data_3JT6 # _model_server_result.job_id XopVWZYT3RWLu2gbu-0Xsw _model_server_result.datetime_utc '2024-11-04 23:01:19' _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 3jt6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":800}' # _entry.id 3JT6 # _exptl.entry_id 3JT6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.358 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N~5~-[4-(methylsulfanyl)butanimidoyl]-L-ornithine _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 3JT6 _cell.length_a 51.84 _cell.length_b 110.77 _cell.length_c 164.58 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3JT6 _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 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc2 A SG CYS 35 A CYS 331 1_555 G ZN ZN . A ZN 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc3 A SG CYS 119 A CYS 415 1_555 C FE HEM . A HEM 750 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc4 G ZN ZN . A ZN 900 1_555 B SG CYS 30 B CYS 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc5 G ZN ZN . A ZN 900 1_555 B SG CYS 35 B CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc6 B SG CYS 119 B CYS 415 1_555 H FE HEM . B HEM 750 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? # _chem_comp.formula 'C10 H21 N3 O2 S' _chem_comp.formula_weight 247.358 _chem_comp.id JM6 _chem_comp.mon_nstd_flag . _chem_comp.name N~5~-[4-(methylsulfanyl)butanimidoyl]-L-ornithine _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 OA2 C JM6 doub 294 n n CA C JM6 sing 295 n n C OA1 JM6 sing 296 n n N CA JM6 sing 297 n n N HN JM6 sing 298 n n N HNA JM6 sing 299 n n NH1 C1 JM6 doub 300 n n NE C1 JM6 sing 301 n n C1 C2 JM6 sing 302 n n C2 C3 JM6 sing 303 n n C2 H2 JM6 sing 304 n n C2 H2A JM6 sing 305 n n C4 C3 JM6 sing 306 n n C3 H3 JM6 sing 307 n n C3 H3A JM6 sing 308 n n C4 S5 JM6 sing 309 n n C4 H4 JM6 sing 310 n n C4 H4A JM6 sing 311 n n S5 C6 JM6 sing 312 n n C6 H6 JM6 sing 313 n n C6 H6A JM6 sing 314 n n C6 H6B JM6 sing 315 n n CA CB JM6 sing 316 n n CA HA JM6 sing 317 n n CG CB JM6 sing 318 n n CB HB JM6 sing 319 n n CB HBA JM6 sing 320 n n CG CD JM6 sing 321 n n NE CD JM6 sing 322 n n CD HD JM6 sing 323 n n CD HDA JM6 sing 324 n n NE HNE JM6 sing 325 n n CG HG JM6 sing 326 n n CG HGA JM6 sing 327 n n OA1 HOA1 JM6 sing 328 n n NH1 HNH1 JM6 sing 329 n n # _atom_sites.entry_id 3JT6 _atom_sites.fract_transf_matrix[1][1] 0.01929 _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] 0.009028 _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] 0.006076 _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 JM6 A 1 800 800 JM6 JM6 . 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 JM6 B 1 800 800 JM6 JM6 . K 5 ACT B 1 860 860 ACT ACT . L 7 HOH A 1 100 100 HOH HOH . L 7 HOH A 2 101 101 HOH HOH . L 7 HOH A 3 102 102 HOH HOH . L 7 HOH A 4 103 103 HOH HOH . L 7 HOH A 5 104 104 HOH HOH . L 7 HOH A 6 105 105 HOH HOH . L 7 HOH A 7 106 106 HOH HOH . L 7 HOH A 8 107 107 HOH HOH . L 7 HOH A 9 108 108 HOH HOH . L 7 HOH A 10 109 109 HOH HOH . L 7 HOH A 11 110 110 HOH HOH . L 7 HOH A 12 111 111 HOH HOH . L 7 HOH A 13 112 112 HOH HOH . L 7 HOH A 14 113 113 HOH HOH . L 7 HOH A 15 114 114 HOH HOH . L 7 HOH A 16 115 115 HOH HOH . L 7 HOH A 17 116 116 HOH HOH . L 7 HOH A 18 117 117 HOH HOH . L 7 HOH A 19 118 118 HOH HOH . L 7 HOH A 20 119 119 HOH HOH . L 7 HOH A 21 120 120 HOH HOH . L 7 HOH A 22 121 121 HOH HOH . L 7 HOH A 23 122 122 HOH HOH . L 7 HOH A 24 123 123 HOH HOH . L 7 HOH A 25 124 124 HOH HOH . L 7 HOH A 26 125 125 HOH HOH . L 7 HOH A 27 126 126 HOH HOH . L 7 HOH A 28 127 127 HOH HOH . L 7 HOH A 29 128 128 HOH HOH . L 7 HOH A 30 129 129 HOH HOH . L 7 HOH A 31 130 130 HOH HOH . L 7 HOH A 32 131 131 HOH HOH . L 7 HOH A 33 132 132 HOH HOH . L 7 HOH A 34 133 133 HOH HOH . L 7 HOH A 35 134 134 HOH HOH . L 7 HOH A 36 135 135 HOH HOH . L 7 HOH A 37 136 136 HOH HOH . L 7 HOH A 38 137 137 HOH HOH . L 7 HOH A 39 138 138 HOH HOH . L 7 HOH A 40 139 139 HOH HOH . L 7 HOH A 41 140 140 HOH HOH . L 7 HOH A 42 141 141 HOH HOH . L 7 HOH A 43 142 142 HOH HOH . L 7 HOH A 44 143 143 HOH HOH . L 7 HOH A 45 144 144 HOH HOH . L 7 HOH A 46 145 145 HOH HOH . L 7 HOH A 47 146 146 HOH HOH . L 7 HOH A 48 147 147 HOH HOH . L 7 HOH A 49 148 148 HOH HOH . L 7 HOH A 50 149 149 HOH HOH . L 7 HOH A 51 150 150 HOH HOH . L 7 HOH A 52 151 151 HOH HOH . L 7 HOH A 53 152 152 HOH HOH . L 7 HOH A 54 153 153 HOH HOH . L 7 HOH A 55 154 154 HOH HOH . L 7 HOH A 56 155 155 HOH HOH . L 7 HOH A 57 156 156 HOH HOH . L 7 HOH A 58 157 157 HOH HOH . L 7 HOH A 59 158 158 HOH HOH . L 7 HOH A 60 159 159 HOH HOH . L 7 HOH A 61 160 160 HOH HOH . L 7 HOH A 62 161 161 HOH HOH . L 7 HOH A 63 162 162 HOH HOH . L 7 HOH A 64 163 163 HOH HOH . L 7 HOH A 65 164 164 HOH HOH . L 7 HOH A 66 165 165 HOH HOH . L 7 HOH A 67 166 166 HOH HOH . L 7 HOH A 68 167 167 HOH HOH . L 7 HOH A 69 168 168 HOH HOH . L 7 HOH A 70 169 169 HOH HOH . L 7 HOH A 71 170 170 HOH HOH . L 7 HOH A 72 171 171 HOH HOH . L 7 HOH A 73 172 172 HOH HOH . L 7 HOH A 74 173 173 HOH HOH . L 7 HOH A 75 174 174 HOH HOH . L 7 HOH A 76 175 175 HOH HOH . M 7 HOH B 1 100 100 HOH HOH . M 7 HOH B 2 101 101 HOH HOH . M 7 HOH B 3 102 102 HOH HOH . M 7 HOH B 4 103 103 HOH HOH . M 7 HOH B 5 104 104 HOH HOH . M 7 HOH B 6 105 105 HOH HOH . M 7 HOH B 7 106 106 HOH HOH . M 7 HOH B 8 107 107 HOH HOH . M 7 HOH B 9 108 108 HOH HOH . M 7 HOH B 10 109 109 HOH HOH . M 7 HOH B 11 110 110 HOH HOH . M 7 HOH B 12 111 111 HOH HOH . M 7 HOH B 13 112 112 HOH HOH . M 7 HOH B 14 113 113 HOH HOH . M 7 HOH B 15 114 114 HOH HOH . M 7 HOH B 16 115 115 HOH HOH . M 7 HOH B 17 116 116 HOH HOH . M 7 HOH B 18 117 117 HOH HOH . M 7 HOH B 19 118 118 HOH HOH . M 7 HOH B 20 119 119 HOH HOH . M 7 HOH B 21 120 120 HOH HOH . M 7 HOH B 22 121 121 HOH HOH . M 7 HOH B 23 122 122 HOH HOH . M 7 HOH B 24 123 123 HOH HOH . M 7 HOH B 25 124 124 HOH HOH . M 7 HOH B 26 125 125 HOH HOH . M 7 HOH B 27 126 126 HOH HOH . M 7 HOH B 28 127 127 HOH HOH . M 7 HOH B 29 128 128 HOH HOH . M 7 HOH B 30 129 129 HOH HOH . M 7 HOH B 31 130 130 HOH HOH . M 7 HOH B 32 131 131 HOH HOH . M 7 HOH B 33 132 132 HOH HOH . M 7 HOH B 34 133 133 HOH HOH . M 7 HOH B 35 134 134 HOH HOH . M 7 HOH B 36 135 135 HOH HOH . M 7 HOH B 37 136 136 HOH HOH . M 7 HOH B 38 137 137 HOH HOH . M 7 HOH B 39 138 138 HOH HOH . M 7 HOH B 40 139 139 HOH HOH . M 7 HOH B 41 140 140 HOH HOH . M 7 HOH B 42 141 141 HOH HOH . M 7 HOH B 43 142 142 HOH HOH . M 7 HOH B 44 143 143 HOH HOH . M 7 HOH B 45 144 144 HOH HOH . M 7 HOH B 46 145 145 HOH HOH . M 7 HOH B 47 146 146 HOH HOH . M 7 HOH B 48 147 147 HOH HOH . M 7 HOH B 49 148 148 HOH HOH . M 7 HOH B 50 149 149 HOH HOH . M 7 HOH B 51 150 150 HOH HOH . M 7 HOH B 52 151 151 HOH HOH . M 7 HOH B 53 152 152 HOH HOH . M 7 HOH B 54 153 153 HOH HOH . M 7 HOH B 55 154 154 HOH HOH . M 7 HOH B 56 155 155 HOH HOH . M 7 HOH B 57 156 156 HOH HOH . M 7 HOH B 58 157 157 HOH HOH . M 7 HOH B 59 158 158 HOH HOH . M 7 HOH B 60 159 159 HOH HOH . M 7 HOH B 61 160 160 HOH HOH . M 7 HOH B 62 161 161 HOH HOH . M 7 HOH B 63 162 162 HOH HOH . M 7 HOH B 64 163 163 HOH HOH . M 7 HOH B 65 164 164 HOH HOH . M 7 HOH B 66 165 165 HOH HOH . M 7 HOH B 67 166 166 HOH HOH . M 7 HOH B 68 167 167 HOH HOH . M 7 HOH B 69 168 168 HOH HOH . M 7 HOH B 70 169 169 HOH HOH . M 7 HOH B 71 170 170 HOH HOH . M 7 HOH B 72 171 171 HOH HOH . M 7 HOH B 73 172 172 HOH HOH . M 7 HOH B 74 173 173 HOH HOH . M 7 HOH B 75 174 174 HOH HOH . M 7 HOH B 76 175 175 HOH HOH . M 7 HOH B 77 176 176 HOH HOH . M 7 HOH B 78 177 177 HOH HOH . M 7 HOH B 79 178 178 HOH HOH . M 7 HOH B 80 179 179 HOH HOH . M 7 HOH B 81 180 180 HOH HOH . M 7 HOH B 82 181 181 HOH HOH . M 7 HOH B 83 182 182 HOH HOH . M 7 HOH B 84 183 183 HOH HOH . M 7 HOH B 85 184 184 HOH HOH . M 7 HOH B 86 185 185 HOH HOH . M 7 HOH B 87 186 186 HOH HOH . M 7 HOH B 88 187 187 HOH HOH . M 7 HOH B 89 188 188 HOH HOH . M 7 HOH B 90 189 189 HOH HOH . M 7 HOH B 91 190 190 HOH HOH . M 7 HOH B 92 191 191 HOH HOH . M 7 HOH B 93 192 192 HOH HOH . M 7 HOH B 94 193 193 HOH HOH . M 7 HOH B 95 194 194 HOH HOH . M 7 HOH B 96 195 195 HOH HOH . M 7 HOH B 97 196 196 HOH HOH . M 7 HOH B 98 197 197 HOH HOH . M 7 HOH B 99 198 198 HOH HOH . M 7 HOH B 100 199 199 HOH HOH . M 7 HOH B 101 200 200 HOH HOH . M 7 HOH B 102 201 201 HOH HOH . M 7 HOH B 103 202 202 HOH HOH . M 7 HOH B 104 203 203 HOH HOH . M 7 HOH B 105 204 204 HOH HOH . M 7 HOH B 106 205 205 HOH HOH . M 7 HOH B 107 206 206 HOH HOH . M 7 HOH B 108 207 207 HOH HOH . M 7 HOH B 109 208 208 HOH HOH . M 7 HOH B 110 209 209 HOH HOH . M 7 HOH B 111 210 210 HOH HOH . M 7 HOH B 112 211 211 HOH HOH . M 7 HOH B 113 212 212 HOH HOH . M 7 HOH B 114 213 213 HOH HOH . M 7 HOH B 115 214 214 HOH HOH . M 7 HOH B 116 215 215 HOH HOH . M 7 HOH B 117 216 216 HOH HOH . M 7 HOH B 118 217 217 HOH HOH . M 7 HOH B 119 218 218 HOH HOH . M 7 HOH B 120 219 219 HOH HOH . M 7 HOH B 121 220 220 HOH HOH . M 7 HOH B 122 221 221 HOH HOH . M 7 HOH B 123 222 222 HOH HOH . M 7 HOH B 124 223 223 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 C C JM6 . . . E 4 9.193 -3.126 24.601 1 40 ? C JM6 800 A 1 HETATM 2 N N JM6 . . . E 4 9.788 -1.388 26.169 1 36.56 ? N JM6 800 A 1 HETATM 3 C C1 JM6 . . . E 4 14.27 -0.008 23.24 1 47.17 ? C1 JM6 800 A 1 HETATM 4 C C2 JM6 . . . E 4 14.964 0.364 21.96 1 53.58 ? C2 JM6 800 A 1 HETATM 5 C C3 JM6 . . . E 4 14.729 1.756 21.455 1 58.54 ? C3 JM6 800 A 1 HETATM 6 C C4 JM6 . . . E 4 14.108 2.632 22.507 1 64.58 ? C4 JM6 800 A 1 HETATM 7 S S5 JM6 . . . E 4 12.488 2.755 21.86 1 74.23 ? S5 JM6 800 A 1 HETATM 8 C C6 JM6 . . . E 4 12.518 2.378 20.135 1 73.12 ? C6 JM6 800 A 1 HETATM 9 C CA JM6 . . . E 4 9.3 -1.631 24.835 1 38.89 ? CA JM6 800 A 1 HETATM 10 C CB JM6 . . . E 4 10.234 -1.018 23.788 1 38.28 ? CB JM6 800 A 1 HETATM 11 C CD JM6 . . . E 4 11.883 0.561 23.151 1 45.41 ? CD JM6 800 A 1 HETATM 12 N NE JM6 . . . E 4 13.205 0.627 23.745 1 46.96 ? NE JM6 800 A 1 HETATM 13 C CG JM6 . . . E 4 10.715 0.397 24.1 1 38.81 ? CG JM6 800 A 1 HETATM 14 O OA1 JM6 . . . E 4 8.771 -3.534 23.501 1 39.11 ? OA1 JM6 800 A 1 HETATM 15 O OA2 JM6 . . . E 4 9.508 -3.905 25.543 1 40.95 ? OA2 JM6 800 A 1 HETATM 16 N NH1 JM6 . . . E 4 14.785 -0.981 23.799 1 41.98 ? NH1 JM6 800 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 16 #