data_6J26 # _model_server_result.job_id uB_p8ACZOAMIfW2pha1uyA _model_server_result.datetime_utc '2024-11-12 21:36:04' _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 6j26 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 6J26 # _exptl.entry_id 6J26 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 297.334 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-DEOXY-5'-METHYLTHIOADENOSINE" _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 120 _cell.entry_id 6J26 _cell.length_a 74.17 _cell.length_b 74.17 _cell.length_c 105.934 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6J26 _symmetry.cell_setting ? _symmetry.Int_Tables_number 144 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31' # _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 _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 ? 2 C N N ? 2 F 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 111 A CYS 91 1_555 E FE FE . A FE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc2 A SG CYS 114 A CYS 94 1_555 E FE FE . A FE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? metalc ? metalc3 E FE FE . A FE 403 1_555 B SG CYS 111 B CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc4 E FE FE . A FE 403 1_555 B SG CYS 114 B CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.274 ? # _chem_comp.formula 'C11 H15 N5 O3 S' _chem_comp.formula_weight 297.334 _chem_comp.id MTA _chem_comp.mon_nstd_flag . _chem_comp.name "5'-DEOXY-5'-METHYLTHIOADENOSINE" _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 CS S5' MTA sing 292 n n CS HCS1 MTA sing 293 n n CS HCS2 MTA sing 294 n n CS HCS3 MTA sing 295 n n S5' C5' MTA sing 296 n n C5' C4' MTA sing 297 n n C5' "H5'1" MTA sing 298 n n C5' "H5'2" MTA sing 299 n n C4' O4' MTA sing 300 n n C4' C3' MTA sing 301 n n C4' H4' MTA sing 302 n n O4' C1' MTA sing 303 n n C2' O2' MTA sing 304 n n C2' C3' MTA sing 305 n n C2' C1' MTA sing 306 n n C2' H2' MTA sing 307 n n O2' HO2' MTA sing 308 n n C3' O3' MTA sing 309 n n C3' H3' MTA sing 310 n n O3' H3T MTA sing 311 n n C1' N9 MTA sing 312 n n C1' H1' MTA sing 313 n n N9 C8 MTA sing 314 n y N9 C4 MTA sing 315 n y C8 N7 MTA doub 316 n y C8 H8 MTA sing 317 n n N7 C5 MTA sing 318 n y C5 C6 MTA sing 319 n y C5 C4 MTA doub 320 n y C6 N6 MTA sing 321 n n C6 N1 MTA doub 322 n y N6 H61 MTA sing 323 n n N6 H62 MTA sing 324 n n N1 C2 MTA sing 325 n y C2 N3 MTA doub 326 n y C2 H2 MTA sing 327 n n N3 C4 MTA sing 328 n y # _atom_sites.entry_id 6J26 _atom_sites.fract_transf_matrix[1][1] 0.013483 _atom_sites.fract_transf_matrix[1][2] 0.007784 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015568 _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] 0.00944 _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 MTA A 1 401 1000 MTA MTA . D 3 B5L A 1 402 2 B5L 44S . E 4 FE A 1 403 1 FE FE . F 2 MTA B 1 401 1000 MTA MTA . G 3 B5L B 1 402 1 B5L 44S . H 5 HOH A 1 501 108 HOH HOH . H 5 HOH A 2 502 96 HOH HOH . H 5 HOH A 3 503 181 HOH HOH . H 5 HOH A 4 504 97 HOH HOH . H 5 HOH A 5 505 111 HOH HOH . H 5 HOH A 6 506 144 HOH HOH . H 5 HOH A 7 507 38 HOH HOH . H 5 HOH A 8 508 9 HOH HOH . H 5 HOH A 9 509 205 HOH HOH . H 5 HOH A 10 510 150 HOH HOH . H 5 HOH A 11 511 60 HOH HOH . H 5 HOH A 12 512 29 HOH HOH . H 5 HOH A 13 513 124 HOH HOH . H 5 HOH A 14 514 129 HOH HOH . H 5 HOH A 15 515 66 HOH HOH . H 5 HOH A 16 516 116 HOH HOH . H 5 HOH A 17 517 112 HOH HOH . H 5 HOH A 18 518 23 HOH HOH . H 5 HOH A 19 519 222 HOH HOH . H 5 HOH A 20 520 74 HOH HOH . H 5 HOH A 21 521 226 HOH HOH . H 5 HOH A 22 522 36 HOH HOH . H 5 HOH A 23 523 103 HOH HOH . H 5 HOH A 24 524 15 HOH HOH . H 5 HOH A 25 525 40 HOH HOH . H 5 HOH A 26 526 18 HOH HOH . H 5 HOH A 27 527 125 HOH HOH . H 5 HOH A 28 528 122 HOH HOH . H 5 HOH A 29 529 1 HOH HOH . H 5 HOH A 30 530 137 HOH HOH . H 5 HOH A 31 531 75 HOH HOH . H 5 HOH A 32 532 199 HOH HOH . H 5 HOH A 33 533 201 HOH HOH . H 5 HOH A 34 534 69 HOH HOH . H 5 HOH A 35 535 43 HOH HOH . H 5 HOH A 36 536 26 HOH HOH . H 5 HOH A 37 537 77 HOH HOH . H 5 HOH A 38 538 215 HOH HOH . H 5 HOH A 39 539 152 HOH HOH . H 5 HOH A 40 540 27 HOH HOH . H 5 HOH A 41 541 143 HOH HOH . H 5 HOH A 42 542 33 HOH HOH . H 5 HOH A 43 543 31 HOH HOH . H 5 HOH A 44 544 219 HOH HOH . H 5 HOH A 45 545 151 HOH HOH . H 5 HOH A 46 546 51 HOH HOH . H 5 HOH A 47 547 223 HOH HOH . H 5 HOH A 48 548 227 HOH HOH . H 5 HOH A 49 549 149 HOH HOH . H 5 HOH A 50 550 4 HOH HOH . H 5 HOH A 51 551 230 HOH HOH . H 5 HOH A 52 552 70 HOH HOH . H 5 HOH A 53 553 214 HOH HOH . H 5 HOH A 54 554 228 HOH HOH . H 5 HOH A 55 555 61 HOH HOH . H 5 HOH A 56 556 64 HOH HOH . H 5 HOH A 57 557 212 HOH HOH . H 5 HOH A 58 558 209 HOH HOH . H 5 HOH A 59 559 188 HOH HOH . H 5 HOH A 60 560 48 HOH HOH . H 5 HOH A 61 561 213 HOH HOH . H 5 HOH A 62 562 224 HOH HOH . H 5 HOH A 63 563 140 HOH HOH . H 5 HOH A 64 564 21 HOH HOH . H 5 HOH A 65 565 7 HOH HOH . H 5 HOH A 66 566 5 HOH HOH . H 5 HOH A 67 567 184 HOH HOH . H 5 HOH A 68 568 105 HOH HOH . H 5 HOH A 69 569 203 HOH HOH . H 5 HOH A 70 570 221 HOH HOH . H 5 HOH A 71 571 135 HOH HOH . H 5 HOH A 72 572 211 HOH HOH . H 5 HOH A 73 573 155 HOH HOH . H 5 HOH A 74 574 83 HOH HOH . H 5 HOH A 75 575 208 HOH HOH . H 5 HOH A 76 576 50 HOH HOH . H 5 HOH A 77 577 258 HOH HOH . H 5 HOH A 78 578 47 HOH HOH . H 5 HOH A 79 579 110 HOH HOH . H 5 HOH A 80 580 68 HOH HOH . H 5 HOH A 81 581 180 HOH HOH . H 5 HOH A 82 582 34 HOH HOH . H 5 HOH A 83 583 82 HOH HOH . H 5 HOH A 84 584 55 HOH HOH . H 5 HOH A 85 585 133 HOH HOH . H 5 HOH A 86 586 16 HOH HOH . H 5 HOH A 87 587 218 HOH HOH . H 5 HOH A 88 588 206 HOH HOH . H 5 HOH A 89 589 210 HOH HOH . H 5 HOH A 90 590 179 HOH HOH . H 5 HOH A 91 591 52 HOH HOH . H 5 HOH A 92 592 234 HOH HOH . H 5 HOH A 93 593 202 HOH HOH . H 5 HOH A 94 594 196 HOH HOH . H 5 HOH A 95 595 197 HOH HOH . H 5 HOH A 96 596 204 HOH HOH . I 5 HOH B 1 501 156 HOH HOH . I 5 HOH B 2 502 239 HOH HOH . I 5 HOH B 3 503 81 HOH HOH . I 5 HOH B 4 504 217 HOH HOH . I 5 HOH B 5 505 248 HOH HOH . I 5 HOH B 6 506 2 HOH HOH . I 5 HOH B 7 507 207 HOH HOH . I 5 HOH B 8 508 113 HOH HOH . I 5 HOH B 9 509 65 HOH HOH . I 5 HOH B 10 510 240 HOH HOH . I 5 HOH B 11 511 146 HOH HOH . I 5 HOH B 12 512 41 HOH HOH . I 5 HOH B 13 513 225 HOH HOH . I 5 HOH B 14 514 138 HOH HOH . I 5 HOH B 15 515 256 HOH HOH . I 5 HOH B 16 516 131 HOH HOH . I 5 HOH B 17 517 243 HOH HOH . I 5 HOH B 18 518 91 HOH HOH . I 5 HOH B 19 519 44 HOH HOH . I 5 HOH B 20 520 92 HOH HOH . I 5 HOH B 21 521 245 HOH HOH . I 5 HOH B 22 522 85 HOH HOH . I 5 HOH B 23 523 101 HOH HOH . I 5 HOH B 24 524 72 HOH HOH . I 5 HOH B 25 525 229 HOH HOH . I 5 HOH B 26 526 99 HOH HOH . I 5 HOH B 27 527 53 HOH HOH . I 5 HOH B 28 528 30 HOH HOH . I 5 HOH B 29 529 35 HOH HOH . I 5 HOH B 30 530 67 HOH HOH . I 5 HOH B 31 531 236 HOH HOH . I 5 HOH B 32 532 42 HOH HOH . I 5 HOH B 33 533 59 HOH HOH . I 5 HOH B 34 534 193 HOH HOH . I 5 HOH B 35 535 166 HOH HOH . I 5 HOH B 36 536 252 HOH HOH . I 5 HOH B 37 537 136 HOH HOH . I 5 HOH B 38 538 57 HOH HOH . I 5 HOH B 39 539 79 HOH HOH . I 5 HOH B 40 540 22 HOH HOH . I 5 HOH B 41 541 28 HOH HOH . I 5 HOH B 42 542 173 HOH HOH . I 5 HOH B 43 543 175 HOH HOH . I 5 HOH B 44 544 78 HOH HOH . I 5 HOH B 45 545 14 HOH HOH . I 5 HOH B 46 546 45 HOH HOH . I 5 HOH B 47 547 159 HOH HOH . I 5 HOH B 48 548 98 HOH HOH . I 5 HOH B 49 549 10 HOH HOH . I 5 HOH B 50 550 154 HOH HOH . I 5 HOH B 51 551 109 HOH HOH . I 5 HOH B 52 552 246 HOH HOH . I 5 HOH B 53 553 259 HOH HOH . I 5 HOH B 54 554 153 HOH HOH . I 5 HOH B 55 555 6 HOH HOH . I 5 HOH B 56 556 25 HOH HOH . I 5 HOH B 57 557 123 HOH HOH . I 5 HOH B 58 558 100 HOH HOH . I 5 HOH B 59 559 46 HOH HOH . I 5 HOH B 60 560 145 HOH HOH . I 5 HOH B 61 561 3 HOH HOH . I 5 HOH B 62 562 141 HOH HOH . I 5 HOH B 63 563 107 HOH HOH . I 5 HOH B 64 564 71 HOH HOH . I 5 HOH B 65 565 238 HOH HOH . I 5 HOH B 66 566 62 HOH HOH . I 5 HOH B 67 567 187 HOH HOH . I 5 HOH B 68 568 242 HOH HOH . I 5 HOH B 69 569 39 HOH HOH . I 5 HOH B 70 570 93 HOH HOH . I 5 HOH B 71 571 237 HOH HOH . I 5 HOH B 72 572 37 HOH HOH . I 5 HOH B 73 573 250 HOH HOH . I 5 HOH B 74 574 102 HOH HOH . I 5 HOH B 75 575 104 HOH HOH . I 5 HOH B 76 576 94 HOH HOH . I 5 HOH B 77 577 63 HOH HOH . I 5 HOH B 78 578 54 HOH HOH . I 5 HOH B 79 579 249 HOH HOH . I 5 HOH B 80 580 87 HOH HOH . I 5 HOH B 81 581 176 HOH HOH . I 5 HOH B 82 582 186 HOH HOH . I 5 HOH B 83 583 119 HOH HOH . I 5 HOH B 84 584 216 HOH HOH . I 5 HOH B 85 585 19 HOH HOH . I 5 HOH B 86 586 232 HOH HOH . I 5 HOH B 87 587 95 HOH HOH . I 5 HOH B 88 588 49 HOH HOH . I 5 HOH B 89 589 220 HOH HOH . I 5 HOH B 90 590 235 HOH HOH . I 5 HOH B 91 591 255 HOH HOH . I 5 HOH B 92 592 241 HOH HOH . I 5 HOH B 93 593 257 HOH HOH . I 5 HOH B 94 594 174 HOH HOH . I 5 HOH B 95 595 247 HOH HOH . I 5 HOH B 96 596 244 HOH HOH . I 5 HOH B 97 597 128 HOH HOH . I 5 HOH B 98 598 233 HOH HOH . I 5 HOH B 99 599 148 HOH HOH . I 5 HOH B 100 600 254 HOH HOH . I 5 HOH B 101 601 142 HOH HOH . I 5 HOH B 102 602 200 HOH HOH . I 5 HOH B 103 603 198 HOH HOH . I 5 HOH B 104 604 80 HOH HOH . I 5 HOH B 105 605 231 HOH HOH . I 5 HOH B 106 606 253 HOH HOH . I 5 HOH B 107 607 251 HOH HOH . I 5 HOH B 108 608 84 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 CS MTA . . . C 2 48.135 38.458 17.421 1 29.56 ? CS MTA 401 A 1 HETATM 2 S S5' MTA . . . C 2 47.964 38.117 15.702 1 29.46 ? S5' MTA 401 A 1 HETATM 3 C C5' MTA . . . C 2 49.631 37.696 15.282 1 28.82 ? C5' MTA 401 A 1 HETATM 4 C C4' MTA . . . C 2 49.881 36.193 15.238 1 28.51 ? C4' MTA 401 A 1 HETATM 5 O O4' MTA . . . C 2 49.91 35.696 16.578 1 28.4 ? O4' MTA 401 A 1 HETATM 6 C C2' MTA . . . C 2 48.133 34.559 15.546 1 28.33 ? C2' MTA 401 A 1 HETATM 7 O O2' MTA . . . C 2 47.735 33.256 15.111 1 28.13 ? O2' MTA 401 A 1 HETATM 8 C C3' MTA . . . C 2 48.834 35.379 14.471 1 28.44 ? C3' MTA 401 A 1 HETATM 9 O O3' MTA . . . C 2 49.469 34.564 13.481 1 28.15 ? O3' MTA 401 A 1 HETATM 10 C C1' MTA . . . C 2 49.186 34.47 16.642 1 28.19 ? C1' MTA 401 A 1 HETATM 11 N N9 MTA . . . C 2 48.675 34.277 18.022 1 28.14 ? N9 MTA 401 A 1 HETATM 12 C C8 MTA . . . C 2 47.563 34.789 18.581 1 28.17 ? C8 MTA 401 A 1 HETATM 13 N N7 MTA . . . C 2 47.443 34.395 19.871 1 28.14 ? N7 MTA 401 A 1 HETATM 14 C C5 MTA . . . C 2 48.498 33.618 20.158 1 28.01 ? C5 MTA 401 A 1 HETATM 15 C C6 MTA . . . C 2 48.991 32.875 21.341 1 28.08 ? C6 MTA 401 A 1 HETATM 16 N N6 MTA . . . C 2 48.302 32.887 22.507 1 28.13 ? N6 MTA 401 A 1 HETATM 17 N N1 MTA . . . C 2 50.154 32.186 21.21 1 27.98 ? N1 MTA 401 A 1 HETATM 18 C C2 MTA . . . C 2 50.856 32.161 20.052 1 28.01 ? C2 MTA 401 A 1 HETATM 19 N N3 MTA . . . C 2 50.457 32.817 18.943 1 28 ? N3 MTA 401 A 1 HETATM 20 C C4 MTA . . . C 2 49.312 33.548 18.935 1 27.99 ? C4 MTA 401 A 1 # _model_server_stats.io_time_ms 48 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 365 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 20 #