data_4U5B # _model_server_result.job_id HA6TaLaf5AEGKQ_bbAoBTw _model_server_result.datetime_utc '2024-11-12 20:44:43' _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 4u5b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":902}' # _entry.id 4U5B # _exptl.entry_id 4U5B _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 4 _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 4U5B _cell.length_a 161.52 _cell.length_b 368.66 _cell.length_c 109.15 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4U5B _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _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 ? 4 H N N ? 4 J N N ? 4 M N N ? 4 O 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 54 A CYS 59 1_555 A SG CYS 306 A CYS 311 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 708 A CYS 718 1_555 A SG CYS 763 A CYS 773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf3 B SG CYS 54 B CYS 59 1_555 B SG CYS 306 B CYS 311 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 B SG CYS 708 B CYS 718 1_555 B SG CYS 763 B CYS 773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 C SG CYS 54 C CYS 59 1_555 C SG CYS 306 C CYS 311 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 C SG CYS 708 C CYS 718 1_555 C SG CYS 763 C CYS 773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 D SG CYS 54 D CYS 59 1_555 D SG CYS 306 D CYS 311 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 D SG CYS 708 D CYS 718 1_555 D SG CYS 763 D CYS 773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf9 E SG CYS 10 E CYS 6 1_555 F SG CYS 10 F CYS 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf10 E SG CYS 11 E CYS 7 1_555 F SG CYS 11 F CYS 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf11 E SG CYS 16 E CYS 12 1_555 E SG CYS 47 E CYS 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf12 E SG CYS 17 E CYS 13 1_555 E SG CYS 56 E CYS 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf13 E SG CYS 24 E CYS 20 1_555 E SG CYS 39 E CYS 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf14 E SG CYS 57 E CYS 53 1_555 E SG CYS 85 E CYS 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf15 E SG CYS 63 E CYS 59 1_555 E SG CYS 80 E CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf16 E SG CYS 89 E CYS 85 1_555 F SG CYS 89 F CYS 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf17 F SG CYS 16 F CYS 12 1_555 F SG CYS 47 F CYS 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf18 F SG CYS 17 F CYS 13 1_555 F SG CYS 56 F CYS 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf19 F SG CYS 24 F CYS 20 1_555 F SG CYS 39 F CYS 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf20 F SG CYS 57 F CYS 53 1_555 F SG CYS 85 F CYS 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf21 F SG CYS 63 F CYS 59 1_555 F SG CYS 80 F CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 346 A ASN 351 1_555 H C1 NAG . A NAG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale2 B ND2 ASN 346 B ASN 351 1_555 J C1 NAG . B NAG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 C ND2 ASN 346 C ASN 351 1_555 M C1 NAG . C NAG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.422 ? covale ? covale4 D ND2 ASN 346 D ASN 351 1_555 O C1 NAG . D NAG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? # _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 334 n n C1 O1 NAG sing 335 n n C1 O5 NAG sing 336 n n C1 H1 NAG sing 337 n n C2 C3 NAG sing 338 n n C2 N2 NAG sing 339 n n C2 H2 NAG sing 340 n n C3 C4 NAG sing 341 n n C3 O3 NAG sing 342 n n C3 H3 NAG sing 343 n n C4 C5 NAG sing 344 n n C4 O4 NAG sing 345 n n C4 H4 NAG sing 346 n n C5 C6 NAG sing 347 n n C5 O5 NAG sing 348 n n C5 H5 NAG sing 349 n n C6 O6 NAG sing 350 n n C6 H61 NAG sing 351 n n C6 H62 NAG sing 352 n n C7 C8 NAG sing 353 n n C7 N2 NAG sing 354 n n C7 O7 NAG doub 355 n n C8 H81 NAG sing 356 n n C8 H82 NAG sing 357 n n C8 H83 NAG sing 358 n n N2 HN2 NAG sing 359 n n O1 HO1 NAG sing 360 n n O3 HO3 NAG sing 361 n n O4 HO4 NAG sing 362 n n O6 HO6 NAG sing 363 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 4U5B _atom_sites.fract_transf_matrix[1][1] 0.006191 _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] 0.002713 _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] 0.009162 _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 G 3 KAI A 1 901 999 KAI KAI . H 4 NAG A 1 902 1399 NAG NAG . I 3 KAI B 1 901 999 KAI KAI . J 4 NAG B 1 902 1399 NAG NAG . K 5 FWF B 1 903 1 FWF FWF . L 3 KAI C 1 901 999 KAI KAI . M 4 NAG C 1 902 1399 NAG NAG . N 3 KAI D 1 901 999 KAI KAI . O 4 NAG D 1 902 1399 NAG NAG . P 5 FWF D 1 903 1 FWF FWF . # 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 . . . O 4 -61.686 36.1 59.016 1 153.31 ? C1 NAG 902 D 1 HETATM 2 C C2 NAG . . . O 4 -62.809 35.264 59.61 1 197.67 ? C2 NAG 902 D 1 HETATM 3 C C3 NAG . . . O 4 -64.017 35.286 58.694 1 215.82 ? C3 NAG 902 D 1 HETATM 4 C C4 NAG . . . O 4 -64.451 36.72 58.447 1 210.45 ? C4 NAG 902 D 1 HETATM 5 C C5 NAG . . . O 4 -63.285 37.504 57.861 1 206.18 ? C5 NAG 902 D 1 HETATM 6 C C6 NAG . . . O 4 -63.57 38.976 57.64 1 220.88 ? C6 NAG 902 D 1 HETATM 7 C C7 NAG . . . O 4 -62.33 33.312 61.006 1 188.58 ? C7 NAG 902 D 1 HETATM 8 C C8 NAG . . . O 4 -61.864 31.905 60.997 1 157.41 ? C8 NAG 902 D 1 HETATM 9 N N2 NAG . . . O 4 -62.375 33.9 59.809 1 205.94 ? N2 NAG 902 D 1 HETATM 10 O O3 NAG . . . O 4 -65.084 34.539 59.265 1 214.15 ? O3 NAG 902 D 1 HETATM 11 O O4 NAG . . . O 4 -65.542 36.734 57.533 1 211.8 ? O4 NAG 902 D 1 HETATM 12 O O5 NAG . . . O 4 -62.161 37.429 58.749 1 194.9 ? O5 NAG 902 D 1 HETATM 13 O O6 NAG . . . O 4 -63.678 39.731 58.84 1 238.39 ? O6 NAG 902 D 1 HETATM 14 O O7 NAG . . . O 4 -62.641 33.902 62.051 1 202.75 ? O7 NAG 902 D 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #