data_4IRZ # _model_server_result.job_id h3G4zSfWjZ4InxGtXkTIqw _model_server_result.datetime_utc '2024-10-11 21:47:48' _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 4irz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":3505}' # _entry.id 4IRZ # _exptl.entry_id 4IRZ _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 4 _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 4IRZ _cell.length_a 73.61 _cell.length_b 77.89 _cell.length_c 217.74 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4IRZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P _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 ? 6 H N N ? 6 I N N ? 6 J N N ? 6 K N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type 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 # 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 B 1 NAG A 3196 NAG 4 n D NAG 2 B 2 NAG A 3197 NAG 4 n D BMA 3 B 3 BMA A 3198 BMA # 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 58 A CYS 58 1_555 A SG CYS 68 A CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 81 A CYS 81 1_555 A SG CYS 85 A CYS 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 111 A CYS 111 1_555 A SG CYS 132 A CYS 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 150 A CYS 150 1_555 A SG CYS 165 A CYS 165 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 A SG CYS 453 A CYS 453 1_555 A SG CYS 462 A CYS 462 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 A SG CYS 468 A CYS 468 1_555 A SG CYS 524 A CYS 524 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 B SG CYS 23 L CYS 23 1_555 B SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf8 B SG CYS 133 L CYS 133 1_555 B SG CYS 193 L CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf9 C SG CYS 22 H CYS 22 1_555 C SG CYS 96 H CYS 96 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.033 ? disulf ? disulf10 C SG CYS 22 H CYS 22 1_555 C SG CYS 96 H CYS 96 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.034 ? disulf ? disulf11 C SG CYS 150 H CYS 150 1_555 C SG CYS 206 H CYS 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A ND2 ASN 46 A ASN 46 1_555 H C1 NAG . A NAG 3046 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale2 A ND2 ASN 105 A ASN 105 1_555 I C1 NAG . A NAG 3105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 A ND2 ASN 196 A ASN 196 1_555 D C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 A ND2 ASN 485 A ASN 485 1_555 J C1 NAG . A NAG 3485 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale5 A ND2 ASN 505 A ASN 505 1_555 K C1 NAG . A NAG 3505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale6 D O4 NAG . B NAG 1 1_555 D C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale7 D O4 NAG . B NAG 2 1_555 D C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? metalc ? metalc1 A OD1 ASP 281 A ASP 281 1_555 E CA CA . A CA 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc2 A OD1 ASN 283 A ASN 283 1_555 E CA CA . A CA 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc3 A OD1 ASP 285 A ASP 285 1_555 E CA CA . A CA 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? metalc ? metalc4 A O PHE 287 A PHE 287 1_555 E CA CA . A CA 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? metalc ? metalc5 A OD2 ASP 289 A ASP 289 1_555 E CA CA . A CA 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? metalc ? metalc6 A OD1 ASP 289 A ASP 289 1_555 E CA CA . A CA 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc7 A OD1 ASP 344 A ASP 344 1_555 F CA CA . A CA 2006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc8 A OD1 ASP 346 A ASP 346 1_555 F CA CA . A CA 2006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc9 A OD1 ASP 348 A ASP 348 1_555 F CA CA . A CA 2006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc10 A O PHE 350 A PHE 350 1_555 F CA CA . A CA 2006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc11 A OD1 ASP 352 A ASP 352 1_555 F CA CA . A CA 2006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc12 A OD2 ASP 352 A ASP 352 1_555 F CA CA . A CA 2006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc13 A OD1 ASP 406 A ASP 406 1_555 G CA CA . A CA 2007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc14 A OD1 ASP 408 A ASP 408 1_555 G CA CA . A CA 2007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc15 A OD1 ASN 410 A ASN 410 1_555 G CA CA . A CA 2007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc16 A O TYR 412 A TYR 412 1_555 G CA CA . A CA 2007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? metalc ? metalc17 A OD1 ASP 414 A ASP 414 1_555 G CA CA . A CA 2007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? metalc ? metalc18 A OD2 ASP 414 A ASP 414 1_555 G CA CA . A CA 2007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.394 ? metalc ? metalc19 O O HOH . A HOH 701 1_555 E CA CA . A CA 2005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? metalc ? metalc20 O O HOH . A HOH 702 1_555 F CA CA . A CA 2006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? metalc ? metalc21 O O HOH . A HOH 703 1_555 G CA CA . A CA 2007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc22 C O PHE 64 H PHE 64 1_555 N NA NA . H NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.979 ? metalc ? metalc23 C O GLN 65 H GLN 65 1_555 N NA NA . H NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? # _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 ? # 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 4IRZ _atom_sites.fract_transf_matrix[1][1] 0.013585 _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] 0.012839 _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] 0.004593 _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 E 5 CA A 1 2005 2005 CA CA . F 5 CA A 1 2006 2006 CA CA . G 5 CA A 1 2007 2007 CA CA . H 6 NAG A 1 3046 3046 NAG NAG . I 6 NAG A 1 3105 3105 NAG NAG . J 6 NAG A 1 3485 3485 NAG NAG . K 6 NAG A 1 3505 3505 NAG NAG . L 7 PEG A 1 611 9 PEG PEG . M 8 NDS A 1 612 20 NDS NDS . N 9 NA H 1 301 27 NA NA . O 10 HOH A 1 701 1 HOH HOH . O 10 HOH A 2 702 2 HOH HOH . O 10 HOH A 3 703 19 HOH HOH . O 10 HOH A 4 704 10 HOH HOH . O 10 HOH A 5 705 12 HOH HOH . O 10 HOH A 6 706 22 HOH HOH . O 10 HOH A 7 707 24 HOH HOH . O 10 HOH A 8 708 25 HOH HOH . O 10 HOH A 9 709 26 HOH HOH . P 10 HOH L 1 301 14 HOH HOH . P 10 HOH L 2 302 15 HOH HOH . P 10 HOH L 3 303 17 HOH HOH . P 10 HOH L 4 304 21 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 . . . K 6 18.049 -13.854 30.829 0.68 42.74 ? C1 NAG 3505 A 1 HETATM 2 C C2 NAG . . . K 6 18.174 -13.917 32.346 0.68 47.51 ? C2 NAG 3505 A 1 HETATM 3 C C3 NAG . . . K 6 17.2 -14.936 32.921 0.68 50.76 ? C3 NAG 3505 A 1 HETATM 4 C C4 NAG . . . K 6 15.794 -14.701 32.383 0.68 54.03 ? C4 NAG 3505 A 1 HETATM 5 C C5 NAG . . . K 6 15.796 -14.529 30.867 0.68 52.09 ? C5 NAG 3505 A 1 HETATM 6 C C6 NAG . . . K 6 14.41 -14.153 30.354 0.68 53.25 ? C6 NAG 3505 A 1 HETATM 7 C C7 NAG . . . K 6 20.297 -13.419 33.424 0.68 44.63 ? C7 NAG 3505 A 1 HETATM 8 C C8 NAG . . . K 6 21.625 -13.941 33.887 0.68 43.54 ? C8 NAG 3505 A 1 HETATM 9 N N2 NAG . . . K 6 19.533 -14.257 32.725 0.68 47.42 ? N2 NAG 3505 A 1 HETATM 10 O O3 NAG . . . K 6 17.189 -14.831 34.328 0.68 49.69 ? O3 NAG 3505 A 1 HETATM 11 O O4 NAG . . . K 6 14.966 -15.79 32.727 0.68 56.04 ? O4 NAG 3505 A 1 HETATM 12 O O5 NAG . . . K 6 16.72 -13.535 30.482 0.68 47.23 ? O5 NAG 3505 A 1 HETATM 13 O O6 NAG . . . K 6 14.474 -13.917 28.965 0.68 53.17 ? O6 NAG 3505 A 1 HETATM 14 O O7 NAG . . . K 6 19.959 -12.269 33.694 0.68 42.63 ? O7 NAG 3505 A 1 HETATM 15 H H1 NAG . . . K 6 18.314 -14.821 30.402 0.68 51.29 ? H1 NAG 3505 A 1 HETATM 16 H H2 NAG . . . K 6 17.937 -12.933 32.751 0.68 57.01 ? H2 NAG 3505 A 1 HETATM 17 H H3 NAG . . . K 6 17.536 -15.932 32.634 0.68 60.91 ? H3 NAG 3505 A 1 HETATM 18 H H4 NAG . . . K 6 15.402 -13.79 32.835 0.68 64.84 ? H4 NAG 3505 A 1 HETATM 19 H H5 NAG . . . K 6 16.083 -15.478 30.415 0.68 62.51 ? H5 NAG 3505 A 1 HETATM 20 H H61 NAG . . . K 6 14.052 -13.272 30.887 0.68 63.9 ? H61 NAG 3505 A 1 HETATM 21 H H62 NAG . . . K 6 13.715 -14.969 30.552 0.68 63.9 ? H62 NAG 3505 A 1 HETATM 22 H H81 NAG . . . K 6 21.671 -13.901 34.975 0.68 52.25 ? H81 NAG 3505 A 1 HETATM 23 H H82 NAG . . . K 6 22.422 -13.328 33.467 0.68 52.25 ? H82 NAG 3505 A 1 HETATM 24 H H83 NAG . . . K 6 21.746 -14.972 33.556 0.68 52.25 ? H83 NAG 3505 A 1 HETATM 25 H HN2 NAG . . . K 6 19.899 -15.156 32.445 0.68 56.9 ? HN2 NAG 3505 A 1 HETATM 26 H HO3 NAG . . . K 6 17.81 -14.127 34.608 0.68 59.63 ? HO3 NAG 3505 A 1 HETATM 27 H HO4 NAG . . . K 6 15.486 -16.449 33.234 0.68 67.25 ? HO4 NAG 3505 A 1 HETATM 28 H HO6 NAG . . . K 6 15.394 -14.05 28.654 0.68 63.8 ? HO6 NAG 3505 A 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 28 #