data_5E2I # _model_server_result.job_id 8u8zntZ6K16YLPHWyo1xyA _model_server_result.datetime_utc '2024-10-14 10:13:55' _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 5e2i # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 5E2I # _exptl.entry_id 5E2I _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _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 5E2I _cell.length_a 112.609 _cell.length_b 112.609 _cell.length_c 136.871 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5E2I _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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' 5_557 x-y,-y,-z+8/3 1 0 0 0 -1 0 0 0 -1 0 0 364.989333 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C 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 64 A CYS 67 1_555 A SG CYS 91 A CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf2 A SG CYS 251 A CYS 254 1_555 A SG CYS 262 A CYS 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf3 A SG CYS 399 A CYS 402 1_555 A SG CYS 518 A CYS 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? covale ? covale1 A ND2 ASN 56 A ASN 59 1_555 B C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.459 ? covale ? covale2 A ND2 ASN 413 A ASN 416 1_555 C C1 NAG . A NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? # _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 292 n n C1 O1 NAG sing 293 n n C1 O5 NAG sing 294 n n C1 H1 NAG sing 295 n n C2 C3 NAG sing 296 n n C2 N2 NAG sing 297 n n C2 H2 NAG sing 298 n n C3 C4 NAG sing 299 n n C3 O3 NAG sing 300 n n C3 H3 NAG sing 301 n n C4 C5 NAG sing 302 n n C4 O4 NAG sing 303 n n C4 H4 NAG sing 304 n n C5 C6 NAG sing 305 n n C5 O5 NAG sing 306 n n C5 H5 NAG sing 307 n n C6 O6 NAG sing 308 n n C6 H61 NAG sing 309 n n C6 H62 NAG sing 310 n n C7 C8 NAG sing 311 n n C7 N2 NAG sing 312 n n C7 O7 NAG doub 313 n n C8 H81 NAG sing 314 n n C8 H82 NAG sing 315 n n C8 H83 NAG sing 316 n n N2 HN2 NAG sing 317 n n O1 HO1 NAG sing 318 n n O3 HO3 NAG sing 319 n n O4 HO4 NAG sing 320 n n O6 HO6 NAG sing 321 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 5E2I _atom_sites.fract_transf_matrix[1][1] 0.00888 _atom_sites.fract_transf_matrix[1][2] 0.005127 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010254 _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] 0.007306 _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 B 2 NAG A 1 601 1539 NAG NAG . C 2 NAG A 1 602 1540 NAG NAG . D 3 PEG A 1 603 701 PEG PEG . E 3 PEG A 1 604 702 PEG PEG . F 4 DME A 1 605 999 DME DME . G 5 HOH A 1 701 2005 HOH HOH . G 5 HOH A 2 702 2009 HOH HOH . G 5 HOH A 3 703 2010 HOH HOH . G 5 HOH A 4 704 2041 HOH HOH . G 5 HOH A 5 705 2012 HOH HOH . G 5 HOH A 6 706 2008 HOH HOH . G 5 HOH A 7 707 2001 HOH HOH . G 5 HOH A 8 708 2006 HOH HOH . G 5 HOH A 9 709 2007 HOH HOH . G 5 HOH A 10 710 2046 HOH HOH . G 5 HOH A 11 711 2013 HOH HOH . G 5 HOH A 12 712 2026 HOH HOH . G 5 HOH A 13 713 2004 HOH HOH . G 5 HOH A 14 714 2029 HOH HOH . G 5 HOH A 15 715 2035 HOH HOH . G 5 HOH A 16 716 2045 HOH HOH . G 5 HOH A 17 717 2036 HOH HOH . G 5 HOH A 18 718 2040 HOH HOH . G 5 HOH A 19 719 2038 HOH HOH . G 5 HOH A 20 720 2002 HOH HOH . G 5 HOH A 21 721 2030 HOH HOH . G 5 HOH A 22 722 2019 HOH HOH . G 5 HOH A 23 723 2014 HOH HOH . G 5 HOH A 24 724 2037 HOH HOH . G 5 HOH A 25 725 2003 HOH HOH . G 5 HOH A 26 726 2039 HOH HOH . G 5 HOH A 27 727 2044 HOH HOH . G 5 HOH A 28 728 2022 HOH HOH . G 5 HOH A 29 729 2028 HOH HOH . G 5 HOH A 30 730 2032 HOH HOH . G 5 HOH A 31 731 2017 HOH HOH . G 5 HOH A 32 732 2031 HOH HOH . G 5 HOH A 33 733 2042 HOH HOH . G 5 HOH A 34 734 2021 HOH HOH . G 5 HOH A 35 735 2020 HOH HOH . G 5 HOH A 36 736 2043 HOH HOH . G 5 HOH A 37 737 2023 HOH HOH . G 5 HOH A 38 738 2016 HOH HOH . G 5 HOH A 39 739 2011 HOH HOH . G 5 HOH A 40 740 2033 HOH HOH . G 5 HOH A 41 741 2027 HOH HOH . G 5 HOH A 42 742 2034 HOH HOH . G 5 HOH A 43 743 2048 HOH HOH . G 5 HOH A 44 744 2025 HOH HOH . G 5 HOH A 45 745 2049 HOH HOH . G 5 HOH A 46 746 2018 HOH HOH . G 5 HOH A 47 747 2047 HOH HOH . G 5 HOH A 48 748 2024 HOH HOH . G 5 HOH A 49 749 2015 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 . . . B 2 64.644 57.6 162.996 1 37.55 ? C1 NAG 601 A 1 HETATM 2 C C2 NAG . . . B 2 65.398 57.883 164.332 1 38.68 ? C2 NAG 601 A 1 HETATM 3 C C3 NAG . . . B 2 65.966 59.316 164.447 1 38.43 ? C3 NAG 601 A 1 HETATM 4 C C4 NAG . . . B 2 66.395 59.909 163.108 1 37.94 ? C4 NAG 601 A 1 HETATM 5 C C5 NAG . . . B 2 65.38 59.571 162.019 1 37.52 ? C5 NAG 601 A 1 HETATM 6 C C6 NAG . . . B 2 65.72 60.147 160.652 1 36.78 ? C6 NAG 601 A 1 HETATM 7 C C7 NAG . . . B 2 64.747 57.586 166.776 1 40.18 ? C7 NAG 601 A 1 HETATM 8 C C8 NAG . . . B 2 66.037 58.116 167.338 1 40.09 ? C8 NAG 601 A 1 HETATM 9 N N2 NAG . . . B 2 64.52 57.511 165.448 1 39.74 ? N2 NAG 601 A 1 HETATM 10 O O3 NAG . . . B 2 67.12 59.373 165.258 1 39.2 ? O3 NAG 601 A 1 HETATM 11 O O4 NAG . . . B 2 66.554 61.299 163.263 1 37.86 ? O4 NAG 601 A 1 HETATM 12 O O5 NAG . . . B 2 65.376 58.169 161.929 1 37.9 ? O5 NAG 601 A 1 HETATM 13 O O6 NAG . . . B 2 64.503 60.467 160.024 1 35.75 ? O6 NAG 601 A 1 HETATM 14 O O7 NAG . . . B 2 63.885 57.213 167.581 1 39.57 ? O7 NAG 601 A 1 # _model_server_stats.io_time_ms 209 _model_server_stats.parse_time_ms 110 _model_server_stats.create_model_time_ms 43 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #