data_5I6X # _model_server_result.job_id Mc_A4YUTl3ZAC1RMTXtIZA _model_server_result.datetime_utc '2024-11-24 05:56:05' _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 5i6x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":701}' # _entry.id 5I6X # _exptl.entry_id 5I6X _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _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 90 _cell.entry_id 5I6X _cell.length_a 129.15 _cell.length_b 162.83 _cell.length_c 140.41 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5I6X _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 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 # 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,H,I,J,K 1 1 B,C 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' 3_455 -x-1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 -129.15 0 70.205 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 G N N # 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 127 A CYS 200 1_555 A SG CYS 136 A CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 B SG CYS 22 B CYS 41 1_555 B SG CYS 96 B CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 B SG CYS 134 B CYS 153 1_555 C SG CYS 214 C CYS 234 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 B SG CYS 146 B CYS 165 1_555 B SG CYS 201 B CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 C SG CYS 23 C CYS 43 1_555 C SG CYS 88 C CYS 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 C SG CYS 134 C CYS 154 1_555 C SG CYS 194 C CYS 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 135 A ASN 208 1_555 D C1 NAG . A NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale2 A ND2 ASN 144 A ASN 217 1_555 G C1 NAG . A NAG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.398 ? metalc ? metalc1 A O ALA 23 A ALA 96 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc2 A OD1 ASN 28 A ASN 101 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc3 A O SER 263 A SER 336 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? metalc ? metalc4 A OG SER 263 A SER 336 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? metalc ? metalc5 A OD1 ASN 295 A ASN 368 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.58 ? # _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 443 n n C1 O1 NAG sing 444 n n C1 O5 NAG sing 445 n n C1 H1 NAG sing 446 n n C2 C3 NAG sing 447 n n C2 N2 NAG sing 448 n n C2 H2 NAG sing 449 n n C3 C4 NAG sing 450 n n C3 O3 NAG sing 451 n n C3 H3 NAG sing 452 n n C4 C5 NAG sing 453 n n C4 O4 NAG sing 454 n n C4 H4 NAG sing 455 n n C5 C6 NAG sing 456 n n C5 O5 NAG sing 457 n n C5 H5 NAG sing 458 n n C6 O6 NAG sing 459 n n C6 H61 NAG sing 460 n n C6 H62 NAG sing 461 n n C7 C8 NAG sing 462 n n C7 N2 NAG sing 463 n n C7 O7 NAG doub 464 n n C8 H81 NAG sing 465 n n C8 H82 NAG sing 466 n n C8 H83 NAG sing 467 n n N2 HN2 NAG sing 468 n n O1 HO1 NAG sing 469 n n O3 HO3 NAG sing 470 n n O4 HO4 NAG sing 471 n n O6 HO6 NAG sing 472 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 5I6X _atom_sites.fract_transf_matrix[1][1] 0.007743 _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] 0.006141 _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] 0.007122 _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 D 4 NAG A 1 701 700 NAG NAG . E 5 CLR A 1 702 702 CLR CLR . F 6 LMT A 1 703 705 LMT LMT . G 4 NAG A 1 704 706 NAG NAG . H 7 8PR A 1 705 800 8PR 8PR . I 8 CL A 1 706 901 CL CL . J 9 NA A 1 707 902 NA NA . K 10 HOH A 1 1001 1001 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 . . . D 4 -55.832 -14.803 31.762 1 64.72 ? C1 NAG 701 A 1 HETATM 2 C C2 NAG . . . D 4 -55.043 -14.39 33.006 1 85.14 ? C2 NAG 701 A 1 HETATM 3 C C3 NAG . . . D 4 -55.295 -12.924 33.338 1 85.36 ? C3 NAG 701 A 1 HETATM 4 C C4 NAG . . . D 4 -54.989 -12.05 32.126 1 76.27 ? C4 NAG 701 A 1 HETATM 5 C C5 NAG . . . D 4 -55.78 -12.539 30.916 1 82.1 ? C5 NAG 701 A 1 HETATM 6 C C6 NAG . . . D 4 -55.432 -11.801 29.645 1 79.02 ? C6 NAG 701 A 1 HETATM 7 C C7 NAG . . . D 4 -54.493 -15.685 35.02 1 126.15 ? C7 NAG 701 A 1 HETATM 8 C C8 NAG . . . D 4 -55.028 -16.535 36.134 1 132.37 ? C8 NAG 701 A 1 HETATM 9 N N2 NAG . . . D 4 -55.396 -15.236 34.147 1 101.85 ? N2 NAG 701 A 1 HETATM 10 O O3 NAG . . . D 4 -54.481 -12.534 34.436 1 94.16 ? O3 NAG 701 A 1 HETATM 11 O O4 NAG . . . D 4 -55.334 -10.697 32.398 1 67.56 ? O4 NAG 701 A 1 HETATM 12 O O5 NAG . . . D 4 -55.493 -13.922 30.677 1 83.22 ? O5 NAG 701 A 1 HETATM 13 O O6 NAG . . . D 4 -55.283 -12.699 28.554 1 75.22 ? O6 NAG 701 A 1 HETATM 14 O O7 NAG . . . D 4 -53.299 -15.421 34.922 1 137.35 ? O7 NAG 701 A 1 # _model_server_stats.io_time_ms 48 _model_server_stats.parse_time_ms 30 _model_server_stats.create_model_time_ms 58 _model_server_stats.query_time_ms 950 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #