HO1 NAG sing 323 n n O3 HO3 NAG sing 324 n n O4 HO4 NAG sing 325 n n O6 HO6 NAG sing 326 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 5F4U _atom_sites.fract_transf_matrix[1][1] 0.014828 _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] 0.007805 _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] 0.005165 _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 C 2 NAG A 1 501 503 NAG NAG . D 2 NAG A 1 502 504 NAG NAG . E 2 NAG A 1 503 505 NAG NAG . F 2 NAG A 1 504 506 NAG NAG . G 2 NAG A 1 505 507 NAG NAG . H 2 NAG A 1 506 508 NAG NAG . I 3 5VH A 1 507 1 5VH DRG . J 2 NAG B 1 501 502 NAG NAG . K 2 NAG B 1 502 503 NAG NAG . L 2 NAG B 1 503 504 NAG NAG . M 2 NAG B 1 504 505 NAG NAG . N 2 NAG B 1 505 506 NAG NAG . O 2 NAG B 1 506 507 NAG NAG . P 2 NAG B 1 507 508 NAG NAG . Q 3 5VH B 1 508 2 5VH DRG . # 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 . . . H 2 -8.169 -49.728 40.76 1 95.42 ? C1 NAG 506 A 1 HETATM 2 C C2 NAG . . . H 2 -7.647 -51.16 40.85 1 117.81 ? C2 NAG 506 A 1 HETATM 3 C C3 NAG . . . H 2 -6.744 -51.307 42.074 1 108.57 ? C3 NAG 506 A 1 HETATM 4 C C4 NAG . . . H 2 -5.655 -50.247 42.065 1 92.77 ? C4 NAG 506 A 1 HETATM 5 C C5 NAG . . . H 2 -6.28 -48.862 41.926 1 121.11 ? C5 NAG 506 A 1 HETATM 6 C C6 NAG . . . H 2 -5.253 -47.761 41.8 1 131.31 ? C6 NAG 506 A 1 HETATM 7 C C7 NAG . . . H 2 -9.04 -53.005 39.959 1 112.87 ? C7 NAG 506 A 1 HETATM 8 C C8 NAG . . . H 2 -8.154 -53.016 38.746 1 121.5 ? C8 NAG 506 A 1 HETATM 9 N N2 NAG . . . H 2 -8.739 -52.106 40.91 1 137.57 ? N2 NAG 506 A 1 HETATM 10 O O3 NAG . . . H 2 -6.165 -52.608 42.076 1 140.32 ? O3 NAG 506 A 1 HETATM 11 O O4 NAG . . . H 2 -4.903 -50.305 43.272 1 98.76 ? O4 NAG 506 A 1 HETATM 12 O O5 NAG . . . H 2 -7.085 -48.812 40.737 1 110.87 ? O5 NAG 506 A 1 HETATM 13 O O6 NAG . . . H 2 -5.432 -47.025 40.599 1 114.96 ? O6 NAG 506 A 1 HETATM 14 O O7 NAG . . . H 2 -9.984 -53.779 40.074 1 91.82 ? O7 NAG 506 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #