data_5C3K # _model_server_result.job_id XuNJvEf-IfhLXV5nKuUs8Q _model_server_result.datetime_utc '2024-11-22 19:40:01' _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 5c3k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 5C3K # _exptl.entry_id 5C3K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 181.215 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2S)-1-[(6-aminopyridin-2-yl)amino]-1-oxopropan-2-aminium _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 90 _cell.entry_id 5C3K _cell.length_a 71.616 _cell.length_b 71.616 _cell.length_c 105.104 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5C3K _symmetry.cell_setting ? _symmetry.Int_Tables_number 91 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details 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 # _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 # _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 # 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 disulf ? disulf1 A SG CYS 107 A CYS 351 1_555 A SG CYS 107 A CYS 351 5_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? metalc ? metalc1 A SG CYS 56 A CYS 300 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc2 A SG CYS 59 A CYS 303 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.215 ? metalc ? metalc3 A NE2 HIS 76 A HIS 320 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc4 A SG CYS 83 A CYS 327 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? # _chem_comp.formula 'C8 H13 N4 O 1' _chem_comp.formula_weight 181.215 _chem_comp.id 4XF _chem_comp.mon_nstd_flag . _chem_comp.name (2S)-1-[(6-aminopyridin-2-yl)amino]-1-oxopropan-2-aminium _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 C14 C13 4XF doub 1 n y C14 C15 4XF sing 2 n y N16 C15 4XF sing 3 n n C13 C12 4XF sing 4 n y C15 N17 4XF doub 5 n y C12 C11 4XF doub 6 n y N17 C11 4XF sing 7 n y C11 N10 4XF sing 8 n n N10 C8 4XF sing 9 n n O9 C8 4XF doub 10 n n C8 C2 4XF sing 11 n n C2 C1 4XF sing 12 n n C2 N4 4XF sing 13 n n C1 H19 4XF sing 14 n n C1 H18 4XF sing 15 n n C1 H20 4XF sing 16 n n C2 H3 4XF sing 17 n n N4 H7 4XF sing 18 n n N4 H5 4XF sing 19 n n C12 H22 4XF sing 20 n n C13 H23 4XF sing 21 n n C14 H24 4XF sing 22 n n N10 H21 4XF sing 23 n n N16 H25 4XF sing 24 n n N16 H26 4XF sing 25 n n N4 H2 4XF sing 26 n n # _atom_sites.entry_id 5C3K _atom_sites.fract_transf_matrix[1][1] 0.013963 _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] 0.013963 _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] 0.009514 _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 ZN A 1 401 1 ZN ZN . C 3 4XF A 1 402 1 4XF L01 . D 4 HOH A 1 501 128 HOH HOH . D 4 HOH A 2 502 111 HOH HOH . D 4 HOH A 3 503 12 HOH HOH . D 4 HOH A 4 504 115 HOH HOH . D 4 HOH A 5 505 162 HOH HOH . D 4 HOH A 6 506 89 HOH HOH . D 4 HOH A 7 507 17 HOH HOH . D 4 HOH A 8 508 35 HOH HOH . D 4 HOH A 9 509 75 HOH HOH . D 4 HOH A 10 510 3 HOH HOH . D 4 HOH A 11 511 157 HOH HOH . D 4 HOH A 12 512 127 HOH HOH . D 4 HOH A 13 513 21 HOH HOH . D 4 HOH A 14 514 20 HOH HOH . D 4 HOH A 15 515 18 HOH HOH . D 4 HOH A 16 516 166 HOH HOH . D 4 HOH A 17 517 51 HOH HOH . D 4 HOH A 18 518 25 HOH HOH . D 4 HOH A 19 519 48 HOH HOH . D 4 HOH A 20 520 2 HOH HOH . D 4 HOH A 21 521 30 HOH HOH . D 4 HOH A 22 522 8 HOH HOH . D 4 HOH A 23 523 14 HOH HOH . D 4 HOH A 24 524 96 HOH HOH . D 4 HOH A 25 525 13 HOH HOH . D 4 HOH A 26 526 36 HOH HOH . D 4 HOH A 27 527 74 HOH HOH . D 4 HOH A 28 528 11 HOH HOH . D 4 HOH A 29 529 77 HOH HOH . D 4 HOH A 30 530 113 HOH HOH . D 4 HOH A 31 531 31 HOH HOH . D 4 HOH A 32 532 106 HOH HOH . D 4 HOH A 33 533 49 HOH HOH . D 4 HOH A 34 534 22 HOH HOH . D 4 HOH A 35 535 103 HOH HOH . D 4 HOH A 36 536 53 HOH HOH . D 4 HOH A 37 537 167 HOH HOH . D 4 HOH A 38 538 4 HOH HOH . D 4 HOH A 39 539 141 HOH HOH . D 4 HOH A 40 540 129 HOH HOH . D 4 HOH A 41 541 158 HOH HOH . D 4 HOH A 42 542 161 HOH HOH . D 4 HOH A 43 543 136 HOH HOH . D 4 HOH A 44 544 135 HOH HOH . D 4 HOH A 45 545 99 HOH HOH . D 4 HOH A 46 546 27 HOH HOH . D 4 HOH A 47 547 42 HOH HOH . D 4 HOH A 48 548 28 HOH HOH . D 4 HOH A 49 549 1 HOH HOH . D 4 HOH A 50 550 148 HOH HOH . D 4 HOH A 51 551 144 HOH HOH . D 4 HOH A 52 552 152 HOH HOH . D 4 HOH A 53 553 16 HOH HOH . D 4 HOH A 54 554 76 HOH HOH . D 4 HOH A 55 555 50 HOH HOH . D 4 HOH A 56 556 132 HOH HOH . D 4 HOH A 57 557 71 HOH HOH . D 4 HOH A 58 558 130 HOH HOH . D 4 HOH A 59 559 147 HOH HOH . D 4 HOH A 60 560 146 HOH HOH . D 4 HOH A 61 561 150 HOH HOH . D 4 HOH A 62 562 66 HOH HOH . D 4 HOH A 63 563 105 HOH HOH . D 4 HOH A 64 564 125 HOH HOH . D 4 HOH A 65 565 143 HOH HOH . D 4 HOH A 66 566 149 HOH HOH . D 4 HOH A 67 567 117 HOH HOH . D 4 HOH A 68 568 34 HOH HOH . D 4 HOH A 69 569 39 HOH HOH . D 4 HOH A 70 570 55 HOH HOH . D 4 HOH A 71 571 154 HOH HOH . D 4 HOH A 72 572 57 HOH HOH . D 4 HOH A 73 573 134 HOH HOH . D 4 HOH A 74 574 133 HOH HOH . D 4 HOH A 75 575 110 HOH HOH . D 4 HOH A 76 576 85 HOH HOH . D 4 HOH A 77 577 38 HOH HOH . D 4 HOH A 78 578 7 HOH HOH . D 4 HOH A 79 579 94 HOH HOH . D 4 HOH A 80 580 73 HOH HOH . D 4 HOH A 81 581 156 HOH HOH . D 4 HOH A 82 582 68 HOH HOH . D 4 HOH A 83 583 9 HOH HOH . D 4 HOH A 84 584 118 HOH HOH . D 4 HOH A 85 585 37 HOH HOH . D 4 HOH A 86 586 33 HOH HOH . D 4 HOH A 87 587 119 HOH HOH . D 4 HOH A 88 588 91 HOH HOH . D 4 HOH A 89 589 61 HOH HOH . D 4 HOH A 90 590 5 HOH HOH . D 4 HOH A 91 591 80 HOH HOH . D 4 HOH A 92 592 121 HOH HOH . D 4 HOH A 93 593 72 HOH HOH . D 4 HOH A 94 594 137 HOH HOH . D 4 HOH A 95 595 145 HOH HOH . D 4 HOH A 96 596 46 HOH HOH . D 4 HOH A 97 597 100 HOH HOH . D 4 HOH A 98 598 102 HOH HOH . D 4 HOH A 99 599 151 HOH HOH . D 4 HOH A 100 600 140 HOH HOH . D 4 HOH A 101 601 153 HOH HOH . D 4 HOH A 102 602 95 HOH HOH . D 4 HOH A 103 603 112 HOH HOH . D 4 HOH A 104 604 6 HOH HOH . D 4 HOH A 105 605 104 HOH HOH . D 4 HOH A 106 606 10 HOH HOH . D 4 HOH A 107 607 142 HOH HOH . D 4 HOH A 108 608 122 HOH HOH . D 4 HOH A 109 609 109 HOH HOH . D 4 HOH A 110 610 88 HOH HOH . D 4 HOH A 111 611 98 HOH HOH . D 4 HOH A 112 612 26 HOH HOH . D 4 HOH A 113 613 19 HOH HOH . D 4 HOH A 114 614 138 HOH HOH . D 4 HOH A 115 615 65 HOH HOH . D 4 HOH A 116 616 32 HOH HOH . D 4 HOH A 117 617 62 HOH HOH . D 4 HOH A 118 618 78 HOH HOH . D 4 HOH A 119 619 15 HOH HOH . D 4 HOH A 120 620 60 HOH HOH . D 4 HOH A 121 621 123 HOH HOH . D 4 HOH A 122 622 163 HOH HOH . D 4 HOH A 123 623 101 HOH HOH . D 4 HOH A 124 624 155 HOH HOH . D 4 HOH A 125 625 44 HOH HOH . D 4 HOH A 126 626 79 HOH HOH . D 4 HOH A 127 627 107 HOH HOH . D 4 HOH A 128 628 43 HOH HOH . D 4 HOH A 129 629 29 HOH HOH . D 4 HOH A 130 630 83 HOH HOH . D 4 HOH A 131 631 40 HOH HOH . D 4 HOH A 132 632 170 HOH HOH . D 4 HOH A 133 633 67 HOH HOH . D 4 HOH A 134 634 69 HOH HOH . D 4 HOH A 135 635 24 HOH HOH . D 4 HOH A 136 636 168 HOH HOH . D 4 HOH A 137 637 47 HOH HOH . D 4 HOH A 138 638 84 HOH HOH . D 4 HOH A 139 639 131 HOH HOH . D 4 HOH A 140 640 56 HOH HOH . D 4 HOH A 141 641 169 HOH HOH . D 4 HOH A 142 642 114 HOH HOH . D 4 HOH A 143 643 108 HOH HOH . D 4 HOH A 144 644 139 HOH HOH . D 4 HOH A 145 645 70 HOH HOH . D 4 HOH A 146 646 63 HOH HOH . D 4 HOH A 147 647 82 HOH HOH . D 4 HOH A 148 648 93 HOH HOH . D 4 HOH A 149 649 45 HOH HOH . D 4 HOH A 150 650 64 HOH HOH . D 4 HOH A 151 651 165 HOH HOH . D 4 HOH A 152 652 92 HOH HOH . D 4 HOH A 153 653 58 HOH HOH . D 4 HOH A 154 654 41 HOH HOH . D 4 HOH A 155 655 23 HOH HOH . D 4 HOH A 156 656 116 HOH HOH . D 4 HOH A 157 657 120 HOH HOH . D 4 HOH A 158 658 81 HOH HOH . D 4 HOH A 159 659 124 HOH HOH . D 4 HOH A 160 660 159 HOH HOH . D 4 HOH A 161 661 97 HOH HOH . D 4 HOH A 162 662 86 HOH HOH . D 4 HOH A 163 663 164 HOH HOH . D 4 HOH A 164 664 52 HOH HOH . D 4 HOH A 165 665 126 HOH HOH . D 4 HOH A 166 666 87 HOH HOH . D 4 HOH A 167 667 90 HOH HOH . D 4 HOH A 168 668 54 HOH HOH . D 4 HOH A 169 669 59 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 C1 4XF . . . C 3 -15.604 -21.47 -0.885 1 32.9 ? C1 4XF 402 A 1 HETATM 2 C C2 4XF . . . C 3 -15.83 -19.966 -0.977 1 33.67 ? C2 4XF 402 A 1 HETATM 3 N N4 4XF . . . C 3 -16.857 -19.542 0.02 1 37.7 1 N4 4XF 402 A 1 HETATM 4 C C8 4XF . . . C 3 -16.278 -19.554 -2.378 1 33.99 ? C8 4XF 402 A 1 HETATM 5 O O9 4XF . . . C 3 -17.455 -19.28 -2.611 1 37.89 ? O9 4XF 402 A 1 HETATM 6 C C11 4XF . . . C 3 -15.382 -19.364 -4.703 1 28.85 ? C11 4XF 402 A 1 HETATM 7 C C12 4XF . . . C 3 -16.552 -19.137 -5.425 1 30.43 ? C12 4XF 402 A 1 HETATM 8 C C13 4XF . . . C 3 -16.472 -19.006 -6.792 1 32.54 ? C13 4XF 402 A 1 HETATM 9 C C14 4XF . . . C 3 -15.245 -19.102 -7.414 1 32.63 ? C14 4XF 402 A 1 HETATM 10 C C15 4XF . . . C 3 -14.083 -19.334 -6.638 1 32.32 ? C15 4XF 402 A 1 HETATM 11 N N10 4XF . . . C 3 -15.299 -19.52 -3.31 1 30.06 ? N10 4XF 402 A 1 HETATM 12 N N16 4XF . . . C 3 -12.876 -19.435 -7.184 1 35.22 ? N16 4XF 402 A 1 HETATM 13 N N17 4XF . . . C 3 -14.181 -19.461 -5.285 1 30.58 ? N17 4XF 402 A 1 HETATM 14 H H19 4XF . . . C 3 -14.94 -21.741 -1.549 1 33.13 ? H19 4XF 402 A 1 HETATM 15 H H18 4XF . . . C 3 -16.446 -21.937 -1.057 1 33.22 ? H18 4XF 402 A 1 HETATM 16 H H20 4XF . . . C 3 -15.282 -21.697 0.009 1 33.13 ? H20 4XF 402 A 1 HETATM 17 H H3 4XF . . . C 3 -14.992 -19.498 -0.761 1 32.85 ? H3 4XF 402 A 1 HETATM 18 H H7 4XF . . . C 3 -17.334 -18.822 -0.299 1 36.14 ? H7 4XF 402 A 1 HETATM 19 H H5 4XF . . . C 3 -16.45 -19.299 0.791 1 35.81 ? H5 4XF 402 A 1 HETATM 20 H H22 4XF . . . C 3 -17.374 -19.074 -4.99 1 30 ? H22 4XF 402 A 1 HETATM 21 H H23 4XF . . . C 3 -17.25 -18.852 -7.298 1 30.78 ? H23 4XF 402 A 1 HETATM 22 H H24 4XF . . . C 3 -15.18 -19.013 -8.351 1 32.4 ? H24 4XF 402 A 1 HETATM 23 H H21 4XF . . . C 3 -14.482 -19.604 -2.998 1 30.83 ? H21 4XF 402 A 1 HETATM 24 H H25 4XF . . . C 3 -12.785 -19.36 -8.063 1 33.74 ? H25 4XF 402 A 1 HETATM 25 H H26 4XF . . . C 3 -12.176 -19.563 -6.676 1 33.57 ? H26 4XF 402 A 1 HETATM 26 H H2 4XF . . . C 3 -17.439 -20.229 0.193 1 35.63 ? H2 4XF 402 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 26 #