data_4JSK # _model_server_result.job_id tZqikaPvCQEhPM7VAmzfzw _model_server_result.datetime_utc '2024-11-23 11:20:16' _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 4jsk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":503}' # _entry.id 4JSK # _exptl.entry_id 4JSK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.399 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "6,6'-pentane-1,5-diylbis(4-methylpyridin-2-amine)" _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 4JSK _cell.length_a 58.432 _cell.length_b 106.572 _cell.length_c 156.972 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4JSK _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,N,O,P,Q _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 L 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 covale ? covale1 A C VAL 344 A VAL 383 1_555 A N CAS 345 A CAS 384 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? covale ? covale2 A C CAS 345 A CAS 384 1_555 A N MET 346 A MET 385 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale3 B C VAL 344 B VAL 383 1_555 B N CAS 345 B CAS 384 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 B C CAS 345 B CAS 384 1_555 B N MET 346 B MET 385 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? metalc ? metalc1 A SG CYS 57 A CYS 96 1_555 I ZN ZN . A ZN 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? metalc ? metalc2 A SG CYS 62 A CYS 101 1_555 I ZN ZN . A ZN 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc3 A SG CYS 147 A CYS 186 1_555 C FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.589 ? metalc ? metalc4 I ZN ZN . A ZN 507 1_555 B SG CYS 57 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc5 I ZN ZN . A ZN 507 1_555 B SG CYS 62 B CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? metalc ? metalc6 B SG CYS 147 B CYS 186 1_555 J FE HEM . B HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? # _chem_comp.formula 'C17 H24 N4' _chem_comp.formula_weight 284.399 _chem_comp.id QJ2 _chem_comp.mon_nstd_flag . _chem_comp.name "6,6'-pentane-1,5-diylbis(4-methylpyridin-2-amine)" _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 C07 C04 QJ2 sing 432 n n C04 C03 QJ2 doub 433 n y C04 C05 QJ2 sing 434 n y C03 C02 QJ2 sing 435 n y C05 C06 QJ2 doub 436 n y C27 C24 QJ2 sing 437 n n C23 C24 QJ2 doub 438 n y C23 C22 QJ2 sing 439 n y N22 C22 QJ2 sing 440 n n C24 C25 QJ2 sing 441 n y C02 N02 QJ2 sing 442 n n C02 N01 QJ2 doub 443 n y C06 N01 QJ2 sing 444 n y C06 C08 QJ2 sing 445 n n C22 N21 QJ2 doub 446 n y C08 C09 QJ2 sing 447 n n C25 C26 QJ2 doub 448 n y C09 C10 QJ2 sing 449 n n N21 C26 QJ2 sing 450 n y C10 C11 QJ2 sing 451 n n C26 C12 QJ2 sing 452 n n C11 C12 QJ2 sing 453 n n N22 H1 QJ2 sing 454 n n N22 H2 QJ2 sing 455 n n C23 H3 QJ2 sing 456 n n C27 H4 QJ2 sing 457 n n C27 H5 QJ2 sing 458 n n C27 H6 QJ2 sing 459 n n C25 H7 QJ2 sing 460 n n C12 H8 QJ2 sing 461 n n C12 H9 QJ2 sing 462 n n C11 H10 QJ2 sing 463 n n C11 H11 QJ2 sing 464 n n C10 H12 QJ2 sing 465 n n C10 H13 QJ2 sing 466 n n C09 H14 QJ2 sing 467 n n C09 H15 QJ2 sing 468 n n C08 H16 QJ2 sing 469 n n C08 H17 QJ2 sing 470 n n N02 H18 QJ2 sing 471 n n N02 H19 QJ2 sing 472 n n C03 H20 QJ2 sing 473 n n C05 H21 QJ2 sing 474 n n C07 H22 QJ2 sing 475 n n C07 H23 QJ2 sing 476 n n C07 H24 QJ2 sing 477 n n # _atom_sites.entry_id 4JSK _atom_sites.fract_transf_matrix[1][1] 0.017114 _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] 0.009383 _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] 0.006371 _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 1 501 500 HEM HEM . D 3 H4B A 1 502 600 H4B BH4 . E 4 QJ2 A 1 503 800 QJ2 QJ2 . F 5 ACT A 1 504 860 ACT ACT . G 5 ACT A 1 505 861 ACT ACT . H 6 GOL A 1 506 880 GOL GOL . I 7 ZN A 1 507 900 ZN ZN . J 2 HEM B 1 501 500 HEM HEM . K 3 H4B B 1 502 600 H4B BH4 . L 4 QJ2 B 1 503 800 QJ2 QJ2 . M 5 ACT B 1 504 860 ACT ACT . N 5 ACT B 1 505 861 ACT ACT . O 6 GOL B 1 506 880 GOL GOL . P 8 HOH A 1 601 2 HOH HOH . P 8 HOH A 2 602 4 HOH HOH . P 8 HOH A 3 603 5 HOH HOH . P 8 HOH A 4 604 7 HOH HOH . P 8 HOH A 5 605 9 HOH HOH . P 8 HOH A 6 606 10 HOH HOH . P 8 HOH A 7 607 12 HOH HOH . P 8 HOH A 8 608 15 HOH HOH . P 8 HOH A 9 609 17 HOH HOH . P 8 HOH A 10 610 18 HOH HOH . P 8 HOH A 11 611 19 HOH HOH . P 8 HOH A 12 612 20 HOH HOH . P 8 HOH A 13 613 24 HOH HOH . P 8 HOH A 14 614 25 HOH HOH . P 8 HOH A 15 615 26 HOH HOH . P 8 HOH A 16 616 29 HOH HOH . P 8 HOH A 17 617 30 HOH HOH . P 8 HOH A 18 618 31 HOH HOH . P 8 HOH A 19 619 33 HOH HOH . P 8 HOH A 20 620 34 HOH HOH . P 8 HOH A 21 621 38 HOH HOH . P 8 HOH A 22 622 41 HOH HOH . P 8 HOH A 23 623 42 HOH HOH . P 8 HOH A 24 624 43 HOH HOH . P 8 HOH A 25 625 44 HOH HOH . P 8 HOH A 26 626 45 HOH HOH . P 8 HOH A 27 627 46 HOH HOH . P 8 HOH A 28 628 47 HOH HOH . P 8 HOH A 29 629 48 HOH HOH . P 8 HOH A 30 630 49 HOH HOH . P 8 HOH A 31 631 52 HOH HOH . P 8 HOH A 32 632 53 HOH HOH . P 8 HOH A 33 633 54 HOH HOH . P 8 HOH A 34 634 56 HOH HOH . P 8 HOH A 35 635 57 HOH HOH . P 8 HOH A 36 636 58 HOH HOH . P 8 HOH A 37 637 60 HOH HOH . P 8 HOH A 38 638 63 HOH HOH . P 8 HOH A 39 639 64 HOH HOH . P 8 HOH A 40 640 65 HOH HOH . P 8 HOH A 41 641 71 HOH HOH . P 8 HOH A 42 642 73 HOH HOH . P 8 HOH A 43 643 74 HOH HOH . P 8 HOH A 44 644 78 HOH HOH . P 8 HOH A 45 645 80 HOH HOH . P 8 HOH A 46 646 81 HOH HOH . P 8 HOH A 47 647 85 HOH HOH . P 8 HOH A 48 648 88 HOH HOH . P 8 HOH A 49 649 95 HOH HOH . P 8 HOH A 50 650 96 HOH HOH . P 8 HOH A 51 651 97 HOH HOH . P 8 HOH A 52 652 98 HOH HOH . P 8 HOH A 53 653 99 HOH HOH . P 8 HOH A 54 654 100 HOH HOH . P 8 HOH A 55 655 102 HOH HOH . P 8 HOH A 56 656 105 HOH HOH . P 8 HOH A 57 657 107 HOH HOH . P 8 HOH A 58 658 108 HOH HOH . P 8 HOH A 59 659 109 HOH HOH . P 8 HOH A 60 660 116 HOH HOH . P 8 HOH A 61 661 117 HOH HOH . P 8 HOH A 62 662 118 HOH HOH . P 8 HOH A 63 663 120 HOH HOH . P 8 HOH A 64 664 122 HOH HOH . P 8 HOH A 65 665 136 HOH HOH . Q 8 HOH B 1 601 1 HOH HOH . Q 8 HOH B 2 602 3 HOH HOH . Q 8 HOH B 3 603 6 HOH HOH . Q 8 HOH B 4 604 8 HOH HOH . Q 8 HOH B 5 605 11 HOH HOH . Q 8 HOH B 6 606 13 HOH HOH . Q 8 HOH B 7 607 14 HOH HOH . Q 8 HOH B 8 608 16 HOH HOH . Q 8 HOH B 9 609 21 HOH HOH . Q 8 HOH B 10 610 22 HOH HOH . Q 8 HOH B 11 611 23 HOH HOH . Q 8 HOH B 12 612 27 HOH HOH . Q 8 HOH B 13 613 28 HOH HOH . Q 8 HOH B 14 614 32 HOH HOH . Q 8 HOH B 15 615 35 HOH HOH . Q 8 HOH B 16 616 36 HOH HOH . Q 8 HOH B 17 617 37 HOH HOH . Q 8 HOH B 18 618 39 HOH HOH . Q 8 HOH B 19 619 40 HOH HOH . Q 8 HOH B 20 620 50 HOH HOH . Q 8 HOH B 21 621 51 HOH HOH . Q 8 HOH B 22 622 55 HOH HOH . Q 8 HOH B 23 623 59 HOH HOH . Q 8 HOH B 24 624 61 HOH HOH . Q 8 HOH B 25 625 62 HOH HOH . Q 8 HOH B 26 626 66 HOH HOH . Q 8 HOH B 27 627 67 HOH HOH . Q 8 HOH B 28 628 68 HOH HOH . Q 8 HOH B 29 629 69 HOH HOH . Q 8 HOH B 30 630 70 HOH HOH . Q 8 HOH B 31 631 72 HOH HOH . Q 8 HOH B 32 632 75 HOH HOH . Q 8 HOH B 33 633 76 HOH HOH . Q 8 HOH B 34 634 77 HOH HOH . Q 8 HOH B 35 635 79 HOH HOH . Q 8 HOH B 36 636 82 HOH HOH . Q 8 HOH B 37 637 83 HOH HOH . Q 8 HOH B 38 638 84 HOH HOH . Q 8 HOH B 39 639 86 HOH HOH . Q 8 HOH B 40 640 87 HOH HOH . Q 8 HOH B 41 641 89 HOH HOH . Q 8 HOH B 42 642 90 HOH HOH . Q 8 HOH B 43 643 91 HOH HOH . Q 8 HOH B 44 644 92 HOH HOH . Q 8 HOH B 45 645 93 HOH HOH . Q 8 HOH B 46 646 94 HOH HOH . Q 8 HOH B 47 647 101 HOH HOH . Q 8 HOH B 48 648 103 HOH HOH . Q 8 HOH B 49 649 104 HOH HOH . Q 8 HOH B 50 650 106 HOH HOH . Q 8 HOH B 51 651 110 HOH HOH . Q 8 HOH B 52 652 111 HOH HOH . Q 8 HOH B 53 653 112 HOH HOH . Q 8 HOH B 54 654 113 HOH HOH . Q 8 HOH B 55 655 114 HOH HOH . Q 8 HOH B 56 656 115 HOH HOH . Q 8 HOH B 57 657 119 HOH HOH . Q 8 HOH B 58 658 121 HOH HOH . Q 8 HOH B 59 659 123 HOH HOH . Q 8 HOH B 60 660 124 HOH HOH . Q 8 HOH B 61 661 125 HOH HOH . Q 8 HOH B 62 662 126 HOH HOH . Q 8 HOH B 63 663 127 HOH HOH . Q 8 HOH B 64 664 128 HOH HOH . Q 8 HOH B 65 665 129 HOH HOH . Q 8 HOH B 66 666 130 HOH HOH . Q 8 HOH B 67 667 131 HOH HOH . Q 8 HOH B 68 668 132 HOH HOH . Q 8 HOH B 69 669 133 HOH HOH . Q 8 HOH B 70 670 134 HOH HOH . Q 8 HOH B 71 671 135 HOH HOH . Q 8 HOH B 72 672 137 HOH HOH . Q 8 HOH B 73 673 138 HOH HOH . Q 8 HOH B 74 674 139 HOH HOH . Q 8 HOH B 75 675 140 HOH HOH . Q 8 HOH B 76 676 141 HOH HOH . Q 8 HOH B 77 677 142 HOH HOH . Q 8 HOH B 78 678 143 HOH HOH . Q 8 HOH B 79 679 144 HOH HOH . Q 8 HOH B 80 680 145 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 N22 QJ2 . . . E 4 16.209 13.323 33.665 1 75.43 ? N22 QJ2 503 A 1 HETATM 2 C C22 QJ2 . . . E 4 15.735 13.886 34.801 1 76.01 ? C22 QJ2 503 A 1 HETATM 3 C C23 QJ2 . . . E 4 16.596 14.28 35.832 1 77.05 ? C23 QJ2 503 A 1 HETATM 4 C C24 QJ2 . . . E 4 16.051 14.854 36.989 1 78.09 ? C24 QJ2 503 A 1 HETATM 5 C C27 QJ2 . . . E 4 16.984 15.278 38.104 1 77.33 ? C27 QJ2 503 A 1 HETATM 6 C C25 QJ2 . . . E 4 14.649 15.021 37.099 1 76.01 ? C25 QJ2 503 A 1 HETATM 7 N N21 QJ2 . . . E 4 14.403 14.069 34.922 1 74.79 ? N21 QJ2 503 A 1 HETATM 8 C C26 QJ2 . . . E 4 13.842 14.618 36.03 1 72.48 ? C26 QJ2 503 A 1 HETATM 9 C C12 QJ2 . . . E 4 12.342 14.768 36.033 1 67.21 ? C12 QJ2 503 A 1 HETATM 10 C C11 QJ2 . . . E 4 11.913 14.547 34.588 1 61.07 ? C11 QJ2 503 A 1 HETATM 11 C C10 QJ2 . . . E 4 10.414 14.452 34.386 1 56.15 ? C10 QJ2 503 A 1 HETATM 12 C C09 QJ2 . . . E 4 9.965 13.163 33.685 1 52.09 ? C09 QJ2 503 A 1 HETATM 13 C C08 QJ2 . . . E 4 8.627 13.53 33.066 1 46.65 ? C08 QJ2 503 A 1 HETATM 14 C C06 QJ2 . . . E 4 7.835 12.575 32.187 1 44.97 ? C06 QJ2 503 A 1 HETATM 15 N N01 QJ2 . . . E 4 6.473 12.526 32.374 1 41.2 ? N01 QJ2 503 A 1 HETATM 16 C C02 QJ2 . . . E 4 5.648 11.773 31.605 1 39.59 ? C02 QJ2 503 A 1 HETATM 17 N N02 QJ2 . . . E 4 4.31 11.823 31.925 1 39.32 ? N02 QJ2 503 A 1 HETATM 18 C C03 QJ2 . . . E 4 6.181 11.015 30.539 1 38.56 ? C03 QJ2 503 A 1 HETATM 19 C C04 QJ2 . . . E 4 7.593 11.047 30.339 1 42.07 ? C04 QJ2 503 A 1 HETATM 20 C C05 QJ2 . . . E 4 8.411 11.826 31.162 1 40.62 ? C05 QJ2 503 A 1 HETATM 21 C C07 QJ2 . . . E 4 8.295 10.281 29.237 1 37.53 ? C07 QJ2 503 A 1 # _model_server_stats.io_time_ms 69 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 21 #