data_4XEA # _model_server_result.job_id i9RVaDbsq_bn_vquUYvwdA _model_server_result.datetime_utc '2024-12-26 22:16:16' _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 4xea # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":502}' # _entry.id 4XEA # _exptl.entry_id 4XEA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 58.693 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NICKEL (II) ION' _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 4XEA _cell.length_a 127.201 _cell.length_b 127.201 _cell.length_c 65.991 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XEA _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 7_556 y,x,-z+1 0 1 0 1 0 0 0 0 -1 0 0 65.991 # _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 covale ? covale1 A C LEU 22 A LEU 28 1_555 A N MSE 23 A MSE 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale2 A C MSE 23 A MSE 29 1_555 A N PRO 24 A PRO 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? covale ? covale3 A C ALA 33 A ALA 39 1_555 A N MSE 34 A MSE 40 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale4 A C MSE 34 A MSE 40 1_555 A N PHE 35 A PHE 41 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale5 A C GLU 54 A GLU 60 1_555 A N MSE 55 A MSE 61 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale6 A C MSE 55 A MSE 61 1_555 A N PRO 56 A PRO 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.346 ? covale ? covale7 A C LYS 66 A LYS 72 1_555 A N MSE 67 A MSE 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale8 A C MSE 67 A MSE 73 1_555 A N PHE 68 A PHE 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale9 A C GLU 72 A GLU 78 1_555 A N MSE 73 A MSE 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale10 A C MSE 73 A MSE 79 1_555 A N ASP 74 A ASP 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? covale ? covale11 A C HIS 138 A HIS 144 1_555 A N MSE 139 A MSE 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale12 A C MSE 139 A MSE 145 1_555 A N VAL 140 A VAL 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale13 A C TYR 149 A TYR 155 1_555 A N MSE 150 A MSE 156 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale14 A C MSE 150 A MSE 156 1_555 A N GLU 151 A GLU 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale15 A C ALA 155 A ALA 161 1_555 A N MSE 156 A MSE 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale16 A C MSE 156 A MSE 162 1_555 A N TYR 157 A TYR 163 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale17 A C ASN 193 A ASN 199 1_555 A N MSE 194 A MSE 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale18 A C MSE 194 A MSE 200 1_555 A N VAL 195 A VAL 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? covale ? covale19 A C TRP 243 A TRP 249 1_555 A N MSE 244 A MSE 250 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.345 ? covale ? covale20 A C MSE 244 A MSE 250 1_555 A N HIS 245 A HIS 251 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale21 A C ALA 274 A ALA 280 1_555 A N MSE 275 A MSE 281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale22 A C MSE 275 A MSE 281 1_555 A N THR 276 A THR 282 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale23 A C ILE 356 A ILE 362 1_555 A N MSE 357 A MSE 363 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale24 A C MSE 357 A MSE 363 1_555 A N GLY 358 A GLY 364 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale25 A C LEU 361 A LEU 367 1_555 A N MSE 362 A MSE 368 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale26 A C MSE 362 A MSE 368 1_555 A N SER 363 A SER 369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale27 A C THR 396 A THR 402 1_555 A N MSE 397 A MSE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale28 A C MSE 397 A MSE 403 1_555 A N THR 398 A THR 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale29 A C ASN 414 A ASN 420 1_555 A N MSE 415 A MSE 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale30 A C MSE 415 A MSE 421 1_555 A N VAL 416 A VAL 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? metalc ? metalc1 A NE2 HIS 61 A HIS 67 1_555 C NI NI . A NI 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc2 A NE2 HIS 65 A HIS 71 1_555 C NI NI . A NI 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? metalc ? metalc3 A O MSE 67 A MSE 73 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.468 ? metalc ? metalc4 A O PHE 115 A PHE 121 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc5 A O SER 118 A SER 124 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc6 A OE2 GLU 136 A GLU 142 1_555 C NI NI . A NI 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? metalc ? metalc7 B NA NA . A NA 501 1_555 H O HOH . A HOH 660 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? metalc ? metalc8 B NA NA . A NA 501 1_555 H O HOH . A HOH 676 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.538 ? metalc ? metalc9 C NI NI . A NI 502 1_555 H O HOH . A HOH 622 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.441 ? # _chem_comp.formula 'Ni 2' _chem_comp.formula_weight 58.693 _chem_comp.id NI _chem_comp.mon_nstd_flag . _chem_comp.name 'NICKEL (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 4XEA _atom_sites.fract_transf_matrix[1][1] 0.007862 _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] 0.007862 _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] 0.015154 _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 NA A 1 501 1 NA NA . C 3 NI A 1 502 2 NI NI . D 4 ACT A 1 503 2 ACT ACT . E 4 ACT A 1 504 3 ACT ACT . F 5 GOL A 1 505 1 GOL GOL . G 5 GOL A 1 506 2 GOL GOL . H 6 HOH A 1 601 68 HOH HOH . H 6 HOH A 2 602 114 HOH HOH . H 6 HOH A 3 603 113 HOH HOH . H 6 HOH A 4 604 18 HOH HOH . H 6 HOH A 5 605 43 HOH HOH . H 6 HOH A 6 606 19 HOH HOH . H 6 HOH A 7 607 76 HOH HOH . H 6 HOH A 8 608 17 HOH HOH . H 6 HOH A 9 609 59 HOH HOH . H 6 HOH A 10 610 122 HOH HOH . H 6 HOH A 11 611 60 HOH HOH . H 6 HOH A 12 612 37 HOH HOH . H 6 HOH A 13 613 38 HOH HOH . H 6 HOH A 14 614 5 HOH HOH . H 6 HOH A 15 615 62 HOH HOH . H 6 HOH A 16 616 87 HOH HOH . H 6 HOH A 17 617 69 HOH HOH . H 6 HOH A 18 618 39 HOH HOH . H 6 HOH A 19 619 84 HOH HOH . H 6 HOH A 20 620 74 HOH HOH . H 6 HOH A 21 621 29 HOH HOH . H 6 HOH A 22 622 133 HOH HOH . H 6 HOH A 23 623 48 HOH HOH . H 6 HOH A 24 624 106 HOH HOH . H 6 HOH A 25 625 105 HOH HOH . H 6 HOH A 26 626 85 HOH HOH . H 6 HOH A 27 627 67 HOH HOH . H 6 HOH A 28 628 86 HOH HOH . H 6 HOH A 29 629 1 HOH HOH . H 6 HOH A 30 630 2 HOH HOH . H 6 HOH A 31 631 3 HOH HOH . H 6 HOH A 32 632 4 HOH HOH . H 6 HOH A 33 633 6 HOH HOH . H 6 HOH A 34 634 7 HOH HOH . H 6 HOH A 35 635 8 HOH HOH . H 6 HOH A 36 636 9 HOH HOH . H 6 HOH A 37 637 10 HOH HOH . H 6 HOH A 38 638 11 HOH HOH . H 6 HOH A 39 639 12 HOH HOH . H 6 HOH A 40 640 13 HOH HOH . H 6 HOH A 41 641 14 HOH HOH . H 6 HOH A 42 642 15 HOH HOH . H 6 HOH A 43 643 16 HOH HOH . H 6 HOH A 44 644 20 HOH HOH . H 6 HOH A 45 645 21 HOH HOH . H 6 HOH A 46 646 22 HOH HOH . H 6 HOH A 47 647 23 HOH HOH . H 6 HOH A 48 648 24 HOH HOH . H 6 HOH A 49 649 25 HOH HOH . H 6 HOH A 50 650 26 HOH HOH . H 6 HOH A 51 651 27 HOH HOH . H 6 HOH A 52 652 28 HOH HOH . H 6 HOH A 53 653 30 HOH HOH . H 6 HOH A 54 654 31 HOH HOH . H 6 HOH A 55 655 32 HOH HOH . H 6 HOH A 56 656 33 HOH HOH . H 6 HOH A 57 657 34 HOH HOH . H 6 HOH A 58 658 35 HOH HOH . H 6 HOH A 59 659 36 HOH HOH . H 6 HOH A 60 660 40 HOH HOH . H 6 HOH A 61 661 41 HOH HOH . H 6 HOH A 62 662 42 HOH HOH . H 6 HOH A 63 663 44 HOH HOH . H 6 HOH A 64 664 45 HOH HOH . H 6 HOH A 65 665 46 HOH HOH . H 6 HOH A 66 666 47 HOH HOH . H 6 HOH A 67 667 49 HOH HOH . H 6 HOH A 68 668 50 HOH HOH . H 6 HOH A 69 669 51 HOH HOH . H 6 HOH A 70 670 52 HOH HOH . H 6 HOH A 71 671 53 HOH HOH . H 6 HOH A 72 672 54 HOH HOH . H 6 HOH A 73 673 55 HOH HOH . H 6 HOH A 74 674 56 HOH HOH . H 6 HOH A 75 675 57 HOH HOH . H 6 HOH A 76 676 58 HOH HOH . H 6 HOH A 77 677 61 HOH HOH . H 6 HOH A 78 678 63 HOH HOH . H 6 HOH A 79 679 64 HOH HOH . H 6 HOH A 80 680 65 HOH HOH . H 6 HOH A 81 681 66 HOH HOH . H 6 HOH A 82 682 70 HOH HOH . H 6 HOH A 83 683 71 HOH HOH . H 6 HOH A 84 684 72 HOH HOH . H 6 HOH A 85 685 73 HOH HOH . H 6 HOH A 86 686 75 HOH HOH . H 6 HOH A 87 687 77 HOH HOH . H 6 HOH A 88 688 78 HOH HOH . H 6 HOH A 89 689 79 HOH HOH . H 6 HOH A 90 690 80 HOH HOH . H 6 HOH A 91 691 81 HOH HOH . H 6 HOH A 92 692 82 HOH HOH . H 6 HOH A 93 693 83 HOH HOH . H 6 HOH A 94 694 88 HOH HOH . H 6 HOH A 95 695 89 HOH HOH . H 6 HOH A 96 696 90 HOH HOH . H 6 HOH A 97 697 91 HOH HOH . H 6 HOH A 98 698 92 HOH HOH . H 6 HOH A 99 699 93 HOH HOH . H 6 HOH A 100 700 94 HOH HOH . H 6 HOH A 101 701 95 HOH HOH . H 6 HOH A 102 702 96 HOH HOH . H 6 HOH A 103 703 97 HOH HOH . H 6 HOH A 104 704 98 HOH HOH . H 6 HOH A 105 705 99 HOH HOH . H 6 HOH A 106 706 100 HOH HOH . H 6 HOH A 107 707 101 HOH HOH . H 6 HOH A 108 708 102 HOH HOH . H 6 HOH A 109 709 103 HOH HOH . H 6 HOH A 110 710 104 HOH HOH . H 6 HOH A 111 711 107 HOH HOH . H 6 HOH A 112 712 108 HOH HOH . H 6 HOH A 113 713 109 HOH HOH . H 6 HOH A 114 714 110 HOH HOH . H 6 HOH A 115 715 111 HOH HOH . H 6 HOH A 116 716 112 HOH HOH . H 6 HOH A 117 717 115 HOH HOH . H 6 HOH A 118 718 116 HOH HOH . H 6 HOH A 119 719 117 HOH HOH . H 6 HOH A 120 720 118 HOH HOH . H 6 HOH A 121 721 119 HOH HOH . H 6 HOH A 122 722 120 HOH HOH . H 6 HOH A 123 723 121 HOH HOH . H 6 HOH A 124 724 123 HOH HOH . H 6 HOH A 125 725 124 HOH HOH . H 6 HOH A 126 726 125 HOH HOH . H 6 HOH A 127 727 126 HOH HOH . H 6 HOH A 128 728 127 HOH HOH . H 6 HOH A 129 729 128 HOH HOH . H 6 HOH A 130 730 129 HOH HOH . H 6 HOH A 131 731 130 HOH HOH . H 6 HOH A 132 732 131 HOH HOH . H 6 HOH A 133 733 132 HOH HOH . H 6 HOH A 134 734 134 HOH HOH . H 6 HOH A 135 735 135 HOH HOH . H 6 HOH A 136 736 136 HOH HOH . H 6 HOH A 137 737 137 HOH HOH . H 6 HOH A 138 738 138 HOH HOH . H 6 HOH A 139 739 139 HOH HOH . H 6 HOH A 140 740 140 HOH HOH . H 6 HOH A 141 741 141 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NI _atom_site.label_atom_id NI _atom_site.label_comp_id NI _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id C _atom_site.label_entity_id 3 _atom_site.Cartn_x 37.789 _atom_site.Cartn_y 25.78 _atom_site.Cartn_z 16.716 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 73.1 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 502 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #