data_4F5C # _model_server_result.job_id vsPVlRAL_B3c2bq2cBFYgw _model_server_result.datetime_utc '2024-11-22 15:52:22' _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 4f5c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":1005}' # _entry.id 4F5C # _exptl.entry_id 4F5C _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 20 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90.54 _cell.angle_gamma 90 _cell.entry_id 4F5C _cell.length_a 220.859 _cell.length_b 87.938 _cell.length_c 176.912 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4F5C _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 ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,F,H,I,J,K,L,M,N,O,P,Q,DA 1 1 B,D,G,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,EA 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 ? 5 I N N ? 5 J N N ? 5 K N N ? 5 L N N ? 5 M N N ? 5 N N N ? 5 O N N ? 5 P N N ? 5 Q N N ? 5 S N N ? 5 T N N ? 5 U N N ? 5 V N N ? 5 W N N ? 5 X N N ? 5 Y N N ? 5 Z N N ? 5 AA N N ? 5 BA N N ? 5 CA N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 3 n E NAG 1 C 1 NAG A 6221 NAG 3 n E NAG 2 C 2 NAG A 6222 NAG 3 n F NAG 1 D 1 NAG E 3141 NAG 3 n F NAG 2 D 2 NAG E 3142 NAG 3 n G NAG 1 G 1 NAG F 3141 NAG 3 n G NAG 2 G 2 NAG F 3142 NAG # 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 740 A CYS 758 1_555 A SG CYS 747 A CYS 765 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf2 A SG CYS 777 A CYS 795 1_555 A SG CYS 813 A CYS 831 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 B SG CYS 740 B CYS 758 1_555 B SG CYS 747 B CYS 765 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 B SG CYS 777 B CYS 795 1_555 B SG CYS 813 B CYS 831 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 C SG CYS 328 E CYS 328 1_555 C SG CYS 387 E CYS 387 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 C SG CYS 342 E CYS 342 1_555 C SG CYS 355 E CYS 355 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf7 C SG CYS 370 E CYS 370 1_555 C SG CYS 397 E CYS 397 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 D SG CYS 328 F CYS 328 1_555 D SG CYS 387 F CYS 387 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 D SG CYS 342 F CYS 342 1_555 D SG CYS 355 F CYS 355 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf10 D SG CYS 370 F CYS 370 1_555 D SG CYS 397 F CYS 397 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 64 A ASN 82 1_555 P C1 NAG . A NAG 1011 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale2 A ND2 ASN 106 A ASN 124 1_555 I C1 NAG . A NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale3 A ND2 ASN 211 A ASN 229 1_555 J C1 NAG . A NAG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale4 A ND2 ASN 219 A ASN 237 1_555 K C1 NAG . A NAG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale5 A ND2 ASN 296 A ASN 314 1_555 L C1 NAG . A NAG 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale6 A ND2 ASN 310 A ASN 328 1_555 M C1 NAG . A NAG 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.423 ? covale ? covale7 A ND2 ASN 488 A ASN 506 1_555 N C1 NAG . A NAG 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale8 A ND2 ASN 604 A ASN 622 1_555 E C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale9 A ND2 ASN 628 A ASN 646 1_555 O C1 NAG . A NAG 1010 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale10 A ND2 ASN 718 A ASN 736 1_555 Q C1 NAG . A NAG 1012 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale11 B ND2 ASN 64 B ASN 82 1_555 X C1 NAG . B NAG 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale12 B ND2 ASN 106 B ASN 124 1_555 S C1 NAG . B NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale13 B ND2 ASN 211 B ASN 229 1_555 T C1 NAG . B NAG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale14 B ND2 ASN 219 B ASN 237 1_555 U C1 NAG . B NAG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale15 B ND2 ASN 268 B ASN 286 1_555 V C1 NAG . B NAG 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale16 B ND2 ASN 296 B ASN 314 1_555 Z C1 NAG . B NAG 1009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale17 B ND2 ASN 310 B ASN 328 1_555 AA C1 NAG . B NAG 1010 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale18 B ND2 ASN 488 B ASN 506 1_555 BA C1 NAG . B NAG 1011 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale19 B ND2 ASN 604 B ASN 622 1_555 CA C1 NAG . B NAG 1012 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale20 B ND2 ASN 628 B ASN 646 1_555 W C1 NAG . B NAG 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale21 B ND2 ASN 718 B ASN 736 1_555 Y C1 NAG . B NAG 1008 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale22 C ND2 ASN 314 E ASN 314 1_555 F C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale23 D ND2 ASN 314 F ASN 314 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale24 E O4 NAG . C NAG 1 1_555 E C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.423 ? covale ? covale25 F O4 NAG . D NAG 1 1_555 F C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.422 ? covale ? covale26 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? metalc ? metalc1 A NE2 HIS 365 A HIS 383 1_555 H ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? metalc ? metalc2 A NE2 HIS 369 A HIS 387 1_555 H ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? metalc ? metalc3 A OE1 GLU 388 A GLU 406 1_555 H ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.957 ? metalc ? metalc4 A OE2 GLU 388 A GLU 406 1_555 H ZN ZN . A ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc5 H ZN ZN . A ZN 1001 1_555 DA O HOH . A HOH 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.139 ? metalc ? metalc6 B NE2 HIS 365 B HIS 383 1_555 R ZN ZN . B ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.94 ? metalc ? metalc7 B NE2 HIS 369 B HIS 387 1_555 R ZN ZN . B ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc8 B OE1 GLU 388 B GLU 406 1_555 R ZN ZN . B ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? metalc ? metalc9 B OE2 GLU 388 B GLU 406 1_555 R ZN ZN . B ZN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc10 R ZN ZN . B ZN 1001 1_555 EA O HOH . B HOH 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.122 ? # _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 237 n n C1 O1 NAG sing 238 n n C1 O5 NAG sing 239 n n C1 H1 NAG sing 240 n n C2 C3 NAG sing 241 n n C2 N2 NAG sing 242 n n C2 H2 NAG sing 243 n n C3 C4 NAG sing 244 n n C3 O3 NAG sing 245 n n C3 H3 NAG sing 246 n n C4 C5 NAG sing 247 n n C4 O4 NAG sing 248 n n C4 H4 NAG sing 249 n n C5 C6 NAG sing 250 n n C5 O5 NAG sing 251 n n C5 H5 NAG sing 252 n n C6 O6 NAG sing 253 n n C6 H61 NAG sing 254 n n C6 H62 NAG sing 255 n n C7 C8 NAG sing 256 n n C7 N2 NAG sing 257 n n C7 O7 NAG doub 258 n n C8 H81 NAG sing 259 n n C8 H82 NAG sing 260 n n C8 H83 NAG sing 261 n n N2 HN2 NAG sing 262 n n O1 HO1 NAG sing 263 n n O3 HO3 NAG sing 264 n n O4 HO4 NAG sing 265 n n O6 HO6 NAG sing 266 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 4F5C _atom_sites.fract_transf_matrix[1][1] 0.004528 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000043 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011372 _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] 0.005653 _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 H 4 ZN A 1 1001 966 ZN ZN . I 5 NAG A 1 1002 1241 NAG NAG . J 5 NAG A 1 1003 2291 NAG NAG . K 5 NAG A 1 1004 2371 NAG NAG . L 5 NAG A 1 1005 3141 NAG NAG . M 5 NAG A 1 1006 3281 NAG NAG . N 5 NAG A 1 1007 5061 NAG NAG . O 5 NAG A 1 1010 6461 NAG NAG . P 5 NAG A 1 1011 8201 NAG NAG . Q 5 NAG A 1 1012 7361 NAG NAG . R 4 ZN B 1 1001 966 ZN ZN . S 5 NAG B 1 1002 1241 NAG NAG . T 5 NAG B 1 1003 2291 NAG NAG . U 5 NAG B 1 1004 2371 NAG NAG . V 5 NAG B 1 1005 2861 NAG NAG . W 5 NAG B 1 1006 6461 NAG NAG . X 5 NAG B 1 1007 8201 NAG NAG . Y 5 NAG B 1 1008 7361 NAG NAG . Z 5 NAG B 1 1009 3141 NAG NAG . AA 5 NAG B 1 1010 3281 NAG NAG . BA 5 NAG B 1 1011 5061 NAG NAG . CA 5 NAG B 1 1012 6221 NAG NAG . DA 6 HOH A 1 1101 967 HOH HOH . DA 6 HOH A 2 1102 968 HOH HOH . EA 6 HOH B 1 1101 967 HOH HOH . EA 6 HOH B 2 1102 968 HOH HOH . # 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 5 60.346 -45.545 -22.603 1 132.83 ? C1 NAG 1005 B 1 HETATM 2 C C2 NAG . . . V 5 59.003 -45.457 -21.868 1 148.06 ? C2 NAG 1005 B 1 HETATM 3 C C3 NAG . . . V 5 58.158 -44.242 -22.266 1 148.57 ? C3 NAG 1005 B 1 HETATM 4 C C4 NAG . . . V 5 59.008 -42.996 -22.491 1 149.62 ? C4 NAG 1005 B 1 HETATM 5 C C5 NAG . . . V 5 60.149 -43.38 -23.416 1 138.27 ? C5 NAG 1005 B 1 HETATM 6 C C6 NAG . . . V 5 61.038 -42.227 -23.851 1 128.72 ? C6 NAG 1005 B 1 HETATM 7 C C7 NAG . . . V 5 57.947 -47.505 -21.085 1 157.21 ? C7 NAG 1005 B 1 HETATM 8 C C8 NAG . . . V 5 57.028 -48.648 -21.408 1 152.33 ? C8 NAG 1005 B 1 HETATM 9 N N2 NAG . . . V 5 58.235 -46.671 -22.082 1 155.28 ? N2 NAG 1005 B 1 HETATM 10 O O3 NAG . . . V 5 57.2 -43.984 -21.263 1 145.55 ? O3 NAG 1005 B 1 HETATM 11 O O4 NAG . . . V 5 58.234 -41.965 -23.059 1 154.18 ? O4 NAG 1005 B 1 HETATM 12 O O5 NAG . . . V 5 60.943 -44.275 -22.684 1 138.58 ? O5 NAG 1005 B 1 HETATM 13 O O6 NAG . . . V 5 62.25 -42.294 -23.131 1 123.06 ? O6 NAG 1005 B 1 HETATM 14 O O7 NAG . . . V 5 58.396 -47.373 -19.947 1 159.65 ? O7 NAG 1005 B 1 # _model_server_stats.io_time_ms 37 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 14 #