data_6IOZ # _model_server_result.job_id mUbkLyfUqRlfwLAlBEFFrg _model_server_result.datetime_utc '2024-11-14 05:08:31' _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 6ioz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":1006}' # _entry.id 6IOZ # _exptl.entry_id 6IOZ _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 2 _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 6IOZ _cell.length_a 70.825 _cell.length_b 70.825 _cell.length_c 285.697 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6IOZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 151 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 1 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 5 H N N ? 5 I N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 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 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 1 FUC NAG C1 O1 . O6 HO6 . sing 3 ? 3 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 2 n B NAG 1 B 1 NAG A 1001 NAG 2 n B NAG 2 B 2 NAG A 1002 NAG 2 n B FUC 3 B 3 FUC A 1003 FUC 3 n C NAG 1 C 1 NAG A 1004 NAG 3 n C NAG 2 C 2 NAG A 1005 NAG 3 n D NAG 1 D 1 NAG A 1008 NAG 3 n D NAG 2 D 2 NAG A 1009 NAG 2 n E NAG 1 E 1 NAG A 1010 NAG 2 n E NAG 2 E 2 NAG A 1011 NAG 2 n E FUC 3 E 3 FUC A 1012 FUC 3 n F NAG 1 F 1 NAG A 1013 NAG 3 n F NAG 2 F 2 NAG A 1014 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 138 A CYS 171 1_555 A SG CYS 151 A CYS 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 389 A CYS 422 1_555 A SG CYS 399 A CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 A C VAL 50 A VAL 83 1_555 A N ALS 51 A ALS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.299 ? covale ? covale2 A C ALS 51 A ALS 84 1_555 A N ALA 52 A ALA 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? covale ? covale3 A ND2 ASN 82 A ASN 115 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 A ND2 ASN 111 A ASN 144 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale5 A ND2 ASN 213 A ASN 246 1_555 H C1 NAG . A NAG 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale6 A ND2 ASN 247 A ASN 280 1_555 I C1 NAG . A NAG 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale7 A ND2 ASN 292 A ASN 325 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale8 A ND2 ASN 480 A ASN 513 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale9 A ND2 ASN 504 A ASN 537 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale10 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale11 B O6 NAG . B NAG 1 1_555 B C1 FUC . B FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale12 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale13 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale14 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale15 E O6 NAG . E NAG 1 1_555 E C1 FUC . E FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale16 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? metalc ? metalc1 A OD1 ASP 12 A ASP 45 1_555 G CA CA . A CA 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? metalc ? metalc2 A OD1 ASP 13 A ASP 46 1_555 G CA CA . A CA 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc3 A OS1 ALS 51 A ALS 84 1_555 G CA CA . A CA 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc4 A OS3 ALS 51 A ALS 84 1_555 G CA CA . A CA 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.44 ? metalc ? metalc5 A OD2 ASP 301 A ASP 334 1_555 G CA CA . A CA 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? # _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 276 n n C1 O1 NAG sing 277 n n C1 O5 NAG sing 278 n n C1 H1 NAG sing 279 n n C2 C3 NAG sing 280 n n C2 N2 NAG sing 281 n n C2 H2 NAG sing 282 n n C3 C4 NAG sing 283 n n C3 O3 NAG sing 284 n n C3 H3 NAG sing 285 n n C4 C5 NAG sing 286 n n C4 O4 NAG sing 287 n n C4 H4 NAG sing 288 n n C5 C6 NAG sing 289 n n C5 O5 NAG sing 290 n n C5 H5 NAG sing 291 n n C6 O6 NAG sing 292 n n C6 H61 NAG sing 293 n n C6 H62 NAG sing 294 n n C7 C8 NAG sing 295 n n C7 N2 NAG sing 296 n n C7 O7 NAG doub 297 n n C8 H81 NAG sing 298 n n C8 H82 NAG sing 299 n n C8 H83 NAG sing 300 n n N2 HN2 NAG sing 301 n n O1 HO1 NAG sing 302 n n O3 HO3 NAG sing 303 n n O4 HO4 NAG sing 304 n n O6 HO6 NAG sing 305 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 6IOZ _atom_sites.fract_transf_matrix[1][1] 0.014119 _atom_sites.fract_transf_matrix[1][2] 0.008152 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016304 _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] 0.0035 _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 4 CA A 1 1000 1000 CA CA . H 5 NAG A 1 1006 1006 NAG NAG . I 5 NAG A 1 1007 1007 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 . . . H 5 1.41 112.407 325.271 1 115.32 ? C1 NAG 1006 A 1 HETATM 2 C C2 NAG . . . H 5 1.484 112.678 326.777 1 134.03 ? C2 NAG 1006 A 1 HETATM 3 C C3 NAG . . . H 5 0.747 113.972 327.118 1 139.21 ? C3 NAG 1006 A 1 HETATM 4 C C4 NAG . . . H 5 1.264 115.12 326.262 1 138.18 ? C4 NAG 1006 A 1 HETATM 5 C C5 NAG . . . H 5 1.185 114.748 324.786 1 129.15 ? C5 NAG 1006 A 1 HETATM 6 C C6 NAG . . . H 5 1.776 115.798 323.875 1 120.28 ? C6 NAG 1006 A 1 HETATM 7 C C7 NAG . . . H 5 1.168 111.373 328.836 1 126.73 ? C7 NAG 1006 A 1 HETATM 8 C C8 NAG . . . H 5 0.518 110.169 329.449 1 104.77 ? C8 NAG 1006 A 1 HETATM 9 N N2 NAG . . . H 5 0.935 111.564 327.533 1 136.95 ? N2 NAG 1006 A 1 HETATM 10 O O3 NAG . . . H 5 0.928 114.277 328.497 1 133.3 ? O3 NAG 1006 A 1 HETATM 11 O O4 NAG . . . H 5 0.49 116.292 326.493 1 114.82 ? O4 NAG 1006 A 1 HETATM 12 O O5 NAG . . . H 5 1.918 113.537 324.552 1 112.06 ? O5 NAG 1006 A 1 HETATM 13 O O6 NAG . . . H 5 2.846 116.491 324.503 1 147.62 ? O6 NAG 1006 A 1 HETATM 14 O O7 NAG . . . H 5 1.872 112.136 329.491 1 109.58 ? O7 NAG 1006 A 1 HETATM 15 H H2 NAG . . . H 5 2.422 112.79 327.024 1 160.84 ? H2 NAG 1006 A 1 HETATM 16 H H3 NAG . . . H 5 -0.205 113.849 326.943 1 167.05 ? H3 NAG 1006 A 1 HETATM 17 H H4 NAG . . . H 5 2.194 115.3 326.497 1 165.82 ? H4 NAG 1006 A 1 HETATM 18 H H5 NAG . . . H 5 0.25 114.606 324.544 1 154.98 ? H5 NAG 1006 A 1 HETATM 19 H H61 NAG . . . H 5 2.109 115.366 323.065 1 144.33 ? H61 NAG 1006 A 1 HETATM 20 H H62 NAG . . . H 5 1.081 116.438 323.632 1 144.33 ? H62 NAG 1006 A 1 HETATM 21 H H81 NAG . . . H 5 0.749 110.121 330.396 1 125.72 ? H81 NAG 1006 A 1 HETATM 22 H H82 NAG . . . H 5 0.832 109.364 328.996 1 125.72 ? H82 NAG 1006 A 1 HETATM 23 H H83 NAG . . . H 5 -0.451 110.239 329.354 1 125.72 ? H83 NAG 1006 A 1 HETATM 24 H HN2 NAG . . . H 5 0.404 110.965 327.097 1 164.34 ? HN2 NAG 1006 A 1 HETATM 25 H HO3 NAG . . . H 5 1.194 115.12 328.581 1 159.96 ? HO3 NAG 1006 A 1 HETATM 26 H HO4 NAG . . . H 5 0.966 117.009 326.274 1 137.78 ? HO4 NAG 1006 A 1 HETATM 27 H HO6 NAG . . . H 5 3.59 116.375 324.034 1 177.15 ? HO6 NAG 1006 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #