data_6ARU # _model_server_result.job_id WFSOTZ8aIhFhVpyp7PizwA _model_server_result.datetime_utc '2024-11-19 15:28:46' _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 6aru # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":709}' # _entry.id 6ARU # _exptl.entry_id 6ARU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 100.95 _cell.angle_gamma 90 _cell.entry_id 6ARU _cell.length_a 77.495 _cell.length_b 70.444 _cell.length_c 149.079 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6ARU _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 PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,F,G 1 1 B,C,H 1 2 # 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_746 -x+2,y-1/2,-z+1 -1 0 0 0 1 0 0 0 -1 126.672102 -35.222 146.364767 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 6 F N N ? 6 G N N ? 6 H N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 4 oligosaccharide 5 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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 4 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 4 5 4 MAN MAN C1 O1 . O3 HO3 . sing 5 ? 4 6 3 MAN BMA C1 O1 . O6 HO6 . sing 6 ? 4 7 6 MAN MAN C1 O1 . O3 HO3 . sing 7 ? 4 8 6 MAN MAN C1 O1 . O6 HO6 . sing 8 ? 5 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 4 n D NAG 1 D 1 NAG A 3281 NAG 4 n D NAG 2 D 2 NAG A 3282 NAG 4 n D BMA 3 D 3 BMA A 3283 BMA 4 n D MAN 4 D 4 MAN A 3285 MAN 4 n D MAN 5 D 5 MAN A 3286 MAN 4 n D MAN 6 D 6 MAN A 3284 MAN 4 n D MAN 7 D 7 MAN A 3287 MAN 4 n D MAN 8 D 8 MAN A 3288 MAN 5 n E NAG 1 E 1 NAG A 4201 NAG 5 n E NAG 2 E 2 NAG A 4202 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 7 A CYS 7 1_555 A SG CYS 34 A CYS 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 133 A CYS 133 1_555 A SG CYS 163 A CYS 163 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf3 A SG CYS 166 A CYS 166 1_555 A SG CYS 175 A CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 170 A CYS 170 1_555 A SG CYS 183 A CYS 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf5 A SG CYS 191 A CYS 191 1_555 A SG CYS 199 A CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 A SG CYS 208 A CYS 208 1_555 A SG CYS 216 A CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 A SG CYS 212 A CYS 212 1_555 A SG CYS 224 A CYS 224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf8 A SG CYS 227 A CYS 227 1_555 A SG CYS 236 A CYS 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf9 A SG CYS 240 A CYS 240 1_555 A SG CYS 267 A CYS 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf10 A SG CYS 271 A CYS 271 1_555 A SG CYS 283 A CYS 283 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf11 A SG CYS 287 A CYS 287 1_555 A SG CYS 302 A CYS 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf12 A SG CYS 305 A CYS 305 1_555 A SG CYS 309 A CYS 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf13 A SG CYS 313 A CYS 313 1_555 A SG CYS 338 A CYS 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf14 A SG CYS 446 A CYS 446 1_555 A SG CYS 475 A CYS 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf15 A SG CYS 482 A CYS 482 1_555 A SG CYS 491 A CYS 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf16 A SG CYS 486 A CYS 486 1_555 A SG CYS 499 A CYS 499 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf17 A SG CYS 502 A CYS 502 1_555 A SG CYS 511 A CYS 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf18 A SG CYS 515 A CYS 515 1_555 A SG CYS 531 A CYS 531 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf19 A SG CYS 534 A CYS 534 1_555 A SG CYS 547 A CYS 547 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf20 A SG CYS 538 A CYS 538 1_555 A SG CYS 555 A CYS 555 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf21 A SG CYS 558 A CYS 558 1_555 A SG CYS 567 A CYS 567 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf22 A SG CYS 571 A CYS 571 1_555 A SG CYS 593 A CYS 593 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf23 A SG CYS 596 A CYS 596 1_555 A SG CYS 604 A CYS 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf24 A SG CYS 600 A CYS 600 1_555 A SG CYS 612 A CYS 612 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf25 B SG CYS 23 B CYS 23 1_555 B SG CYS 88 B CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf26 B SG CYS 134 B CYS 134 1_555 B SG CYS 194 B CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf27 C SG CYS 22 C CYS 22 1_555 C SG CYS 95 C CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf28 C SG CYS 146 C CYS 146 1_555 C SG CYS 202 C CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? covale ? covale1 A ND2 ASN 328 A ASN 328 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale2 A ND2 ASN 337 A ASN 337 1_555 F C1 NAG . A NAG 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 A ND2 ASN 389 A ASN 389 1_555 G C1 NAG . A NAG 710 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale4 A ND2 ASN 420 A ASN 420 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale5 C ND2 ASN 88 C ASN 88 1_555 H C1 NAG . C NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale6 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale7 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.423 ? covale ? covale8 D O3 BMA . D BMA 3 1_555 D C1 MAN . D MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 ? covale ? covale9 D O6 BMA . D BMA 3 1_555 D C1 MAN . D MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale10 D O3 MAN . D MAN 4 1_555 D C1 MAN . D MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale11 D O3 MAN . D MAN 6 1_555 D C1 MAN . D MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale12 D O6 MAN . D MAN 6 1_555 D C1 MAN . D MAN 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale13 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? # _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 6ARU _atom_sites.fract_transf_matrix[1][1] 0.012904 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002497 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014196 _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] 0.006832 _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 6 NAG A 1 709 3371 NAG NAG . G 6 NAG A 1 710 3891 NAG NAG . H 6 NAG C 1 301 881 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 6 39.763 31.675 31.984 1 67.86 ? C1 NAG 709 A 1 HETATM 2 C C2 NAG . . . F 6 40.829 30.714 31.466 1 72.1 ? C2 NAG 709 A 1 HETATM 3 C C3 NAG . . . F 6 41.453 31.263 30.186 1 74.81 ? C3 NAG 709 A 1 HETATM 4 C C4 NAG . . . F 6 40.372 31.537 29.146 1 75.93 ? C4 NAG 709 A 1 HETATM 5 C C5 NAG . . . F 6 39.296 32.457 29.724 1 73.44 ? C5 NAG 709 A 1 HETATM 6 C C6 NAG . . . F 6 38.108 32.625 28.802 1 74.36 ? C6 NAG 709 A 1 HETATM 7 C C7 NAG . . . F 6 41.734 29.518 33.417 1 71.96 ? C7 NAG 709 A 1 HETATM 8 C C8 NAG . . . F 6 42.896 29.38 34.354 1 71.09 ? C8 NAG 709 A 1 HETATM 9 N N2 NAG . . . F 6 41.854 30.454 32.468 1 72.14 ? N2 NAG 709 A 1 HETATM 10 O O3 NAG . . . F 6 42.4 30.33 29.676 1 77.49 ? O3 NAG 709 A 1 HETATM 11 O O4 NAG . . . F 6 40.952 32.136 27.992 1 79.12 ? O4 NAG 709 A 1 HETATM 12 O O5 NAG . . . F 6 38.782 31.911 30.95 1 70.24 ? O5 NAG 709 A 1 HETATM 13 O O6 NAG . . . F 6 38.424 33.393 27.648 1 76.48 ? O6 NAG 709 A 1 HETATM 14 O O7 NAG . . . F 6 40.727 28.822 33.52 1 72.25 ? O7 NAG 709 A 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 344 _model_server_stats.encode_time_ms 19 _model_server_stats.element_count 14 #