data_4BOE # _model_server_result.job_id VruqvtI7pPwikPMJpy1wlA _model_server_result.datetime_utc '2024-11-28 13:56:13' _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 4boe # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":586}' # _entry.id 4BOE # _exptl.entry_id 4BOE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.174 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-2-METHYL-2,4-PENTANEDIOL _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 4BOE _cell.length_a 84.33 _cell.length_b 84.33 _cell.length_c 90.52 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4BOE _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 4 D N N ? 4 E N N ? 4 H N N ? 4 I N N # _pdbx_entity_branch.entity_id 2 _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 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 MAN NAG C1 O1 . O4 HO4 . sing 3 ? 2 4 1 FUC NAG C1 O1 . O6 HO6 . 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 2 n B NAG 1 B 1 NAG A 1131 NAG 2 n B NAG 2 B 2 NAG A 1133 NAG 2 n B MAN 3 B 3 MAN A 1134 MAN 2 n B FUC 4 B 4 FUC A 1132 FUC # 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 28 A CYS 28 1_555 A SG CYS 150 A CYS 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf2 A SG CYS 114 A CYS 114 1_555 A SG CYS 138 A CYS 138 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.056 ? disulf ? disulf3 A SG CYS 114 A CYS 114 1_555 A SG CYS 138 A CYS 138 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.043 ? covale ? covale1 A ND2 ASN 35 A ASN 35 1_555 K C1 NAG . A NAG 1035 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale2 A ND2 ASN 131 A ASN 131 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale3 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 ? covale ? covale4 B O6 NAG . B NAG 1 1_555 B C1 FUC . B FUC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.407 ? covale ? covale5 B O4 NAG . B NAG 2 1_555 B C1 MAN . B MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? # _chem_comp.formula 'C6 H14 O2' _chem_comp.formula_weight 118.174 _chem_comp.id MPD _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-2-METHYL-2,4-PENTANEDIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 MPD sing 371 n n C1 H11 MPD sing 372 n n C1 H12 MPD sing 373 n n C1 H13 MPD sing 374 n n C2 O2 MPD sing 375 n n C2 CM MPD sing 376 n n C2 C3 MPD sing 377 n n O2 HO2 MPD sing 378 n n CM HM1 MPD sing 379 n n CM HM2 MPD sing 380 n n CM HM3 MPD sing 381 n n C3 C4 MPD sing 382 n n C3 H31 MPD sing 383 n n C3 H32 MPD sing 384 n n C4 O4 MPD sing 385 n n C4 C5 MPD sing 386 n n C4 H4 MPD sing 387 n n O4 HO4 MPD sing 388 n n C5 H51 MPD sing 389 n n C5 H52 MPD sing 390 n n C5 H53 MPD sing 391 n n # _atom_sites.entry_id 4BOE _atom_sites.fract_transf_matrix[1][1] 0.011858 _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] 0.011858 _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] 0.011047 _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 C 3 CLR A 1 575 575 CLR CLR . D 4 MPD A 1 576 576 MPD MPD . E 4 MPD A 1 577 577 MPD MPD . F 5 IMD A 1 579 579 IMD IMD . G 5 IMD A 1 582 582 IMD IMD . H 4 MPD A 1 586 586 MPD MPD . I 4 MPD A 1 587 587 MPD MPD . J 5 IMD A 1 589 589 IMD IMD . K 6 NAG A 1 1035 1035 NAG NAG . L 7 HOH A 1 2001 2001 HOH HOH . L 7 HOH A 2 2002 2002 HOH HOH . L 7 HOH A 3 2003 2003 HOH HOH . L 7 HOH A 4 2004 2004 HOH HOH . L 7 HOH A 5 2005 2005 HOH HOH . L 7 HOH A 6 2006 2006 HOH HOH . L 7 HOH A 7 2007 2007 HOH HOH . L 7 HOH A 8 2008 2008 HOH HOH . L 7 HOH A 9 2009 2009 HOH HOH . L 7 HOH A 10 2010 2010 HOH HOH . L 7 HOH A 11 2011 2011 HOH HOH . L 7 HOH A 12 2012 2012 HOH HOH . L 7 HOH A 13 2013 2013 HOH HOH . L 7 HOH A 14 2014 2014 HOH HOH . L 7 HOH A 15 2015 2015 HOH HOH . L 7 HOH A 16 2016 2016 HOH HOH . L 7 HOH A 17 2017 2017 HOH HOH . L 7 HOH A 18 2018 2018 HOH HOH . L 7 HOH A 19 2019 2019 HOH HOH . L 7 HOH A 20 2020 2020 HOH HOH . L 7 HOH A 21 2021 2021 HOH HOH . L 7 HOH A 22 2022 2022 HOH HOH . L 7 HOH A 23 2023 2023 HOH HOH . L 7 HOH A 24 2024 2024 HOH HOH . L 7 HOH A 25 2025 2025 HOH HOH . L 7 HOH A 26 2026 2026 HOH HOH . L 7 HOH A 27 2027 2027 HOH HOH . L 7 HOH A 28 2028 2028 HOH HOH . L 7 HOH A 29 2029 2029 HOH HOH . L 7 HOH A 30 2030 2030 HOH HOH . L 7 HOH A 31 2031 2031 HOH HOH . L 7 HOH A 32 2032 2032 HOH HOH . L 7 HOH A 33 2033 2033 HOH HOH . L 7 HOH A 34 2034 2034 HOH HOH . L 7 HOH A 35 2035 2035 HOH HOH . L 7 HOH A 36 2036 2036 HOH HOH . L 7 HOH A 37 2037 2037 HOH HOH . L 7 HOH A 38 2038 2038 HOH HOH . L 7 HOH A 39 2039 2039 HOH HOH . L 7 HOH A 40 2040 2040 HOH HOH . L 7 HOH A 41 2041 2041 HOH HOH . L 7 HOH A 42 2042 2042 HOH HOH . L 7 HOH A 43 2043 2043 HOH HOH . L 7 HOH A 44 2044 2044 HOH HOH . L 7 HOH A 45 2045 2045 HOH HOH . L 7 HOH A 46 2046 2046 HOH HOH . L 7 HOH A 47 2047 2047 HOH HOH . L 7 HOH A 48 2048 2048 HOH HOH . L 7 HOH A 49 2049 2049 HOH HOH . L 7 HOH A 50 2050 2050 HOH HOH . L 7 HOH A 51 2051 2051 HOH HOH . L 7 HOH A 52 2052 2052 HOH HOH . L 7 HOH A 53 2053 2053 HOH HOH . L 7 HOH A 54 2054 2054 HOH HOH . L 7 HOH A 55 2055 2055 HOH HOH . L 7 HOH A 56 2056 2056 HOH HOH . L 7 HOH A 57 2057 2057 HOH HOH . L 7 HOH A 58 2058 2058 HOH HOH . L 7 HOH A 59 2059 2059 HOH HOH . L 7 HOH A 60 2060 2060 HOH HOH . L 7 HOH A 61 2061 2061 HOH HOH . L 7 HOH A 62 2062 2062 HOH HOH . L 7 HOH A 63 2063 2063 HOH HOH . L 7 HOH A 64 2064 2064 HOH HOH . L 7 HOH A 65 2065 2065 HOH HOH . L 7 HOH A 66 2066 2066 HOH HOH . L 7 HOH A 67 2067 2067 HOH HOH . L 7 HOH A 68 2068 2068 HOH HOH . L 7 HOH A 69 2069 2069 HOH HOH . L 7 HOH A 70 2070 2070 HOH HOH . L 7 HOH A 71 2071 2071 HOH HOH . L 7 HOH A 72 2072 2072 HOH HOH . L 7 HOH A 73 2073 2073 HOH HOH . L 7 HOH A 74 2074 2074 HOH HOH . L 7 HOH A 75 2075 2075 HOH HOH . L 7 HOH A 76 2076 2076 HOH HOH . L 7 HOH A 77 2077 2077 HOH HOH . L 7 HOH A 78 2078 2078 HOH HOH . L 7 HOH A 79 2079 2079 HOH HOH . L 7 HOH A 80 2080 2080 HOH HOH . L 7 HOH A 81 2081 2081 HOH HOH . L 7 HOH A 82 2082 2082 HOH HOH . L 7 HOH A 83 2083 2083 HOH HOH . L 7 HOH A 84 2084 2084 HOH HOH . L 7 HOH A 85 2085 2085 HOH HOH . L 7 HOH A 86 2086 2086 HOH HOH . L 7 HOH A 87 2087 2087 HOH HOH . L 7 HOH A 88 2088 2088 HOH HOH . L 7 HOH A 89 2089 2089 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 MPD . . . H 4 -4.065 25.533 13.363 1 99.82 ? C1 MPD 586 A 1 HETATM 2 C C2 MPD . . . H 4 -3.504 25.703 11.954 1 100.28 ? C2 MPD 586 A 1 HETATM 3 O O2 MPD . . . H 4 -2.176 26.25 12.072 1 99.47 ? O2 MPD 586 A 1 HETATM 4 C CM MPD . . . H 4 -4.341 26.699 11.163 1 101.02 ? CM MPD 586 A 1 HETATM 5 C C3 MPD . . . H 4 -3.498 24.319 11.248 1 100.68 ? C3 MPD 586 A 1 HETATM 6 C C4 MPD . . . H 4 -2.632 24.23 9.965 1 101.06 ? C4 MPD 586 A 1 HETATM 7 O O4 MPD . . . H 4 -1.949 22.971 9.964 1 101.6 ? O4 MPD 586 A 1 HETATM 8 C C5 MPD . . . H 4 -3.475 24.344 8.715 1 100.76 ? C5 MPD 586 A 1 HETATM 9 H H11 MPD . . . H 4 -3.999 26.457 13.937 1 99.74 ? H11 MPD 586 A 1 HETATM 10 H H12 MPD . . . H 4 -5.117 25.249 13.366 1 99.7 ? H12 MPD 586 A 1 HETATM 11 H H13 MPD . . . H 4 -3.535 24.771 13.931 1 99.78 ? H13 MPD 586 A 1 HETATM 12 H HO2 MPD . . . H 4 -1.593 25.541 12.45 1 99.46 ? HO2 MPD 586 A 1 HETATM 13 H HM1 MPD . . . H 4 -4.561 27.581 11.762 1 101.03 ? HM1 MPD 586 A 1 HETATM 14 H HM2 MPD . . . H 4 -3.832 27.035 10.262 1 101.16 ? HM2 MPD 586 A 1 HETATM 15 H HM3 MPD . . . H 4 -5.308 26.296 10.865 1 101.06 ? HM3 MPD 586 A 1 HETATM 16 H H31 MPD . . . H 4 -3.156 23.574 11.964 1 100.73 ? H31 MPD 586 A 1 HETATM 17 H H32 MPD . . . H 4 -4.518 24.009 11.025 1 100.78 ? H32 MPD 586 A 1 HETATM 18 H H4 MPD . . . H 4 -1.801 24.933 9.95 1 100.91 ? H4 MPD 586 A 1 HETATM 19 H HO4 MPD . . . H 4 -1.388 22.919 9.147 1 101.65 ? HO4 MPD 586 A 1 HETATM 20 H H51 MPD . . . H 4 -4.219 23.553 8.636 1 100.83 ? H51 MPD 586 A 1 HETATM 21 H H52 MPD . . . H 4 -4.012 25.291 8.67 1 100.72 ? H52 MPD 586 A 1 HETATM 22 H H53 MPD . . . H 4 -2.868 24.292 7.813 1 100.77 ? H53 MPD 586 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 347 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 22 #