data_4ZMJ # _model_server_result.job_id v55yMFiFzrQuz6A28X8NKw _model_server_result.datetime_utc '2024-11-27 01:44:42' _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 4zmj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":601}' # _entry.id 4ZMJ # _exptl.entry_id 4ZMJ _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 15 _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 120 _cell.entry_id 4ZMJ _cell.length_a 107.18 _cell.length_b 107.18 _cell.length_c 103.06 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZMJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 63' # _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,Q,R,S,T _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_775 -y+2,x-y+2,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 107.18 185.641206 0 3 'crystal symmetry operation' 3_575 -x+y,-x+2,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -107.18 185.641206 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 F N N ? 5 G N N ? 5 H N N ? 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 R N N ? 5 S N N ? 5 T N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 3 5 4 MAN MAN C1 O1 . O2 HO2 . sing 5 ? 3 6 3 MAN BMA C1 O1 . O6 HO6 . sing 6 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . 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 C NAG 1 A 1 NAG G 762 NAG 3 n C NAG 2 A 2 NAG G 763 NAG 3 n C BMA 3 A 3 BMA G 764 BMA 3 n C MAN 4 A 4 MAN G 768 MAN 3 n C MAN 5 A 5 MAN G 769 MAN 3 n C MAN 6 A 6 MAN G 765 MAN 4 n D NAG 1 C 1 NAG G 1197 NAG 4 n D NAG 2 C 2 NAG G 1198 NAG 4 n E NAG 1 D 1 NAG G 1331 NAG 4 n E NAG 2 D 2 NAG G 1332 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 24 G CYS 54 1_555 A SG CYS 44 G CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? disulf ? disulf2 A SG CYS 89 G CYS 119 1_555 A SG CYS 175 G CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 96 G CYS 126 1_555 A SG CYS 166 G CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 A SG CYS 101 G CYS 131 1_555 A SG CYS 119 G CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 A SG CYS 188 G CYS 218 1_555 A SG CYS 217 G CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 A SG CYS 198 G CYS 228 1_555 A SG CYS 209 G CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf7 A SG CYS 266 G CYS 296 1_555 A SG CYS 300 G CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf8 A SG CYS 347 G CYS 378 1_555 A SG CYS 413 G CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf9 A SG CYS 354 G CYS 385 1_555 A SG CYS 386 G CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf10 A SG CYS 469 G CYS 501 1_555 B SG CYS 94 B CYS 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf11 B SG CYS 87 B CYS 598 1_555 B SG CYS 93 B CYS 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A ND2 ASN 118 G ASN 156 1_555 N C1 NAG . G NAG 615 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 122 G ASN 160 1_555 O C1 NAG . G NAG 616 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale3 A ND2 ASN 167 G ASN 197 1_555 D C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 A ND2 ASN 204 G ASN 234 1_555 F C1 NAG . G NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale5 A ND2 ASN 232 G ASN 262 1_555 C C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale6 A ND2 ASN 246 G ASN 276 1_555 G C1 NAG . G NAG 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale7 A ND2 ASN 265 G ASN 295 1_555 P C1 NAG . G NAG 619 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale8 A ND2 ASN 271 G ASN 301 1_555 Q C1 NAG . G NAG 620 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.479 ? covale ? covale9 A ND2 ASN 301 G ASN 332 1_555 E C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale10 A ND2 ASN 308 G ASN 339 1_555 H C1 NAG . G NAG 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale11 A ND2 ASN 324 G ASN 355 1_555 I C1 NAG . G NAG 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale12 A ND2 ASN 332 G ASN 363 1_555 J C1 NAG . G NAG 611 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale13 A ND2 ASN 355 G ASN 386 1_555 K C1 NAG . G NAG 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale14 A ND2 ASN 361 G ASN 392 1_555 L C1 NAG . G NAG 613 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale15 A ND2 ASN 416 G ASN 448 1_555 M C1 NAG . G NAG 614 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale16 B ND2 ASN 100 B ASN 611 1_555 R C1 NAG . B NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale17 B ND2 ASN 107 B ASN 618 1_555 S C1 NAG . B NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale18 B ND2 ASN 126 B ASN 637 1_555 T C1 NAG . B NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? covale ? covale19 C O4 NAG . A NAG 1 1_555 C C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale20 C O4 NAG . A NAG 2 1_555 C C1 BMA . A BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale21 C O3 BMA . A BMA 3 1_555 C C1 MAN . A MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale22 C O6 BMA . A BMA 3 1_555 C C1 MAN . A MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale23 C O2 MAN . A MAN 4 1_555 C C1 MAN . A MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale24 D O4 NAG . C NAG 1 1_555 D C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale25 E O4 NAG . D NAG 1 1_555 E C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? # _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 283 n n C1 O1 NAG sing 284 n n C1 O5 NAG sing 285 n n C1 H1 NAG sing 286 n n C2 C3 NAG sing 287 n n C2 N2 NAG sing 288 n n C2 H2 NAG sing 289 n n C3 C4 NAG sing 290 n n C3 O3 NAG sing 291 n n C3 H3 NAG sing 292 n n C4 C5 NAG sing 293 n n C4 O4 NAG sing 294 n n C4 H4 NAG sing 295 n n C5 C6 NAG sing 296 n n C5 O5 NAG sing 297 n n C5 H5 NAG sing 298 n n C6 O6 NAG sing 299 n n C6 H61 NAG sing 300 n n C6 H62 NAG sing 301 n n C7 C8 NAG sing 302 n n C7 N2 NAG sing 303 n n C7 O7 NAG doub 304 n n C8 H81 NAG sing 305 n n C8 H82 NAG sing 306 n n C8 H83 NAG sing 307 n n N2 HN2 NAG sing 308 n n O1 HO1 NAG sing 309 n n O3 HO3 NAG sing 310 n n O4 HO4 NAG sing 311 n n O6 HO6 NAG sing 312 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 4ZMJ _atom_sites.fract_transf_matrix[1][1] 0.00933 _atom_sites.fract_transf_matrix[1][2] 0.005387 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010773 _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] 0.009703 _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 F 5 NAG G 1 601 734 NAG NAG . G 5 NAG G 1 608 776 NAG NAG . H 5 NAG G 1 609 839 NAG NAG . I 5 NAG G 1 610 855 NAG NAG . J 5 NAG G 1 611 863 NAG NAG . K 5 NAG G 1 612 886 NAG NAG . L 5 NAG G 1 613 892 NAG NAG . M 5 NAG G 1 614 948 NAG NAG . N 5 NAG G 1 615 1156 NAG NAG . O 5 NAG G 1 616 1160 NAG NAG . P 5 NAG G 1 619 1295 NAG NAG . Q 5 NAG G 1 620 1301 NAG NAG . R 5 NAG B 1 701 1111 NAG NAG . S 5 NAG B 1 702 1118 NAG NAG . T 5 NAG B 1 703 1137 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 . . . F 5 20.463 87.799 21.038 1 104.3 ? C1 NAG 601 G 1 HETATM 2 C C2 NAG . . . F 5 19.766 86.576 20.47 1 104.14 ? C2 NAG 601 G 1 HETATM 3 C C3 NAG . . . F 5 18.898 85.927 21.541 1 105.3 ? C3 NAG 601 G 1 HETATM 4 C C4 NAG . . . F 5 19.732 85.621 22.779 1 117.71 ? C4 NAG 601 G 1 HETATM 5 C C5 NAG . . . F 5 20.464 86.876 23.25 1 115.94 ? C5 NAG 601 G 1 HETATM 6 C C6 NAG . . . F 5 21.427 86.608 24.383 1 107.02 ? C6 NAG 601 G 1 HETATM 7 C C7 NAG . . . F 5 19.449 86.868 18.054 1 109.1 ? C7 NAG 601 G 1 HETATM 8 C C8 NAG . . . F 5 18.497 87.266 16.967 1 86.88 ? C8 NAG 601 G 1 HETATM 9 N N2 NAG . . . F 5 18.972 86.923 19.302 1 101.87 ? N2 NAG 601 G 1 HETATM 10 O O3 NAG . . . F 5 18.331 84.728 21.026 1 108.64 ? O3 NAG 601 G 1 HETATM 11 O O4 NAG . . . F 5 18.893 85.147 23.825 1 113.59 ? O4 NAG 601 G 1 HETATM 12 O O5 NAG . . . F 5 21.238 87.425 22.173 1 105.45 ? O5 NAG 601 G 1 HETATM 13 O O6 NAG . . . F 5 22.153 87.778 24.738 1 85.36 ? O6 NAG 601 G 1 HETATM 14 O O7 NAG . . . F 5 20.599 86.511 17.813 1 114.96 ? O7 NAG 601 G 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 242 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 14 #