data_5V56 # _model_server_result.job_id IU-TtzuvpMDIOq1rXv4IUg _model_server_result.datetime_utc '2024-11-21 14:00:18' _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 5v56 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1203}' # _entry.id 5V56 # _exptl.entry_id 5V56 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 101.1 _cell.angle_gamma 90 _cell.entry_id 5V56 _cell.length_a 40.59 _cell.length_b 349.54 _cell.length_c 61.76 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5V56 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 12 A CYS 64 1_555 A SG CYS 126 A CYS 178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf2 A SG CYS 18 A CYS 70 1_555 A SG CYS 82 A CYS 134 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 A SG CYS 26 A CYS 78 1_555 A SG CYS 75 A CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 A SG CYS 66 A CYS 118 1_555 A SG CYS 102 A CYS 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf5 A SG CYS 95 A CYS 147 1_555 A SG CYS 117 A CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 A SG CYS 141 A CYS 193 1_555 A SG CYS 161 A CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf7 A SG CYS 165 A CYS 217 1_555 A SG CYS 243 A CYS 295 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf8 A SG CYS 262 A CYS 314 1_555 A SG CYS 338 A CYS 390 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 A SG CYS 575 A CYS 490 1_555 A SG CYS 592 A CYS 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf10 B SG CYS 12 B CYS 64 1_555 B SG CYS 126 B CYS 178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf11 B SG CYS 18 B CYS 70 1_555 B SG CYS 82 B CYS 134 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf12 B SG CYS 26 B CYS 78 1_555 B SG CYS 75 B CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf13 B SG CYS 66 B CYS 118 1_555 B SG CYS 102 B CYS 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf14 B SG CYS 95 B CYS 147 1_555 B SG CYS 117 B CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf15 B SG CYS 141 B CYS 193 1_555 B SG CYS 161 B CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf16 B SG CYS 165 B CYS 217 1_555 B SG CYS 243 B CYS 295 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf17 B SG CYS 262 B CYS 314 1_555 B SG CYS 338 B CYS 390 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf18 B SG CYS 575 B CYS 490 1_555 B SG CYS 592 B CYS 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A ND2 ASN 578 A ASN 493 1_555 E C1 NAG . A NAG 1203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? # _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 356 n n C1 O1 NAG sing 357 n n C1 O5 NAG sing 358 n n C1 H1 NAG sing 359 n n C2 C3 NAG sing 360 n n C2 N2 NAG sing 361 n n C2 H2 NAG sing 362 n n C3 C4 NAG sing 363 n n C3 O3 NAG sing 364 n n C3 H3 NAG sing 365 n n C4 C5 NAG sing 366 n n C4 O4 NAG sing 367 n n C4 H4 NAG sing 368 n n C5 C6 NAG sing 369 n n C5 O5 NAG sing 370 n n C5 H5 NAG sing 371 n n C6 O6 NAG sing 372 n n C6 H61 NAG sing 373 n n C6 H62 NAG sing 374 n n C7 C8 NAG sing 375 n n C7 N2 NAG sing 376 n n C7 O7 NAG doub 377 n n C8 H81 NAG sing 378 n n C8 H82 NAG sing 379 n n C8 H83 NAG sing 380 n n N2 HN2 NAG sing 381 n n O1 HO1 NAG sing 382 n n O3 HO3 NAG sing 383 n n O4 HO4 NAG sing 384 n n O6 HO6 NAG sing 385 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 5V56 _atom_sites.fract_transf_matrix[1][1] 0.024637 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004834 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.002861 _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] 0.0165 _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 2 836 A 1 1201 1699 836 LIG . D 3 FMN A 1 1202 1700 FMN FMN . E 4 NAG A 1 1203 1800 NAG NAG . F 2 836 B 1 1201 1699 836 LIG . G 3 FMN B 1 1202 1700 FMN FMN . # 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 . . . E 4 54.434 135.34 59.444 1 174 ? C1 NAG 1203 A 1 HETATM 2 C C2 NAG . . . E 4 52.943 135.327 59.097 1 175.58 ? C2 NAG 1203 A 1 HETATM 3 C C3 NAG . . . E 4 52.356 136.729 59.277 1 175.88 ? C3 NAG 1203 A 1 HETATM 4 C C4 NAG . . . E 4 52.649 137.275 60.673 1 176.21 ? C4 NAG 1203 A 1 HETATM 5 C C5 NAG . . . E 4 54.148 137.222 60.963 1 175.26 ? C5 NAG 1203 A 1 HETATM 6 C C6 NAG . . . E 4 54.503 137.597 62.388 1 173.91 ? C6 NAG 1203 A 1 HETATM 7 C C7 NAG . . . E 4 52.312 133.643 57.392 1 176.33 ? C7 NAG 1203 A 1 HETATM 8 C C8 NAG . . . E 4 52.067 133.411 55.93 1 175.81 ? C8 NAG 1203 A 1 HETATM 9 N N2 NAG . . . E 4 52.75 134.871 57.727 1 176.4 ? N2 NAG 1203 A 1 HETATM 10 O O3 NAG . . . E 4 50.949 136.687 59.068 1 175.29 ? O3 NAG 1203 A 1 HETATM 11 O O4 NAG . . . E 4 52.201 138.625 60.758 1 176.63 ? O4 NAG 1203 A 1 HETATM 12 O O5 NAG . . . E 4 54.639 135.886 60.753 1 174.97 ? O5 NAG 1203 A 1 HETATM 13 O O6 NAG . . . E 4 54.078 136.61 63.322 1 172.89 ? O6 NAG 1203 A 1 HETATM 14 O O7 NAG . . . E 4 52.124 132.763 58.229 1 176.43 ? O7 NAG 1203 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 14 #