data_7CCG # _model_server_result.job_id sdr5JAifwCnnadm0aUNzgg _model_server_result.datetime_utc '2024-10-20 00:27:58' _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 7ccg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 7CCG # _exptl.entry_id 7CCG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 285.687 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-CHLORO-5'-DEOXYADENOSINE" _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 90 _cell.angle_gamma 120 _cell.entry_id 7CCG _cell.length_a 96.511 _cell.length_b 96.511 _cell.length_c 76.026 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7CCG _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall 'R 3' _symmetry.space_group_name_H-M 'H 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H12 Cl N5 O3' _chem_comp.formula_weight 285.687 _chem_comp.id 5CD _chem_comp.mon_nstd_flag . _chem_comp.name "5'-CHLORO-5'-DEOXYADENOSINE" _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 N9 C8 5CD sing 1 n y N9 C4 5CD sing 2 n y N9 C1' 5CD sing 3 n n C8 N7 5CD doub 4 n y C8 H8 5CD sing 5 n n N7 C5 5CD sing 6 n y C5 C4 5CD doub 7 n y C5 C6 5CD sing 8 n y C4 N3 5CD sing 9 n y N3 C2 5CD doub 10 n y C2 N1 5CD sing 11 n y C2 H2 5CD sing 12 n n N1 C6 5CD doub 13 n y C6 N6 5CD sing 14 n n N6 H6N1 5CD sing 15 n n N6 H6N2 5CD sing 16 n n O2' C2' 5CD sing 17 n n O2' H2' 5CD sing 18 n n C2' C3' 5CD sing 19 n n C2' C1' 5CD sing 20 n n C2' HA 5CD sing 21 n n C3' O3' 5CD sing 22 n n C3' C4' 5CD sing 23 n n C3' H3' 5CD sing 24 n n O3' HB 5CD sing 25 n n C4' C5' 5CD sing 26 n n C4' O4' 5CD sing 27 n n C4' H4' 5CD sing 28 n n C5' CL 5CD sing 29 n n C5' "H5'1" 5CD sing 30 n n C5' "H5'2" 5CD sing 31 n n O4' C1' 5CD sing 32 n n C1' H1' 5CD sing 33 n n # _atom_sites.entry_id 7CCG _atom_sites.fract_transf_matrix[1][1] 0.010362 _atom_sites.fract_transf_matrix[1][2] 0.005982 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011964 _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] 0.013153 _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 B 2 MET A 1 301 301 MET MET . C 3 5CD A 1 302 302 5CD 5CD . D 4 HOH A 1 401 438 HOH HOH . D 4 HOH A 2 402 468 HOH HOH . D 4 HOH A 3 403 517 HOH HOH . D 4 HOH A 4 404 622 HOH HOH . D 4 HOH A 5 405 446 HOH HOH . D 4 HOH A 6 406 484 HOH HOH . D 4 HOH A 7 407 485 HOH HOH . D 4 HOH A 8 408 453 HOH HOH . D 4 HOH A 9 409 447 HOH HOH . D 4 HOH A 10 410 428 HOH HOH . D 4 HOH A 11 411 502 HOH HOH . D 4 HOH A 12 412 409 HOH HOH . D 4 HOH A 13 413 475 HOH HOH . D 4 HOH A 14 414 435 HOH HOH . D 4 HOH A 15 415 471 HOH HOH . D 4 HOH A 16 416 408 HOH HOH . D 4 HOH A 17 417 416 HOH HOH . D 4 HOH A 18 418 403 HOH HOH . D 4 HOH A 19 419 412 HOH HOH . D 4 HOH A 20 420 423 HOH HOH . D 4 HOH A 21 421 492 HOH HOH . D 4 HOH A 22 422 417 HOH HOH . D 4 HOH A 23 423 414 HOH HOH . D 4 HOH A 24 424 549 HOH HOH . D 4 HOH A 25 425 410 HOH HOH . D 4 HOH A 26 426 418 HOH HOH . D 4 HOH A 27 427 573 HOH HOH . D 4 HOH A 28 428 413 HOH HOH . D 4 HOH A 29 429 424 HOH HOH . D 4 HOH A 30 430 621 HOH HOH . D 4 HOH A 31 431 576 HOH HOH . D 4 HOH A 32 432 427 HOH HOH . D 4 HOH A 33 433 489 HOH HOH . D 4 HOH A 34 434 407 HOH HOH . D 4 HOH A 35 435 515 HOH HOH . D 4 HOH A 36 436 406 HOH HOH . D 4 HOH A 37 437 555 HOH HOH . D 4 HOH A 38 438 401 HOH HOH . D 4 HOH A 39 439 488 HOH HOH . D 4 HOH A 40 440 529 HOH HOH . D 4 HOH A 41 441 434 HOH HOH . D 4 HOH A 42 442 535 HOH HOH . D 4 HOH A 43 443 458 HOH HOH . D 4 HOH A 44 444 415 HOH HOH . D 4 HOH A 45 445 433 HOH HOH . D 4 HOH A 46 446 493 HOH HOH . D 4 HOH A 47 447 437 HOH HOH . D 4 HOH A 48 448 465 HOH HOH . D 4 HOH A 49 449 440 HOH HOH . D 4 HOH A 50 450 589 HOH HOH . D 4 HOH A 51 451 457 HOH HOH . D 4 HOH A 52 452 455 HOH HOH . D 4 HOH A 53 453 405 HOH HOH . D 4 HOH A 54 454 464 HOH HOH . D 4 HOH A 55 455 513 HOH HOH . D 4 HOH A 56 456 452 HOH HOH . D 4 HOH A 57 457 479 HOH HOH . D 4 HOH A 58 458 503 HOH HOH . D 4 HOH A 59 459 425 HOH HOH . D 4 HOH A 60 460 499 HOH HOH . D 4 HOH A 61 461 429 HOH HOH . D 4 HOH A 62 462 577 HOH HOH . D 4 HOH A 63 463 426 HOH HOH . D 4 HOH A 64 464 454 HOH HOH . D 4 HOH A 65 465 450 HOH HOH . D 4 HOH A 66 466 509 HOH HOH . D 4 HOH A 67 467 478 HOH HOH . D 4 HOH A 68 468 497 HOH HOH . D 4 HOH A 69 469 536 HOH HOH . D 4 HOH A 70 470 419 HOH HOH . D 4 HOH A 71 471 470 HOH HOH . D 4 HOH A 72 472 486 HOH HOH . D 4 HOH A 73 473 463 HOH HOH . D 4 HOH A 74 474 610 HOH HOH . D 4 HOH A 75 475 533 HOH HOH . D 4 HOH A 76 476 564 HOH HOH . D 4 HOH A 77 477 504 HOH HOH . D 4 HOH A 78 478 480 HOH HOH . D 4 HOH A 79 479 568 HOH HOH . D 4 HOH A 80 480 542 HOH HOH . D 4 HOH A 81 481 557 HOH HOH . D 4 HOH A 82 482 602 HOH HOH . D 4 HOH A 83 483 461 HOH HOH . D 4 HOH A 84 484 560 HOH HOH . D 4 HOH A 85 485 579 HOH HOH . D 4 HOH A 86 486 523 HOH HOH . D 4 HOH A 87 487 594 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 N9 5CD . . . C 3 -19.105 -0.683 39.296 1 38.95 ? N9 5CD 302 A 1 HETATM 2 C C8 5CD . . . C 3 -18.37 -1.802 39.502 1 39.88 ? C8 5CD 302 A 1 HETATM 3 N N7 5CD . . . C 3 -18.676 -2.335 40.684 1 38.65 ? N7 5CD 302 A 1 HETATM 4 C C5 5CD . . . C 3 -19.635 -1.533 41.198 1 41.03 ? C5 5CD 302 A 1 HETATM 5 C C4 5CD . . . C 3 -19.884 -0.532 40.355 1 38.33 ? C4 5CD 302 A 1 HETATM 6 N N3 5CD . . . C 3 -20.82 0.412 40.63 1 40.81 ? N3 5CD 302 A 1 HETATM 7 C C2 5CD . . . C 3 -21.493 0.367 41.793 1 40.13 ? C2 5CD 302 A 1 HETATM 8 N N1 5CD . . . C 3 -21.232 -0.635 42.64 1 39.68 ? N1 5CD 302 A 1 HETATM 9 C C6 5CD . . . C 3 -20.333 -1.586 42.375 1 41.08 ? C6 5CD 302 A 1 HETATM 10 N N6 5CD . . . C 3 -20.15 -2.575 43.415 1 39.33 ? N6 5CD 302 A 1 HETATM 11 O O2' 5CD . . . C 3 -17.828 2.345 38.428 1 39.3 ? O2' 5CD 302 A 1 HETATM 12 C C2' 5CD . . . C 3 -17.906 0.882 38.11 1 38.48 ? C2' 5CD 302 A 1 HETATM 13 C C3' 5CD . . . C 3 -17.37 0.815 36.645 1 36.7 ? C3' 5CD 302 A 1 HETATM 14 O O3' 5CD . . . C 3 -17.159 1.98 35.961 1 35.93 ? O3' 5CD 302 A 1 HETATM 15 C C4' 5CD . . . C 3 -18.574 0.199 35.884 1 40.17 ? C4' 5CD 302 A 1 HETATM 16 C C5' 5CD . . . C 3 -18.4 -0.662 34.621 1 41.62 ? C5' 5CD 302 A 1 HETATM 17 CL CL 5CD . . . C 3 -19.82 -0.298 33.573 1 46.68 ? CL 5CD 302 A 1 HETATM 18 O O4' 5CD . . . C 3 -19.138 -0.588 36.79 1 38.67 ? O4' 5CD 302 A 1 HETATM 19 C C1' 5CD . . . C 3 -19.086 0.227 38.152 1 38.12 ? C1' 5CD 302 A 1 HETATM 20 H H8 5CD . . . C 3 -17.641 -2.204 38.808 1 48.03 ? H8 5CD 302 A 1 HETATM 21 H H2 5CD . . . C 3 -22.228 1.123 42.039 1 48.33 ? H2 5CD 302 A 1 HETATM 22 H H6N1 5CD . . . C 3 -19.235 -2.897 43.651 1 47.37 ? H6N1 5CD 302 A 1 HETATM 23 H H6N2 5CD . . . C 3 -20.957 -2.923 43.893 1 47.37 ? H6N2 5CD 302 A 1 HETATM 24 H H2' 5CD . . . C 3 -18.637 2.751 38.171 1 47.34 ? H2' 5CD 302 A 1 HETATM 25 H HA 5CD . . . C 3 -17.378 0.315 38.869 1 46.35 ? HA 5CD 302 A 1 HETATM 26 H H3' 5CD . . . C 3 -16.434 0.275 36.726 1 44.21 ? H3' 5CD 302 A 1 HETATM 27 H HB 5CD . . . C 3 -16.89 1.845 35.058 1 43.29 ? HB 5CD 302 A 1 HETATM 28 H H4' 5CD . . . C 3 -19.102 1.085 35.547 1 48.38 ? H4' 5CD 302 A 1 HETATM 29 H "H5'1" 5CD . . . C 3 -17.478 -0.401 34.111 1 50.12 ? "H5'1" 5CD 302 A 1 HETATM 30 H "H5'2" 5CD . . . C 3 -18.383 -1.715 34.881 1 50.12 ? "H5'2" 5CD 302 A 1 HETATM 31 H H1' 5CD . . . C 3 -19.919 0.92 38.211 1 45.92 ? H1' 5CD 302 A 1 # _model_server_stats.io_time_ms 71 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #