data_1E04 # _model_server_result.job_id vDYpCpEsg-1o-aBoXL3ktw _model_server_result.datetime_utc '2024-10-24 04:20:52' _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 1e04 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":811}' # _entry.id 1E04 # _exptl.entry_id 1E04 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 94.971 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHATE ION' _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 102.29 _cell.angle_gamma 90 _cell.entry_id 1E04 _cell.length_a 62.05 _cell.length_b 99.336 _cell.length_c 88.593 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1E04 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,C,D,E,I,J,M 1 1 B,F,G,H,K,L,N 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 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id L _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide 4 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 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 5 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 6 ? 4 4 3 MAN BMA C1 O1 . O3 HO3 . sing 7 ? 4 5 3 MAN BMA 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 C NAG 1 A 1 NAG I 801 NAG 2 n C NAG 2 A 2 NAG I 802 NAG 2 n D NAG 1 B 1 NAG I 841 NAG 2 n D NAG 2 B 2 NAG I 842 NAG 3 n E NAG 1 C 1 NAG I 861 NAG 3 n E NAG 2 C 2 NAG I 862 NAG 3 n E BMA 3 C 3 BMA I 863 BMA 2 n F NAG 1 D 1 NAG L 801 NAG 2 n F NAG 2 D 2 NAG L 802 NAG 2 n G NAG 1 E 1 NAG L 841 NAG 2 n G NAG 2 E 2 NAG L 842 NAG 4 n H NAG 1 F 1 NAG L 861 NAG 4 n H NAG 2 F 2 NAG L 862 NAG 4 n H BMA 3 F 3 BMA L 863 BMA 4 n H MAN 4 F 4 MAN L 868 MAN 4 n H MAN 5 F 5 MAN L 864 MAN # 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 8 I CYS 8 1_555 A SG CYS 128 I CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 A SG CYS 21 I CYS 21 1_555 A SG CYS 95 I CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 247 I CYS 247 1_555 A SG CYS 430 I CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf4 B SG CYS 8 L CYS 8 1_555 B SG CYS 128 L CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf5 B SG CYS 21 L CYS 21 1_555 B SG CYS 95 L CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf6 B SG CYS 247 L CYS 247 1_555 B SG CYS 430 L CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? covale ? covale1 A ND2 ASN 96 I ASN 96 1_555 C C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.388 ? covale ? covale2 A ND2 ASN 155 I ASN 155 1_555 D C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.387 ? covale ? covale3 A ND2 ASN 192 I ASN 192 1_555 E C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.384 ? covale ? covale4 B ND2 ASN 96 L ASN 96 1_555 F C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.382 ? covale ? covale5 B ND2 ASN 155 L ASN 155 1_555 G C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.386 ? covale ? covale6 B ND2 ASN 192 L ASN 192 1_555 H C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.366 ? covale ? covale7 C O4 NAG . A NAG 1 1_555 C C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 ? covale ? covale8 D O4 NAG . B NAG 1 1_555 D C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.418 ? covale ? covale9 E O4 NAG . C NAG 1 1_555 E C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.401 ? covale ? covale10 E O4 NAG . C NAG 2 1_555 E C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 ? covale ? covale11 F O4 NAG . D NAG 1 1_555 F C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.401 ? covale ? covale12 G O4 NAG . E NAG 1 1_555 G C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.409 ? covale ? covale13 H O4 NAG . F NAG 1 1_555 H C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.411 ? covale ? covale14 H O4 NAG . F NAG 2 1_555 H C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.377 ? covale ? covale15 H O3 BMA . F BMA 3 1_555 H C1 MAN . F MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.377 ? covale ? covale16 H O6 BMA . F BMA 3 1_555 H C1 MAN . F MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.415 ? # _chem_comp.formula 'O4 P -3' _chem_comp.formula_weight 94.971 _chem_comp.id PO4 _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHATE ION' _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 P O1 PO4 doub 351 n n P O2 PO4 sing 352 n n P O3 PO4 sing 353 n n P O4 PO4 sing 354 n n # _atom_sites.entry_id 1E04 _atom_sites.fract_transf_matrix[1][1] 0.016116 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003511 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010067 _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] 0.011552 _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 I 5 MAN I 1 803 803 MAN MAN . J 6 GOL I 1 809 901 GOL GOL . K 6 GOL L 1 810 901 GOL GOL . L 7 PO4 L 1 811 501 PO4 PO4 . M 8 HOH I 1 2001 2001 HOH HOH . M 8 HOH I 2 2002 2021 HOH HOH . M 8 HOH I 3 2003 2029 HOH HOH . M 8 HOH I 4 2004 2023 HOH HOH . M 8 HOH I 5 2005 2027 HOH HOH . M 8 HOH I 6 2006 2007 HOH HOH . M 8 HOH I 7 2007 2004 HOH HOH . M 8 HOH I 8 2008 2015 HOH HOH . M 8 HOH I 9 2009 2034 HOH HOH . M 8 HOH I 10 2010 2036 HOH HOH . M 8 HOH I 11 2011 2039 HOH HOH . M 8 HOH I 12 2012 2050 HOH HOH . M 8 HOH I 13 2013 2003 HOH HOH . M 8 HOH I 14 2014 2048 HOH HOH . M 8 HOH I 15 2015 2031 HOH HOH . M 8 HOH I 16 2016 2041 HOH HOH . M 8 HOH I 17 2017 2044 HOH HOH . M 8 HOH I 18 2018 2038 HOH HOH . M 8 HOH I 19 2019 2017 HOH HOH . M 8 HOH I 20 2020 2042 HOH HOH . M 8 HOH I 21 2021 2006 HOH HOH . M 8 HOH I 22 2022 2049 HOH HOH . M 8 HOH I 23 2023 2047 HOH HOH . M 8 HOH I 24 2024 2030 HOH HOH . M 8 HOH I 25 2025 2024 HOH HOH . M 8 HOH I 26 2026 2028 HOH HOH . M 8 HOH I 27 2027 2019 HOH HOH . M 8 HOH I 28 2028 2035 HOH HOH . M 8 HOH I 29 2029 2025 HOH HOH . M 8 HOH I 30 2030 2043 HOH HOH . M 8 HOH I 31 2031 2018 HOH HOH . M 8 HOH I 32 2032 2009 HOH HOH . M 8 HOH I 33 2033 2051 HOH HOH . M 8 HOH I 34 2034 2045 HOH HOH . M 8 HOH I 35 2035 2037 HOH HOH . M 8 HOH I 36 2036 2014 HOH HOH . M 8 HOH I 37 2037 2033 HOH HOH . M 8 HOH I 38 2038 2026 HOH HOH . M 8 HOH I 39 2039 2040 HOH HOH . M 8 HOH I 40 2040 2022 HOH HOH . M 8 HOH I 41 2041 2032 HOH HOH . M 8 HOH I 42 2042 2016 HOH HOH . M 8 HOH I 43 2043 2010 HOH HOH . M 8 HOH I 44 2044 2020 HOH HOH . M 8 HOH I 45 2045 2008 HOH HOH . M 8 HOH I 46 2046 2013 HOH HOH . M 8 HOH I 47 2047 2002 HOH HOH . M 8 HOH I 48 2048 2011 HOH HOH . M 8 HOH I 49 2049 2046 HOH HOH . M 8 HOH I 50 2050 2012 HOH HOH . M 8 HOH I 51 2051 2005 HOH HOH . N 8 HOH L 1 901 2005 HOH HOH . N 8 HOH L 2 902 2003 HOH HOH . N 8 HOH L 3 903 2004 HOH HOH . N 8 HOH L 4 904 2021 HOH HOH . N 8 HOH L 5 905 2018 HOH HOH . N 8 HOH L 6 906 2017 HOH HOH . N 8 HOH L 7 907 2033 HOH HOH . N 8 HOH L 8 908 2002 HOH HOH . N 8 HOH L 9 909 2012 HOH HOH . N 8 HOH L 10 910 2011 HOH HOH . N 8 HOH L 11 911 2022 HOH HOH . N 8 HOH L 12 912 2027 HOH HOH . N 8 HOH L 13 913 2006 HOH HOH . N 8 HOH L 14 914 2007 HOH HOH . N 8 HOH L 15 915 2013 HOH HOH . N 8 HOH L 16 916 2008 HOH HOH . N 8 HOH L 17 917 2009 HOH HOH . N 8 HOH L 18 918 2032 HOH HOH . N 8 HOH L 19 919 2028 HOH HOH . N 8 HOH L 20 920 2015 HOH HOH . N 8 HOH L 21 921 2010 HOH HOH . N 8 HOH L 22 922 2023 HOH HOH . N 8 HOH L 23 923 2029 HOH HOH . N 8 HOH L 24 924 2001 HOH HOH . N 8 HOH L 25 925 2030 HOH HOH . N 8 HOH L 26 926 2025 HOH HOH . N 8 HOH L 27 927 2019 HOH HOH . N 8 HOH L 28 928 2016 HOH HOH . N 8 HOH L 29 929 2020 HOH HOH . N 8 HOH L 30 930 2014 HOH HOH . N 8 HOH L 31 931 2026 HOH HOH . N 8 HOH L 32 932 2031 HOH HOH . N 8 HOH L 33 933 2024 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 P P PO4 . . . L 7 -15.025 -0.784 -55.685 1 84.41 ? P PO4 811 L 1 HETATM 2 O O1 PO4 . . . L 7 -14.789 -1.635 -56.942 1 84.83 ? O1 PO4 811 L 1 HETATM 3 O O2 PO4 . . . L 7 -16.401 -1.065 -55.077 1 83.58 ? O2 PO4 811 L 1 HETATM 4 O O3 PO4 . . . L 7 -13.937 -1.024 -54.646 1 83.52 ? O3 PO4 811 L 1 HETATM 5 O O4 PO4 . . . L 7 -14.994 0.722 -56.141 1 85.42 ? O4 PO4 811 L 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 287 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 5 #