data_4KCK # _model_server_result.job_id CUrl-twFiDtFYGZZwBU4QA _model_server_result.datetime_utc '2024-11-24 07:02:18' _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 4kck # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":803}' # _entry.id 4KCK # _exptl.entry_id 4KCK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 459.63 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-(3-{2-[(3-{[(Z)-imino(thiophen-2-yl)methyl]amino}benzyl)amino]ethyl}phenyl)thiophene-2-carboximidamide _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 4KCK _cell.length_a 51.925 _cell.length_b 111.064 _cell.length_c 165.329 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4KCK _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 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? metalc ? metalc2 A SG CYS 35 A CYS 331 1_555 G ZN ZN . A ZN 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? metalc ? metalc3 A SG CYS 119 A CYS 415 1_555 C FE HEM . A HEM 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc4 G ZN ZN . A ZN 805 1_555 B SG CYS 30 B CYS 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? metalc ? metalc5 G ZN ZN . A ZN 805 1_555 B SG CYS 35 B CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc6 B SG CYS 119 B CYS 415 1_555 H FE HEM . B HEM 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? # _chem_comp.formula 'C25 H25 N5 S2' _chem_comp.formula_weight 459.63 _chem_comp.id H45 _chem_comp.mon_nstd_flag . _chem_comp.name N-(3-{2-[(3-{[(Z)-imino(thiophen-2-yl)methyl]amino}benzyl)amino]ethyl}phenyl)thiophene-2-carboximidamide _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 C22 S21 H45 sing 135 n y C22 C23 H45 doub 136 n y S21 C25 H45 sing 137 n y C23 C24 H45 sing 138 n y C25 C24 H45 doub 139 n y C25 C26 H45 sing 140 n n N27 C26 H45 sing 141 n n N27 C31 H45 sing 142 n n C26 N26 H45 doub 143 n n C31 C36 H45 doub 144 n y C31 C32 H45 sing 145 n y C36 C35 H45 sing 146 n y C32 C33 H45 doub 147 n y C33 C34 H45 sing 148 n y C35 C34 H45 doub 149 n y C35 C37 H45 sing 150 n n C37 C38 H45 sing 151 n n C38 N18 H45 sing 152 n n N18 C17 H45 sing 153 n n C17 C15 H45 sing 154 n n C15 C16 H45 doub 155 n y C15 C14 H45 sing 156 n y C16 C11 H45 sing 157 n y C14 C13 H45 doub 158 n y C11 N07 H45 sing 159 n n C11 C12 H45 doub 160 n y N07 C06 H45 sing 161 n n C13 C12 H45 sing 162 n y N06 C06 H45 doub 163 n n C06 C05 H45 sing 164 n n C05 S01 H45 sing 165 n y C05 C04 H45 doub 166 n y S01 C02 H45 sing 167 n y C04 C03 H45 sing 168 n y C02 C03 H45 doub 169 n y N26 H1 H45 sing 170 n n C22 H2 H45 sing 171 n n C23 H3 H45 sing 172 n n C24 H4 H45 sing 173 n n N27 H5 H45 sing 174 n n C36 H6 H45 sing 175 n n C34 H7 H45 sing 176 n n C33 H8 H45 sing 177 n n C32 H9 H45 sing 178 n n C37 H10 H45 sing 179 n n C37 H11 H45 sing 180 n n C38 H12 H45 sing 181 n n C38 H13 H45 sing 182 n n N18 H14 H45 sing 183 n n C17 H16 H45 sing 184 n n C17 H17 H45 sing 185 n n C14 H18 H45 sing 186 n n C13 H19 H45 sing 187 n n C12 H20 H45 sing 188 n n C16 H21 H45 sing 189 n n N07 H22 H45 sing 190 n n N06 H23 H45 sing 191 n n C02 H24 H45 sing 192 n n C03 H25 H45 sing 193 n n C04 H26 H45 sing 194 n n # _atom_sites.entry_id 4KCK _atom_sites.fract_transf_matrix[1][1] 0.019259 _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] 0.009004 _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] 0.006049 _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 1 801 750 HEM HEM . D 3 H4B A 1 802 760 H4B BH4 . E 4 H45 A 1 803 800 H45 H45 . F 5 ACT A 1 804 860 ACT ACT . G 6 ZN A 1 805 900 ZN ZN . H 2 HEM B 1 801 750 HEM HEM . I 3 H4B B 1 802 760 H4B BH4 . J 4 H45 B 1 803 800 H45 H45 . K 5 ACT B 1 804 860 ACT ACT . L 7 HOH A 1 901 1 HOH HOH . L 7 HOH A 2 902 2 HOH HOH . L 7 HOH A 3 903 4 HOH HOH . L 7 HOH A 4 904 8 HOH HOH . L 7 HOH A 5 905 10 HOH HOH . L 7 HOH A 6 906 16 HOH HOH . L 7 HOH A 7 907 17 HOH HOH . L 7 HOH A 8 908 19 HOH HOH . L 7 HOH A 9 909 21 HOH HOH . L 7 HOH A 10 910 23 HOH HOH . L 7 HOH A 11 911 24 HOH HOH . L 7 HOH A 12 912 29 HOH HOH . L 7 HOH A 13 913 33 HOH HOH . L 7 HOH A 14 914 38 HOH HOH . L 7 HOH A 15 915 39 HOH HOH . L 7 HOH A 16 916 42 HOH HOH . L 7 HOH A 17 917 43 HOH HOH . L 7 HOH A 18 918 44 HOH HOH . L 7 HOH A 19 919 45 HOH HOH . L 7 HOH A 20 920 51 HOH HOH . L 7 HOH A 21 921 52 HOH HOH . L 7 HOH A 22 922 67 HOH HOH . L 7 HOH A 23 923 68 HOH HOH . L 7 HOH A 24 924 69 HOH HOH . L 7 HOH A 25 925 71 HOH HOH . L 7 HOH A 26 926 74 HOH HOH . L 7 HOH A 27 927 79 HOH HOH . L 7 HOH A 28 928 85 HOH HOH . L 7 HOH A 29 929 88 HOH HOH . L 7 HOH A 30 930 89 HOH HOH . L 7 HOH A 31 931 91 HOH HOH . L 7 HOH A 32 932 92 HOH HOH . L 7 HOH A 33 933 93 HOH HOH . L 7 HOH A 34 934 94 HOH HOH . L 7 HOH A 35 935 96 HOH HOH . L 7 HOH A 36 936 98 HOH HOH . L 7 HOH A 37 937 100 HOH HOH . L 7 HOH A 38 938 102 HOH HOH . L 7 HOH A 39 939 112 HOH HOH . L 7 HOH A 40 940 113 HOH HOH . L 7 HOH A 41 941 116 HOH HOH . L 7 HOH A 42 942 117 HOH HOH . L 7 HOH A 43 943 122 HOH HOH . L 7 HOH A 44 944 123 HOH HOH . L 7 HOH A 45 945 124 HOH HOH . L 7 HOH A 46 946 125 HOH HOH . L 7 HOH A 47 947 126 HOH HOH . L 7 HOH A 48 948 127 HOH HOH . L 7 HOH A 49 949 128 HOH HOH . L 7 HOH A 50 950 129 HOH HOH . L 7 HOH A 51 951 130 HOH HOH . L 7 HOH A 52 952 131 HOH HOH . L 7 HOH A 53 953 132 HOH HOH . M 7 HOH B 1 901 3 HOH HOH . M 7 HOH B 2 902 5 HOH HOH . M 7 HOH B 3 903 6 HOH HOH . M 7 HOH B 4 904 7 HOH HOH . M 7 HOH B 5 905 9 HOH HOH . M 7 HOH B 6 906 11 HOH HOH . M 7 HOH B 7 907 12 HOH HOH . M 7 HOH B 8 908 13 HOH HOH . M 7 HOH B 9 909 14 HOH HOH . M 7 HOH B 10 910 15 HOH HOH . M 7 HOH B 11 911 18 HOH HOH . M 7 HOH B 12 912 20 HOH HOH . M 7 HOH B 13 913 22 HOH HOH . M 7 HOH B 14 914 25 HOH HOH . M 7 HOH B 15 915 26 HOH HOH . M 7 HOH B 16 916 27 HOH HOH . M 7 HOH B 17 917 28 HOH HOH . M 7 HOH B 18 918 30 HOH HOH . M 7 HOH B 19 919 31 HOH HOH . M 7 HOH B 20 920 32 HOH HOH . M 7 HOH B 21 921 34 HOH HOH . M 7 HOH B 22 922 35 HOH HOH . M 7 HOH B 23 923 36 HOH HOH . M 7 HOH B 24 924 37 HOH HOH . M 7 HOH B 25 925 40 HOH HOH . M 7 HOH B 26 926 41 HOH HOH . M 7 HOH B 27 927 46 HOH HOH . M 7 HOH B 28 928 47 HOH HOH . M 7 HOH B 29 929 48 HOH HOH . M 7 HOH B 30 930 49 HOH HOH . M 7 HOH B 31 931 50 HOH HOH . M 7 HOH B 32 932 53 HOH HOH . M 7 HOH B 33 933 54 HOH HOH . M 7 HOH B 34 934 55 HOH HOH . M 7 HOH B 35 935 56 HOH HOH . M 7 HOH B 36 936 57 HOH HOH . M 7 HOH B 37 937 58 HOH HOH . M 7 HOH B 38 938 59 HOH HOH . M 7 HOH B 39 939 60 HOH HOH . M 7 HOH B 40 940 61 HOH HOH . M 7 HOH B 41 941 62 HOH HOH . M 7 HOH B 42 942 63 HOH HOH . M 7 HOH B 43 943 64 HOH HOH . M 7 HOH B 44 944 65 HOH HOH . M 7 HOH B 45 945 66 HOH HOH . M 7 HOH B 46 946 70 HOH HOH . M 7 HOH B 47 947 72 HOH HOH . M 7 HOH B 48 948 73 HOH HOH . M 7 HOH B 49 949 75 HOH HOH . M 7 HOH B 50 950 76 HOH HOH . M 7 HOH B 51 951 77 HOH HOH . M 7 HOH B 52 952 78 HOH HOH . M 7 HOH B 53 953 80 HOH HOH . M 7 HOH B 54 954 81 HOH HOH . M 7 HOH B 55 955 82 HOH HOH . M 7 HOH B 56 956 83 HOH HOH . M 7 HOH B 57 957 84 HOH HOH . M 7 HOH B 58 958 86 HOH HOH . M 7 HOH B 59 959 87 HOH HOH . M 7 HOH B 60 960 90 HOH HOH . M 7 HOH B 61 961 95 HOH HOH . M 7 HOH B 62 962 97 HOH HOH . M 7 HOH B 63 963 99 HOH HOH . M 7 HOH B 64 964 101 HOH HOH . M 7 HOH B 65 965 103 HOH HOH . M 7 HOH B 66 966 104 HOH HOH . M 7 HOH B 67 967 105 HOH HOH . M 7 HOH B 68 968 106 HOH HOH . M 7 HOH B 69 969 107 HOH HOH . M 7 HOH B 70 970 108 HOH HOH . M 7 HOH B 71 971 109 HOH HOH . M 7 HOH B 72 972 110 HOH HOH . M 7 HOH B 73 973 111 HOH HOH . M 7 HOH B 74 974 114 HOH HOH . M 7 HOH B 75 975 115 HOH HOH . M 7 HOH B 76 976 118 HOH HOH . M 7 HOH B 77 977 119 HOH HOH . M 7 HOH B 78 978 120 HOH HOH . M 7 HOH B 79 979 121 HOH HOH . M 7 HOH B 80 980 133 HOH HOH . M 7 HOH B 81 981 134 HOH HOH . M 7 HOH B 82 982 135 HOH HOH . M 7 HOH B 83 983 136 HOH HOH . M 7 HOH B 84 984 137 HOH HOH . M 7 HOH B 85 985 138 HOH HOH . M 7 HOH B 86 986 139 HOH HOH . M 7 HOH B 87 987 140 HOH HOH . M 7 HOH B 88 988 141 HOH HOH . M 7 HOH B 89 989 142 HOH HOH . M 7 HOH B 90 990 143 HOH HOH . M 7 HOH B 91 991 144 HOH HOH . M 7 HOH B 92 992 145 HOH HOH . M 7 HOH B 93 993 146 HOH HOH . M 7 HOH B 94 994 147 HOH HOH . M 7 HOH B 95 995 148 HOH HOH . M 7 HOH B 96 996 149 HOH HOH . M 7 HOH B 97 997 150 HOH HOH . M 7 HOH B 98 998 151 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 N26 H45 . . . E 4 -0.463 0.72 29.573 1 85.47 ? N26 H45 803 A 1 HETATM 2 C C26 H45 . . . E 4 0.687 0.208 30.033 1 85.5 ? C26 H45 803 A 1 HETATM 3 C C25 H45 . . . E 4 0.655 -1.05 30.846 1 87.81 ? C25 H45 803 A 1 HETATM 4 S S21 H45 . . . E 4 0.991 -0.924 32.55 1 91.17 ? S21 H45 803 A 1 HETATM 5 C C22 H45 . . . E 4 0.818 -2.621 32.897 1 90.9 ? C22 H45 803 A 1 HETATM 6 C C23 H45 . . . E 4 0.516 -3.232 31.672 1 93.07 ? C23 H45 803 A 1 HETATM 7 C C24 H45 . . . E 4 0.423 -2.396 30.544 1 92.57 ? C24 H45 803 A 1 HETATM 8 N N27 H45 . . . E 4 1.901 0.756 29.805 1 80.81 ? N27 H45 803 A 1 HETATM 9 C C31 H45 . . . E 4 2.288 1.864 29.094 1 74.4 ? C31 H45 803 A 1 HETATM 10 C C36 H45 . . . E 4 3.654 1.964 28.757 1 70.9 ? C36 H45 803 A 1 HETATM 11 C C35 H45 . . . E 4 4.144 3.065 28.032 1 68.09 ? C35 H45 803 A 1 HETATM 12 C C34 H45 . . . E 4 3.235 4.079 27.651 1 69.22 ? C34 H45 803 A 1 HETATM 13 C C33 H45 . . . E 4 1.881 4.001 27.975 1 70.36 ? C33 H45 803 A 1 HETATM 14 C C32 H45 . . . E 4 1.411 2.893 28.698 1 75.31 ? C32 H45 803 A 1 HETATM 15 C C37 H45 . . . E 4 5.635 3.176 27.675 1 59.92 ? C37 H45 803 A 1 HETATM 16 C C38 H45 . . . E 4 6.14 2.164 26.635 1 53.69 ? C38 H45 803 A 1 HETATM 17 N N18 H45 . . . E 4 7.016 2.71 25.594 1 52.31 ? N18 H45 803 A 1 HETATM 18 C C17 H45 . . . E 4 7.564 1.9 24.501 1 44.83 ? C17 H45 803 A 1 HETATM 19 C C15 H45 . . . E 4 9.075 2.144 24.428 1 43.82 ? C15 H45 803 A 1 HETATM 20 C C14 H45 . . . E 4 9.505 3.462 24.363 1 41.31 ? C14 H45 803 A 1 HETATM 21 C C13 H45 . . . E 4 10.856 3.762 24.276 1 40.39 ? C13 H45 803 A 1 HETATM 22 C C12 H45 . . . E 4 11.804 2.737 24.275 1 39.22 ? C12 H45 803 A 1 HETATM 23 C C11 H45 . . . E 4 11.39 1.397 24.334 1 42.89 ? C11 H45 803 A 1 HETATM 24 C C16 H45 . . . E 4 10.023 1.103 24.41 1 40.88 ? C16 H45 803 A 1 HETATM 25 N N07 H45 . . . E 4 12.331 0.38 24.358 1 45.52 ? N07 H45 803 A 1 HETATM 26 C C06 H45 . . . E 4 13.383 0.28 23.535 1 45.18 ? C06 H45 803 A 1 HETATM 27 N N06 H45 . . . E 4 14.411 -0.516 23.812 1 43.96 ? N06 H45 803 A 1 HETATM 28 C C05 H45 . . . E 4 13.4 1.052 22.262 1 43.24 ? C05 H45 803 A 1 HETATM 29 S S01 H45 . . . E 4 14.946 1.641 21.829 1 50.78 ? S01 H45 803 A 1 HETATM 30 C C02 H45 . . . E 4 14.409 2.421 20.376 1 44.06 ? C02 H45 803 A 1 HETATM 31 C C03 H45 . . . E 4 13.031 2.183 20.329 1 44.38 ? C03 H45 803 A 1 HETATM 32 C C04 H45 . . . E 4 12.457 1.42 21.339 1 39.03 ? C04 H45 803 A 1 # _model_server_stats.io_time_ms 134 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 285 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #