data_4BDO # _model_server_result.job_id '_FX0ixMGeQYgMfuoY4rpSQ' _model_server_result.datetime_utc '2024-11-17 07:51:28' _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 4bdo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":902}' # _entry.id 4BDO # _exptl.entry_id 4BDO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 4BDO _cell.length_a 85.838 _cell.length_b 99.819 _cell.length_c 124.986 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4BDO _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H,N,O 1 1 C,D,I,J,K,L,M,P,Q 2 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 ? 3 F N N ? 3 H N N ? 3 J N N ? 3 M 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 B SG CYS 203 B CYS 750 1_555 B SG CYS 257 B CYS 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 D SG CYS 203 D CYS 750 1_555 D SG CYS 257 D CYS 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc1 A O GLU 97 A GLU 524 1_555 F NA NA . A NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? metalc ? metalc2 A OE2 GLU 97 A GLU 524 1_555 F NA NA . A NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? metalc ? metalc3 A O ILE 100 A ILE 527 1_555 F NA NA . A NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc4 A OD1 ASP 101 A ASP 528 1_555 F NA NA . A NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? metalc ? metalc5 A OD2 ASP 229 A ASP 776 1_555 H NA NA . B NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.113 ? metalc ? metalc6 A OD1 ASP 229 A ASP 776 1_555 H NA NA . B NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.897 ? metalc ? metalc7 F NA NA . A NA 902 1_555 B OD2 ASP 229 B ASP 776 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.149 ? metalc ? metalc8 F NA NA . A NA 902 1_555 B OD1 ASP 229 B ASP 776 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.894 ? metalc ? metalc9 B O GLU 97 B GLU 524 1_555 H NA NA . B NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? metalc ? metalc10 B OE2 GLU 97 B GLU 524 1_555 H NA NA . B NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc11 B O ILE 100 B ILE 527 1_555 H NA NA . B NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.361 ? metalc ? metalc12 B OD1 ASP 101 B ASP 528 1_555 H NA NA . B NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? metalc ? metalc13 C O GLU 97 C GLU 524 1_555 J NA NA . C NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc14 C OE2 GLU 97 C GLU 524 1_555 J NA NA . C NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.405 ? metalc ? metalc15 C O ILE 100 C ILE 527 1_555 J NA NA . C NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc16 C OD1 ASP 101 C ASP 528 1_555 J NA NA . C NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? metalc ? metalc17 C OD2 ASP 229 C ASP 776 1_555 M NA NA . D NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.964 ? metalc ? metalc18 C OD1 ASP 229 C ASP 776 1_555 M NA NA . D NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.996 ? metalc ? metalc19 J NA NA . C NA 902 1_555 D OD2 ASP 229 D ASP 776 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.016 ? metalc ? metalc20 J NA NA . C NA 902 1_555 D OD1 ASP 229 D ASP 776 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.839 ? metalc ? metalc21 D OE2 GLU 97 D GLU 524 1_555 M NA NA . D NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc22 D O GLU 97 D GLU 524 1_555 M NA NA . D NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? metalc ? metalc23 D O ILE 100 D ILE 527 1_555 M NA NA . D NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc24 D OD1 ASP 101 D ASP 528 1_555 M NA NA . D NA 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 4BDO _atom_sites.fract_transf_matrix[1][1] 0.01165 _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] 0.010018 _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] 0.008001 _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 2 KAI A 1 900 900 KAI KAI . F 3 NA A 1 902 902 NA NA . G 2 KAI B 1 900 900 KAI KAI . H 3 NA B 1 902 902 NA NA . I 2 KAI C 1 900 900 KAI KAI . J 3 NA C 1 902 902 NA NA . K 2 KAI D 1 900 900 KAI KAI . L 4 GLU D 1 901 901 GLU GLU . M 3 NA D 1 902 902 NA NA . N 5 HOH A 1 2001 2001 HOH HOH . N 5 HOH A 2 2002 2002 HOH HOH . N 5 HOH A 3 2003 2003 HOH HOH . N 5 HOH A 4 2004 2004 HOH HOH . N 5 HOH A 5 2005 2005 HOH HOH . N 5 HOH A 6 2006 2006 HOH HOH . N 5 HOH A 7 2007 2007 HOH HOH . N 5 HOH A 8 2008 2008 HOH HOH . N 5 HOH A 9 2009 2009 HOH HOH . N 5 HOH A 10 2010 2010 HOH HOH . N 5 HOH A 11 2011 2011 HOH HOH . N 5 HOH A 12 2012 2012 HOH HOH . N 5 HOH A 13 2013 2013 HOH HOH . N 5 HOH A 14 2014 2014 HOH HOH . N 5 HOH A 15 2015 2015 HOH HOH . N 5 HOH A 16 2016 2016 HOH HOH . N 5 HOH A 17 2017 2017 HOH HOH . N 5 HOH A 18 2018 2018 HOH HOH . N 5 HOH A 19 2019 2019 HOH HOH . N 5 HOH A 20 2020 2020 HOH HOH . N 5 HOH A 21 2021 2021 HOH HOH . N 5 HOH A 22 2022 2022 HOH HOH . N 5 HOH A 23 2023 2023 HOH HOH . N 5 HOH A 24 2024 2024 HOH HOH . N 5 HOH A 25 2025 2025 HOH HOH . N 5 HOH A 26 2026 2026 HOH HOH . N 5 HOH A 27 2027 2027 HOH HOH . N 5 HOH A 28 2028 2028 HOH HOH . N 5 HOH A 29 2029 2029 HOH HOH . N 5 HOH A 30 2030 2030 HOH HOH . N 5 HOH A 31 2031 2031 HOH HOH . N 5 HOH A 32 2032 2032 HOH HOH . N 5 HOH A 33 2033 2033 HOH HOH . N 5 HOH A 34 2034 2034 HOH HOH . N 5 HOH A 35 2035 2035 HOH HOH . N 5 HOH A 36 2036 2036 HOH HOH . N 5 HOH A 37 2037 2037 HOH HOH . N 5 HOH A 38 2038 2038 HOH HOH . N 5 HOH A 39 2039 2039 HOH HOH . N 5 HOH A 40 2040 2040 HOH HOH . N 5 HOH A 41 2041 2041 HOH HOH . N 5 HOH A 42 2042 2042 HOH HOH . N 5 HOH A 43 2043 2043 HOH HOH . N 5 HOH A 44 2044 2044 HOH HOH . N 5 HOH A 45 2045 2045 HOH HOH . N 5 HOH A 46 2046 2046 HOH HOH . N 5 HOH A 47 2047 2047 HOH HOH . N 5 HOH A 48 2048 2048 HOH HOH . N 5 HOH A 49 2049 2049 HOH HOH . N 5 HOH A 50 2050 2050 HOH HOH . O 5 HOH B 1 2001 2001 HOH HOH . O 5 HOH B 2 2002 2002 HOH HOH . O 5 HOH B 3 2003 2003 HOH HOH . O 5 HOH B 4 2004 2004 HOH HOH . O 5 HOH B 5 2005 2005 HOH HOH . O 5 HOH B 6 2006 2006 HOH HOH . O 5 HOH B 7 2007 2007 HOH HOH . O 5 HOH B 8 2008 2008 HOH HOH . O 5 HOH B 9 2009 2009 HOH HOH . O 5 HOH B 10 2010 2010 HOH HOH . O 5 HOH B 11 2011 2011 HOH HOH . O 5 HOH B 12 2012 2012 HOH HOH . O 5 HOH B 13 2013 2013 HOH HOH . O 5 HOH B 14 2014 2014 HOH HOH . O 5 HOH B 15 2015 2015 HOH HOH . O 5 HOH B 16 2016 2016 HOH HOH . O 5 HOH B 17 2017 2017 HOH HOH . O 5 HOH B 18 2018 2018 HOH HOH . O 5 HOH B 19 2019 2019 HOH HOH . O 5 HOH B 20 2020 2020 HOH HOH . O 5 HOH B 21 2021 2021 HOH HOH . O 5 HOH B 22 2022 2022 HOH HOH . O 5 HOH B 23 2023 2023 HOH HOH . O 5 HOH B 24 2024 2024 HOH HOH . O 5 HOH B 25 2025 2025 HOH HOH . O 5 HOH B 26 2026 2026 HOH HOH . O 5 HOH B 27 2027 2027 HOH HOH . O 5 HOH B 28 2028 2028 HOH HOH . O 5 HOH B 29 2029 2029 HOH HOH . O 5 HOH B 30 2030 2030 HOH HOH . O 5 HOH B 31 2031 2031 HOH HOH . O 5 HOH B 32 2032 2032 HOH HOH . O 5 HOH B 33 2033 2033 HOH HOH . O 5 HOH B 34 2034 2034 HOH HOH . O 5 HOH B 35 2035 2035 HOH HOH . O 5 HOH B 36 2036 2036 HOH HOH . O 5 HOH B 37 2037 2037 HOH HOH . O 5 HOH B 38 2038 2038 HOH HOH . O 5 HOH B 39 2039 2039 HOH HOH . P 5 HOH C 1 2001 2001 HOH HOH . P 5 HOH C 2 2002 2002 HOH HOH . P 5 HOH C 3 2003 2003 HOH HOH . P 5 HOH C 4 2004 2004 HOH HOH . P 5 HOH C 5 2005 2005 HOH HOH . P 5 HOH C 6 2006 2006 HOH HOH . P 5 HOH C 7 2007 2007 HOH HOH . P 5 HOH C 8 2008 2008 HOH HOH . P 5 HOH C 9 2009 2009 HOH HOH . P 5 HOH C 10 2010 2010 HOH HOH . P 5 HOH C 11 2011 2011 HOH HOH . P 5 HOH C 12 2012 2012 HOH HOH . P 5 HOH C 13 2013 2013 HOH HOH . P 5 HOH C 14 2014 2014 HOH HOH . P 5 HOH C 15 2015 2015 HOH HOH . P 5 HOH C 16 2016 2016 HOH HOH . P 5 HOH C 17 2017 2017 HOH HOH . P 5 HOH C 18 2018 2018 HOH HOH . P 5 HOH C 19 2019 2019 HOH HOH . P 5 HOH C 20 2020 2020 HOH HOH . P 5 HOH C 21 2021 2021 HOH HOH . P 5 HOH C 22 2022 2022 HOH HOH . P 5 HOH C 23 2023 2023 HOH HOH . P 5 HOH C 24 2024 2024 HOH HOH . P 5 HOH C 25 2025 2025 HOH HOH . P 5 HOH C 26 2026 2026 HOH HOH . P 5 HOH C 27 2027 2027 HOH HOH . P 5 HOH C 28 2028 2028 HOH HOH . P 5 HOH C 29 2029 2029 HOH HOH . P 5 HOH C 30 2030 2030 HOH HOH . P 5 HOH C 31 2031 2031 HOH HOH . P 5 HOH C 32 2032 2032 HOH HOH . P 5 HOH C 33 2033 2033 HOH HOH . P 5 HOH C 34 2034 2034 HOH HOH . P 5 HOH C 35 2035 2035 HOH HOH . P 5 HOH C 36 2036 2036 HOH HOH . P 5 HOH C 37 2037 2037 HOH HOH . P 5 HOH C 38 2038 2038 HOH HOH . P 5 HOH C 39 2039 2039 HOH HOH . P 5 HOH C 40 2040 2040 HOH HOH . Q 5 HOH D 1 2001 2001 HOH HOH . Q 5 HOH D 2 2002 2002 HOH HOH . Q 5 HOH D 3 2003 2003 HOH HOH . Q 5 HOH D 4 2004 2004 HOH HOH . Q 5 HOH D 5 2005 2005 HOH HOH . Q 5 HOH D 6 2006 2006 HOH HOH . Q 5 HOH D 7 2007 2007 HOH HOH . Q 5 HOH D 8 2008 2008 HOH HOH . Q 5 HOH D 9 2009 2009 HOH HOH . Q 5 HOH D 10 2010 2010 HOH HOH . Q 5 HOH D 11 2011 2011 HOH HOH . Q 5 HOH D 12 2012 2012 HOH HOH . Q 5 HOH D 13 2013 2013 HOH HOH . Q 5 HOH D 14 2014 2014 HOH HOH . Q 5 HOH D 15 2015 2015 HOH HOH . Q 5 HOH D 16 2016 2016 HOH HOH . Q 5 HOH D 17 2017 2017 HOH HOH . Q 5 HOH D 18 2018 2018 HOH HOH . Q 5 HOH D 19 2019 2019 HOH HOH . Q 5 HOH D 20 2020 2020 HOH HOH . Q 5 HOH D 21 2021 2021 HOH HOH . Q 5 HOH D 22 2022 2022 HOH HOH . Q 5 HOH D 23 2023 2023 HOH HOH . Q 5 HOH D 24 2024 2024 HOH HOH . Q 5 HOH D 25 2025 2025 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id J _atom_site.label_entity_id 3 _atom_site.Cartn_x 78.659 _atom_site.Cartn_y -11.335 _atom_site.Cartn_z 10.231 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 19.23 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 902 _atom_site.auth_asym_id C _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 39 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 1 #