data_8SZI # _model_server_result.job_id E4U1Sl-qndjQ-7W_F4Cmew _model_server_result.datetime_utc '2024-12-21 18:07:49' _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 8szi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":1002}' # _entry.id 8SZI # _exptl.entry_id 8SZI _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 8 _entity.src_method syn _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 90 _cell.angle_gamma 90 _cell.entry_id 8SZI _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8SZI _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _pdbx_struct_assembly.details author_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,U,V,W _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 ? _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 ? 8 J N N ? 8 R N N ? 8 S N N # _pdbx_entity_branch.entity_id 6 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 6 _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 6 n F NAG 1 F 1 NAG A 905 NAG 6 n F NAG 2 F 2 NAG A 906 NAG 6 n G NAG 1 G 1 NAG A 907 NAG 6 n G NAG 2 G 2 NAG A 908 NAG 6 n H NAG 1 H 1 NAG B 906 NAG 6 n H NAG 2 H 2 NAG B 907 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 D SG CYS 52 A CYS 60 1_555 D SG CYS 93 A CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 D SG CYS 228 A CYS 236 1_555 D SG CYS 553 A CYS 561 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 D SG CYS 350 A CYS 358 1_555 D SG CYS 387 A CYS 395 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 D SG CYS 429 A CYS 437 1_555 D SG CYS 441 A CYS 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 D SG CYS 534 A CYS 542 1_555 D SG CYS 554 A CYS 562 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 D SG CYS 538 A CYS 546 1_555 D SG CYS 557 A CYS 565 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 D SG CYS 560 A CYS 568 1_555 D SG CYS 574 A CYS 582 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf8 D SG CYS 577 A CYS 585 1_555 D SG CYS 590 A CYS 598 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf9 D SG CYS 669 A CYS 677 1_555 D SG CYS 757 A CYS 765 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf10 E SG CYS 74 B CYS 60 1_555 E SG CYS 115 B CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf11 E SG CYS 250 B CYS 236 1_555 E SG CYS 575 B CYS 561 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf12 E SG CYS 372 B CYS 358 1_555 E SG CYS 409 B CYS 395 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf13 E SG CYS 451 B CYS 437 1_555 E SG CYS 463 B CYS 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf14 E SG CYS 556 B CYS 542 1_555 E SG CYS 576 B CYS 562 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf15 E SG CYS 560 B CYS 546 1_555 E SG CYS 579 B CYS 565 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf16 E SG CYS 582 B CYS 568 1_555 E SG CYS 596 B CYS 582 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf17 E SG CYS 599 B CYS 585 1_555 E SG CYS 612 B CYS 598 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf18 E SG CYS 691 B CYS 677 1_555 E SG CYS 779 B CYS 765 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? covale ? covale1 D ND2 ASN 460 A ASN 468 1_555 J C1 NAG . A NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 D ND2 ASN 480 A ASN 488 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale3 D ND2 ASN 533 A ASN 541 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 E ND2 ASN 482 B ASN 468 1_555 R C1 NAG . B NAG 1403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale5 E ND2 ASN 502 B ASN 488 1_555 S C1 NAG . B NAG 1404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale6 E ND2 ASN 555 B ASN 541 1_555 H C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale7 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale8 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale9 H O4 NAG . H NAG 1 1_555 H C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? metalc ? metalc1 D O SER 76 A SER 84 1_555 K CA CA . A CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.15 ? metalc ? metalc2 D O LEU 79 A LEU 87 1_555 K CA CA . A CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.596 ? metalc ? metalc3 D O LEU 80 A LEU 88 1_555 K CA CA . A CA 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.971 ? metalc ? metalc4 D OD1 ASP 226 A ASP 234 1_555 L CA CA . A CA 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.908 ? metalc ? metalc5 D O GLY 549 A GLY 557 1_555 U CA CA . B CA 1406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.12 ? metalc ? metalc6 L CA CA . A CA 1004 1_555 E O GLY 571 B GLY 557 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc7 E O LEU 102 B LEU 88 1_555 T CA CA . B CA 1405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? metalc ? metalc8 E O LEU 105 B LEU 91 1_555 T CA CA . B CA 1405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.524 ? metalc ? metalc9 E OD1 ASP 248 B ASP 234 1_555 U CA CA . B CA 1406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? metalc ? metalc10 E OD2 ASP 248 B ASP 234 1_555 U CA CA . B CA 1406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.733 ? # _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 312 n n C1 O1 NAG sing 313 n n C1 O5 NAG sing 314 n n C1 H1 NAG sing 315 n n C2 C3 NAG sing 316 n n C2 N2 NAG sing 317 n n C2 H2 NAG sing 318 n n C3 C4 NAG sing 319 n n C3 O3 NAG sing 320 n n C3 H3 NAG sing 321 n n C4 C5 NAG sing 322 n n C4 O4 NAG sing 323 n n C4 H4 NAG sing 324 n n C5 C6 NAG sing 325 n n C5 O5 NAG sing 326 n n C5 H5 NAG sing 327 n n C6 O6 NAG sing 328 n n C6 H61 NAG sing 329 n n C6 H62 NAG sing 330 n n C7 C8 NAG sing 331 n n C7 N2 NAG sing 332 n n C7 O7 NAG doub 333 n n C8 H81 NAG sing 334 n n C8 H82 NAG sing 335 n n C8 H83 NAG sing 336 n n N2 HN2 NAG sing 337 n n O1 HO1 NAG sing 338 n n O3 HO3 NAG sing 339 n n O4 HO4 NAG sing 340 n n O6 HO6 NAG sing 341 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 8SZI _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 I 7 PCW A 1 1001 901 PCW PCW . J 8 NAG A 1 1002 904 NAG NAG . K 9 CA A 1 1003 1001 CA CA . L 9 CA A 1 1004 1002 CA CA . M 10 TRP A 1 1005 1003 TRP TRP . N 11 PO4 A 1 1006 1004 PO4 PO4 . O 10 TRP A 1 1007 1100 TRP TRP . P 12 CLR B 1 1401 1401 CLR CLR . Q 7 PCW B 1 1402 901 PCW PCW . R 8 NAG B 1 1403 904 NAG NAG . S 8 NAG B 1 1404 905 NAG NAG . T 9 CA B 1 1405 1001 CA CA . U 9 CA B 1 1406 1002 CA CA . V 10 TRP B 1 1407 1003 TRP TRP . W 11 PO4 B 1 1408 1004 PO4 PO4 . # 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 . . . J 8 186.575 243.872 119.72 1 54.19 ? C1 NAG 1002 A 1 HETATM 2 C C2 NAG . . . J 8 187.325 244.306 120.979 1 54.19 ? C2 NAG 1002 A 1 HETATM 3 C C3 NAG . . . J 8 186.347 244.481 122.138 1 54.19 ? C3 NAG 1002 A 1 HETATM 4 C C4 NAG . . . J 8 185.22 245.426 121.744 1 54.19 ? C4 NAG 1002 A 1 HETATM 5 C C5 NAG . . . J 8 184.563 244.957 120.449 1 54.19 ? C5 NAG 1002 A 1 HETATM 6 C C6 NAG . . . J 8 183.517 245.917 119.932 1 54.19 ? C6 NAG 1002 A 1 HETATM 7 C C7 NAG . . . J 8 189.47 243.685 121.999 1 54.19 ? C7 NAG 1002 A 1 HETATM 8 C C8 NAG . . . J 8 190.435 242.572 122.273 1 54.19 ? C8 NAG 1002 A 1 HETATM 9 N N2 NAG . . . J 8 188.364 243.35 121.327 1 54.19 ? N2 NAG 1002 A 1 HETATM 10 O O3 NAG . . . J 8 187.036 244.991 123.274 1 54.19 ? O3 NAG 1002 A 1 HETATM 11 O O4 NAG . . . J 8 184.24 245.467 122.776 1 54.19 ? O4 NAG 1002 A 1 HETATM 12 O O5 NAG . . . J 8 185.553 244.828 119.417 1 54.19 ? O5 NAG 1002 A 1 HETATM 13 O O6 NAG . . . J 8 183.204 245.661 118.57 1 54.19 ? O6 NAG 1002 A 1 HETATM 14 O O7 NAG . . . J 8 189.681 244.835 122.37 1 54.19 ? O7 NAG 1002 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 53 _model_server_stats.create_model_time_ms 135 _model_server_stats.query_time_ms 1558 _model_server_stats.encode_time_ms 24 _model_server_stats.element_count 14 #