data_3ZP3 # _model_server_result.job_id j204IMOCvCnV3KqgypF_-w _model_server_result.datetime_utc '2024-11-23 08:29:48' _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 3zp3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1327}' # _entry.id 3ZP3 # _exptl.entry_id 3ZP3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 180.156 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description beta-D-galactopyranose _entity.pdbx_number_of_molecules 1 _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 3ZP3 _cell.length_a 101.07 _cell.length_b 101.07 _cell.length_c 449.21 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3ZP3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 2_565 -y,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -50.535 87.529188 0 3 'crystal symmetry operation' 3_455 -x+y-1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -101.07 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 20 E CYS 8 1_555 B SG CYS 137 F CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? disulf ? disulf2 A SG CYS 58 E CYS 46 1_555 A SG CYS 290 E CYS 278 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf3 A SG CYS 71 E CYS 59 1_555 A SG CYS 83 E CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.513 ? disulf ? disulf4 A SG CYS 106 E CYS 94 1_555 A SG CYS 151 E CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? disulf ? disulf5 A SG CYS 294 E CYS 282 1_555 A SG CYS 318 E CYS 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf6 B SG CYS 144 F CYS 144 1_555 B SG CYS 148 F CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? covale ? covale1 A ND2 ASN 27 E ASN 15 1_555 E C1 NAG . F NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 A ND2 ASN 39 E ASN 27 1_555 F C1 NAG . F NAG 411 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.75 ? # _chem_comp.formula 'C6 H12 O6' _chem_comp.formula_weight 180.156 _chem_comp.id GAL _chem_comp.mon_nstd_flag . _chem_comp.name beta-D-galactopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms beta-D-galactose;D-galactose;galactose # 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 GAL sing 83 n n C1 O1 GAL sing 84 n n C1 O5 GAL sing 85 n n C1 H1 GAL sing 86 n n C2 C3 GAL sing 87 n n C2 O2 GAL sing 88 n n C2 H2 GAL sing 89 n n C3 C4 GAL sing 90 n n C3 O3 GAL sing 91 n n C3 H3 GAL sing 92 n n C4 C5 GAL sing 93 n n C4 O4 GAL sing 94 n n C4 H4 GAL sing 95 n n C5 C6 GAL sing 96 n n C5 O5 GAL sing 97 n n C5 H5 GAL sing 98 n n C6 O6 GAL sing 99 n n C6 H61 GAL sing 100 n n C6 H62 GAL sing 101 n n O1 HO1 GAL sing 102 n n O2 HO2 GAL sing 103 n n O3 HO3 GAL sing 104 n n O4 HO4 GAL sing 105 n n O6 HO6 GAL sing 106 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 GAL DGalpb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 GAL b-D-galactopyranose 'COMMON NAME' GMML 1 GAL b-D-Galp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 GAL Gal 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 3ZP3 _atom_sites.fract_transf_matrix[1][1] 0.009894 _atom_sites.fract_transf_matrix[1][2] 0.005712 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011425 _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] 0.002226 _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 SIA E 1 1326 1326 SIA SIA . D 4 GAL E 1 1327 1327 GAL GAL . E 5 NAG F 1 401 401 NAG NAG . F 5 NAG F 1 411 411 NAG NAG . G 6 HOH E 1 2001 2001 HOH HOH . G 6 HOH E 2 2002 2002 HOH HOH . G 6 HOH E 3 2003 2003 HOH HOH . G 6 HOH E 4 2004 2004 HOH HOH . G 6 HOH E 5 2005 2005 HOH HOH . G 6 HOH E 6 2006 2006 HOH HOH . G 6 HOH E 7 2007 2007 HOH HOH . G 6 HOH E 8 2008 2008 HOH HOH . G 6 HOH E 9 2009 2009 HOH HOH . G 6 HOH E 10 2010 2010 HOH HOH . G 6 HOH E 11 2011 2011 HOH HOH . G 6 HOH E 12 2012 2012 HOH HOH . G 6 HOH E 13 2013 2013 HOH HOH . G 6 HOH E 14 2014 2014 HOH HOH . G 6 HOH E 15 2015 2015 HOH HOH . G 6 HOH E 16 2016 2016 HOH HOH . G 6 HOH E 17 2017 2017 HOH HOH . G 6 HOH E 18 2018 2018 HOH HOH . G 6 HOH E 19 2019 2019 HOH HOH . G 6 HOH E 20 2020 2020 HOH HOH . G 6 HOH E 21 2021 2021 HOH HOH . G 6 HOH E 22 2022 2022 HOH HOH . G 6 HOH E 23 2023 2023 HOH HOH . G 6 HOH E 24 2024 2024 HOH HOH . G 6 HOH E 25 2025 2025 HOH HOH . G 6 HOH E 26 2026 2026 HOH HOH . G 6 HOH E 27 2027 2027 HOH HOH . G 6 HOH E 28 2028 2028 HOH HOH . G 6 HOH E 29 2029 2029 HOH HOH . G 6 HOH E 30 2030 2030 HOH HOH . G 6 HOH E 31 2031 2031 HOH HOH . G 6 HOH E 32 2032 2032 HOH HOH . G 6 HOH E 33 2033 2033 HOH HOH . G 6 HOH E 34 2034 2034 HOH HOH . G 6 HOH E 35 2035 2035 HOH HOH . G 6 HOH E 36 2036 2036 HOH HOH . H 6 HOH F 1 2001 2001 HOH HOH . H 6 HOH F 2 2002 2002 HOH HOH . H 6 HOH F 3 2003 2003 HOH HOH . H 6 HOH F 4 2004 2004 HOH HOH . H 6 HOH F 5 2005 2005 HOH HOH . H 6 HOH F 6 2006 2006 HOH HOH . H 6 HOH F 7 2007 2007 HOH HOH . H 6 HOH F 8 2008 2008 HOH HOH . H 6 HOH F 9 2009 2009 HOH HOH . H 6 HOH F 10 2010 2010 HOH HOH . H 6 HOH F 11 2011 2011 HOH HOH . H 6 HOH F 12 2012 2012 HOH HOH . H 6 HOH F 13 2013 2013 HOH HOH . H 6 HOH F 14 2014 2014 HOH HOH . H 6 HOH F 15 2015 2015 HOH HOH . H 6 HOH F 16 2016 2016 HOH HOH . H 6 HOH F 17 2017 2017 HOH HOH . H 6 HOH F 18 2018 2018 HOH HOH . H 6 HOH F 19 2019 2019 HOH HOH . H 6 HOH F 20 2020 2020 HOH HOH . H 6 HOH F 21 2021 2021 HOH HOH . H 6 HOH F 22 2022 2022 HOH HOH . H 6 HOH F 23 2023 2023 HOH HOH . H 6 HOH F 24 2024 2024 HOH HOH . H 6 HOH F 25 2025 2025 HOH HOH . H 6 HOH F 26 2026 2026 HOH HOH . H 6 HOH F 27 2027 2027 HOH HOH . H 6 HOH F 28 2028 2028 HOH HOH . H 6 HOH F 29 2029 2029 HOH HOH . H 6 HOH F 30 2030 2030 HOH HOH . H 6 HOH F 31 2031 2031 HOH HOH . H 6 HOH F 32 2032 2032 HOH HOH . H 6 HOH F 33 2033 2033 HOH HOH . H 6 HOH F 34 2034 2034 HOH HOH . H 6 HOH F 35 2035 2035 HOH HOH . H 6 HOH F 36 2036 2036 HOH HOH . H 6 HOH F 37 2037 2037 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol O _atom_site.label_atom_id O3 _atom_site.label_comp_id GAL _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 4 _atom_site.Cartn_x -20.746 _atom_site.Cartn_y 28.18 _atom_site.Cartn_z 98.188 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 120.92 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id O3 _atom_site.auth_comp_id GAL _atom_site.auth_seq_id 1327 _atom_site.auth_asym_id E _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 411 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 1 #