data_4V3W # _model_server_result.job_id xHASzyzN5xy739HqxvmxHA _model_server_result.datetime_utc '2024-11-22 21:21:43' _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 4v3w # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":800}' # _entry.id 4V3W # _exptl.entry_id 4V3W _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 311.357 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-(3-fluorophenyl)-N-{2-[2-(1H-imidazol-1-yl)pyrimidin-4-yl]ethyl}ethanamine _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 90 _cell.entry_id 4V3W _cell.length_a 51.837 _cell.length_b 110.25 _cell.length_c 164.318 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4V3W _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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,H,I,J,K,L,M _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 E N N ? 4 J 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 metalc ? metalc1 A SG CYS 30 A CYS 326 1_555 G ZN ZN . A ZN 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? metalc ? metalc2 A SG CYS 35 A CYS 331 1_555 G ZN ZN . A ZN 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.191 ? metalc ? metalc3 A SG CYS 119 A CYS 415 1_555 C FE HEM . A HEM 750 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.245 ? metalc ? metalc4 C FE HEM . A HEM 750 1_555 E N01 E2Z . A E2Z 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? metalc ? metalc5 G ZN ZN . A ZN 900 1_555 B SG CYS 30 B CYS 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc6 G ZN ZN . A ZN 900 1_555 B SG CYS 35 B CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc7 B SG CYS 119 B CYS 415 1_555 H FE HEM . B HEM 750 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc8 H FE HEM . B HEM 750 1_555 J N01 E2Z . B E2Z 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? # _chem_comp.formula 'C17 H18 F N5' _chem_comp.formula_weight 311.357 _chem_comp.id E2Z _chem_comp.mon_nstd_flag . _chem_comp.name 2-(3-fluorophenyl)-N-{2-[2-(1H-imidazol-1-yl)pyrimidin-4-yl]ethyl}ethanamine _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 2-(2-(1H-Imidazol-1-yl)pyrimidin-4-yl)-n-(3-fluorophenethyl)ethan-1-amine # 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 N01 C02 E2Z doub 89 n y N01 C05 E2Z sing 90 n y C02 N03 E2Z sing 91 n y N03 C04 E2Z sing 92 n y N03 C12 E2Z sing 93 n n C04 C05 E2Z doub 94 n y C1' C2' E2Z doub 95 n y C1' C21 E2Z sing 96 n n C1' C6' E2Z sing 97 n y N11 C12 E2Z doub 98 n y N11 C16 E2Z sing 99 n y C12 N13 E2Z sing 100 n y N13 C14 E2Z doub 101 n y C14 C15 E2Z sing 102 n y C14 C17 E2Z sing 103 n n C15 C16 E2Z doub 104 n y C17 C18 E2Z sing 105 n n C18 N19 E2Z sing 106 n n N19 C20 E2Z sing 107 n n C2' C3' E2Z sing 108 n y C20 C21 E2Z sing 109 n n C3' C4' E2Z doub 110 n y C3' F7' E2Z sing 111 n n C4' C5' E2Z sing 112 n y C5' C6' E2Z doub 113 n y C02 H02 E2Z sing 114 n n C04 H04 E2Z sing 115 n n C05 H05 E2Z sing 116 n n C15 H15 E2Z sing 117 n n C16 H16 E2Z sing 118 n n C17 H17 E2Z sing 119 n n C17 H17A E2Z sing 120 n n C18 H18 E2Z sing 121 n n C18 H18A E2Z sing 122 n n N19 HN19 E2Z sing 123 n n C2' H2' E2Z sing 124 n n C20 H20 E2Z sing 125 n n C20 H20A E2Z sing 126 n n C21 H21 E2Z sing 127 n n C21 H21A E2Z sing 128 n n C4' H4' E2Z sing 129 n n C5' H5' E2Z sing 130 n n C6' H6' E2Z sing 131 n n # _atom_sites.entry_id 4V3W _atom_sites.fract_transf_matrix[1][1] 0.019291 _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] 0.00907 _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] 0.006086 _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 2 HEM A 1 750 750 HEM HEM . D 3 H4B A 1 760 760 H4B H4B . E 4 E2Z A 1 800 800 E2Z E2Z . F 5 ACT A 1 860 860 ACT ACT . G 6 ZN A 1 900 900 ZN ZN . H 2 HEM B 1 750 750 HEM HEM . I 3 H4B B 1 760 760 H4B H4B . J 4 E2Z B 1 800 800 E2Z E2Z . K 5 ACT B 1 860 860 ACT ACT . 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 . M 7 HOH B 1 2001 2001 HOH HOH . M 7 HOH B 2 2002 2002 HOH HOH . M 7 HOH B 3 2003 2003 HOH HOH . M 7 HOH B 4 2004 2004 HOH HOH . M 7 HOH B 5 2005 2005 HOH HOH . M 7 HOH B 6 2006 2006 HOH HOH . M 7 HOH B 7 2007 2007 HOH HOH . M 7 HOH B 8 2008 2008 HOH HOH . M 7 HOH B 9 2009 2009 HOH HOH . M 7 HOH B 10 2010 2010 HOH HOH . M 7 HOH B 11 2011 2011 HOH HOH . M 7 HOH B 12 2012 2012 HOH HOH . M 7 HOH B 13 2013 2013 HOH HOH . M 7 HOH B 14 2014 2014 HOH HOH . M 7 HOH B 15 2015 2015 HOH HOH . M 7 HOH B 16 2016 2016 HOH HOH . M 7 HOH B 17 2017 2017 HOH HOH . M 7 HOH B 18 2018 2018 HOH HOH . M 7 HOH B 19 2019 2019 HOH HOH . M 7 HOH B 20 2020 2020 HOH HOH . M 7 HOH B 21 2021 2021 HOH HOH . M 7 HOH B 22 2022 2022 HOH HOH . M 7 HOH B 23 2023 2023 HOH HOH . M 7 HOH B 24 2024 2024 HOH HOH . M 7 HOH B 25 2025 2025 HOH HOH . M 7 HOH B 26 2026 2026 HOH HOH . M 7 HOH B 27 2027 2027 HOH HOH . M 7 HOH B 28 2028 2028 HOH HOH . M 7 HOH B 29 2029 2029 HOH HOH . M 7 HOH B 30 2030 2030 HOH HOH . M 7 HOH B 31 2031 2031 HOH HOH . M 7 HOH B 32 2032 2032 HOH HOH . M 7 HOH B 33 2033 2033 HOH HOH . M 7 HOH B 34 2034 2034 HOH HOH . M 7 HOH B 35 2035 2035 HOH HOH . M 7 HOH B 36 2036 2036 HOH HOH . M 7 HOH B 37 2037 2037 HOH HOH . M 7 HOH B 38 2038 2038 HOH HOH . M 7 HOH B 39 2039 2039 HOH HOH . M 7 HOH B 40 2040 2040 HOH HOH . M 7 HOH B 41 2041 2041 HOH HOH . M 7 HOH B 42 2042 2042 HOH HOH . M 7 HOH B 43 2043 2043 HOH HOH . M 7 HOH B 44 2044 2044 HOH HOH . M 7 HOH B 45 2045 2045 HOH HOH . M 7 HOH B 46 2046 2046 HOH HOH . M 7 HOH B 47 2047 2047 HOH HOH . M 7 HOH B 48 2048 2048 HOH HOH . M 7 HOH B 49 2049 2049 HOH HOH . M 7 HOH B 50 2050 2050 HOH HOH . M 7 HOH B 51 2051 2051 HOH HOH . M 7 HOH B 52 2052 2052 HOH HOH . M 7 HOH B 53 2053 2053 HOH HOH . M 7 HOH B 54 2054 2054 HOH HOH . M 7 HOH B 55 2055 2055 HOH HOH . M 7 HOH B 56 2056 2056 HOH HOH . M 7 HOH B 57 2057 2057 HOH HOH . M 7 HOH B 58 2058 2058 HOH HOH . M 7 HOH B 59 2059 2059 HOH HOH . M 7 HOH B 60 2060 2060 HOH HOH . M 7 HOH B 61 2061 2061 HOH HOH . M 7 HOH B 62 2062 2062 HOH HOH . M 7 HOH B 63 2063 2063 HOH HOH . M 7 HOH B 64 2064 2064 HOH HOH . M 7 HOH B 65 2065 2065 HOH HOH . M 7 HOH B 66 2066 2066 HOH HOH . M 7 HOH B 67 2067 2067 HOH HOH . M 7 HOH B 68 2068 2068 HOH HOH . M 7 HOH B 69 2069 2069 HOH HOH . M 7 HOH B 70 2070 2070 HOH HOH . M 7 HOH B 71 2071 2071 HOH HOH . M 7 HOH B 72 2072 2072 HOH HOH . M 7 HOH B 73 2073 2073 HOH HOH . M 7 HOH B 74 2074 2074 HOH HOH . M 7 HOH B 75 2075 2075 HOH HOH . M 7 HOH B 76 2076 2076 HOH HOH . M 7 HOH B 77 2077 2077 HOH HOH . M 7 HOH B 78 2078 2078 HOH HOH . M 7 HOH B 79 2079 2079 HOH HOH . M 7 HOH B 80 2080 2080 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 N N01 E2Z . . . J 4 10.016 2.078 59.049 1 38.48 ? N01 E2Z 800 B 1 HETATM 2 C C02 E2Z . . . J 4 11.214 2.248 58.57 1 36.88 ? C02 E2Z 800 B 1 HETATM 3 N N03 E2Z . . . J 4 11.932 1.55 59.477 1 38.33 ? N03 E2Z 800 B 1 HETATM 4 C C04 E2Z . . . J 4 11.281 0.976 60.492 1 38.02 ? C04 E2Z 800 B 1 HETATM 5 C C05 E2Z . . . J 4 9.979 1.349 60.202 1 38.83 ? C05 E2Z 800 B 1 HETATM 6 C C1' E2Z . . . J 4 18.931 6.176 54.399 1 58.94 ? C1' E2Z 800 B 1 HETATM 7 N N11 E2Z . . . J 4 14.017 0.606 60.194 1 38.07 ? N11 E2Z 800 B 1 HETATM 8 C C12 E2Z . . . J 4 13.306 1.404 59.372 1 37.94 ? C12 E2Z 800 B 1 HETATM 9 N N13 E2Z . . . J 4 13.975 2.041 58.408 1 37.83 ? N13 E2Z 800 B 1 HETATM 10 C C14 E2Z . . . J 4 15.33 1.914 58.244 1 38.83 ? C14 E2Z 800 B 1 HETATM 11 C C15 E2Z . . . J 4 16.124 1.102 59.083 1 38.87 ? C15 E2Z 800 B 1 HETATM 12 C C16 E2Z . . . J 4 15.411 0.436 60.093 1 39.81 ? C16 E2Z 800 B 1 HETATM 13 C C17 E2Z . . . J 4 15.931 2.691 57.131 1 39.53 ? C17 E2Z 800 B 1 HETATM 14 C C18 E2Z . . . J 4 15.676 4.155 57.383 1 40.26 ? C18 E2Z 800 B 1 HETATM 15 N N19 E2Z . . . J 4 15.983 4.73 56.067 1 43.23 ? N19 E2Z 800 B 1 HETATM 16 C C2' E2Z . . . J 4 20.071 5.438 54.079 1 59.91 ? C2' E2Z 800 B 1 HETATM 17 C C20 E2Z . . . J 4 17.416 5.014 55.936 1 47.17 ? C20 E2Z 800 B 1 HETATM 18 C C21 E2Z . . . J 4 17.627 5.424 54.495 1 53.71 ? C21 E2Z 800 B 1 HETATM 19 C C3' E2Z . . . J 4 21.281 6.115 54.024 1 62.02 ? C3' E2Z 800 B 1 HETATM 20 C C4' E2Z . . . J 4 21.37 7.493 54.253 1 63.74 ? C4' E2Z 800 B 1 HETATM 21 C C5' E2Z . . . J 4 20.215 8.245 54.545 1 63.33 ? C5' E2Z 800 B 1 HETATM 22 C C6' E2Z . . . J 4 18.981 7.573 54.631 1 61.74 ? C6' E2Z 800 B 1 HETATM 23 F F7' E2Z . . . J 4 22.378 5.422 53.739 1 63.02 ? F7' E2Z 800 B 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 23 #