data_4X68
#
_model_server_result.job_id            BSlWDJqdHBFmseH4Psf3Yg 
_model_server_result.datetime_utc      '2024-10-19 10:15:35' 
_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          4x68 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":403}' 
#
_entry.id    4X68 
#
_exptl.entry_id    4X68 
_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    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90.8 
_cell.angle_gamma         90 
_cell.entry_id            4X68 
_cell.length_a            74.027 
_cell.length_b            54.781 
_cell.length_c            75.667 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4X68 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_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 
_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
? 3 D N N 
? 3 E 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 OG SER 60 A SER 90 1_555 C C1 OP0 . A OP0 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.361 ? 
covale ? covale2 B OG SER 60 B SER 90 1_555 F C1 OP0 . B OP0 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.364 ? 
metalc ? metalc1 A OD2 ASP 119 A ASP 149 1_555 E NI NI . A NI 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.763 ? 
metalc ? metalc2 A OD2 ASP 330 A ASP 360 1_555 D NI NI . A NI 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? 
metalc ? metalc3 E NI NI . A NI 403 1_555 B NE2 HIS 237 B HIS 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.559 ? 
metalc ? metalc4 E NI NI . A NI 403 1_555 B OD1 ASP 330 B ASP 360 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.652 ? 
#
_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                     4X68 
_atom_sites.fract_transf_matrix[1][1]    0.013509 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000188 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018255 
_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]    0.013217 
_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 OP0 A 1 401 401 OP0 OP0 . 
D 3 NI A 1 402 502 NI NI . 
E 3 NI A 1 403 501 NI NI . 
F 2 OP0 B 1 401 401 OP0 OP0 . 
G 4 HOH A 1 501 60 HOH HOH . 
G 4 HOH A 2 502 41 HOH HOH . 
G 4 HOH A 3 503 210 HOH HOH . 
G 4 HOH A 4 504 223 HOH HOH . 
G 4 HOH A 5 505 98 HOH HOH . 
G 4 HOH A 6 506 150 HOH HOH . 
G 4 HOH A 7 507 237 HOH HOH . 
G 4 HOH A 8 508 135 HOH HOH . 
G 4 HOH A 9 509 126 HOH HOH . 
G 4 HOH A 10 510 129 HOH HOH . 
G 4 HOH A 11 511 56 HOH HOH . 
G 4 HOH A 12 512 169 HOH HOH . 
G 4 HOH A 13 513 179 HOH HOH . 
G 4 HOH A 14 514 151 HOH HOH . 
G 4 HOH A 15 515 161 HOH HOH . 
G 4 HOH A 16 516 201 HOH HOH . 
G 4 HOH A 17 517 173 HOH HOH . 
G 4 HOH A 18 518 166 HOH HOH . 
G 4 HOH A 19 519 200 HOH HOH . 
G 4 HOH A 20 520 114 HOH HOH . 
G 4 HOH A 21 521 86 HOH HOH . 
G 4 HOH A 22 522 183 HOH HOH . 
G 4 HOH A 23 523 106 HOH HOH . 
G 4 HOH A 24 524 136 HOH HOH . 
G 4 HOH A 25 525 181 HOH HOH . 
G 4 HOH A 26 526 25 HOH HOH . 
G 4 HOH A 27 527 38 HOH HOH . 
G 4 HOH A 28 528 214 HOH HOH . 
G 4 HOH A 29 529 2 HOH HOH . 
G 4 HOH A 30 530 3 HOH HOH . 
G 4 HOH A 31 531 5 HOH HOH . 
G 4 HOH A 32 532 6 HOH HOH . 
G 4 HOH A 33 533 9 HOH HOH . 
G 4 HOH A 34 534 12 HOH HOH . 
G 4 HOH A 35 535 13 HOH HOH . 
G 4 HOH A 36 536 14 HOH HOH . 
G 4 HOH A 37 537 15 HOH HOH . 
G 4 HOH A 38 538 16 HOH HOH . 
G 4 HOH A 39 539 18 HOH HOH . 
G 4 HOH A 40 540 19 HOH HOH . 
G 4 HOH A 41 541 20 HOH HOH . 
G 4 HOH A 42 542 22 HOH HOH . 
G 4 HOH A 43 543 24 HOH HOH . 
G 4 HOH A 44 544 28 HOH HOH . 
G 4 HOH A 45 545 33 HOH HOH . 
G 4 HOH A 46 546 35 HOH HOH . 
G 4 HOH A 47 547 39 HOH HOH . 
G 4 HOH A 48 548 40 HOH HOH . 
G 4 HOH A 49 549 42 HOH HOH . 
G 4 HOH A 50 550 44 HOH HOH . 
G 4 HOH A 51 551 45 HOH HOH . 
G 4 HOH A 52 552 46 HOH HOH . 
G 4 HOH A 53 553 48 HOH HOH . 
G 4 HOH A 54 554 50 HOH HOH . 
G 4 HOH A 55 555 51 HOH HOH . 
G 4 HOH A 56 556 52 HOH HOH . 
G 4 HOH A 57 557 54 HOH HOH . 
G 4 HOH A 58 558 62 HOH HOH . 
G 4 HOH A 59 559 64 HOH HOH . 
G 4 HOH A 60 560 66 HOH HOH . 
G 4 HOH A 61 561 67 HOH HOH . 
G 4 HOH A 62 562 68 HOH HOH . 
G 4 HOH A 63 563 70 HOH HOH . 
G 4 HOH A 64 564 71 HOH HOH . 
G 4 HOH A 65 565 74 HOH HOH . 
G 4 HOH A 66 566 77 HOH HOH . 
G 4 HOH A 67 567 78 HOH HOH . 
G 4 HOH A 68 568 79 HOH HOH . 
G 4 HOH A 69 569 80 HOH HOH . 
G 4 HOH A 70 570 81 HOH HOH . 
G 4 HOH A 71 571 84 HOH HOH . 
G 4 HOH A 72 572 87 HOH HOH . 
G 4 HOH A 73 573 88 HOH HOH . 
G 4 HOH A 74 574 94 HOH HOH . 
G 4 HOH A 75 575 97 HOH HOH . 
G 4 HOH A 76 576 99 HOH HOH . 
G 4 HOH A 77 577 100 HOH HOH . 
G 4 HOH A 78 578 105 HOH HOH . 
G 4 HOH A 79 579 109 HOH HOH . 
G 4 HOH A 80 580 111 HOH HOH . 
G 4 HOH A 81 581 115 HOH HOH . 
G 4 HOH A 82 582 117 HOH HOH . 
G 4 HOH A 83 583 122 HOH HOH . 
G 4 HOH A 84 584 125 HOH HOH . 
G 4 HOH A 85 585 127 HOH HOH . 
G 4 HOH A 86 586 130 HOH HOH . 
G 4 HOH A 87 587 131 HOH HOH . 
G 4 HOH A 88 588 134 HOH HOH . 
G 4 HOH A 89 589 137 HOH HOH . 
G 4 HOH A 90 590 138 HOH HOH . 
G 4 HOH A 91 591 152 HOH HOH . 
G 4 HOH A 92 592 153 HOH HOH . 
G 4 HOH A 93 593 157 HOH HOH . 
G 4 HOH A 94 594 158 HOH HOH . 
G 4 HOH A 95 595 160 HOH HOH . 
G 4 HOH A 96 596 164 HOH HOH . 
G 4 HOH A 97 597 167 HOH HOH . 
G 4 HOH A 98 598 175 HOH HOH . 
G 4 HOH A 99 599 178 HOH HOH . 
G 4 HOH A 100 600 182 HOH HOH . 
G 4 HOH A 101 601 184 HOH HOH . 
G 4 HOH A 102 602 187 HOH HOH . 
G 4 HOH A 103 603 188 HOH HOH . 
G 4 HOH A 104 604 189 HOH HOH . 
G 4 HOH A 105 605 191 HOH HOH . 
G 4 HOH A 106 606 192 HOH HOH . 
G 4 HOH A 107 607 193 HOH HOH . 
G 4 HOH A 108 608 196 HOH HOH . 
G 4 HOH A 109 609 202 HOH HOH . 
G 4 HOH A 110 610 204 HOH HOH . 
G 4 HOH A 111 611 206 HOH HOH . 
G 4 HOH A 112 612 207 HOH HOH . 
G 4 HOH A 113 613 208 HOH HOH . 
G 4 HOH A 114 614 209 HOH HOH . 
G 4 HOH A 115 615 212 HOH HOH . 
G 4 HOH A 116 616 216 HOH HOH . 
G 4 HOH A 117 617 217 HOH HOH . 
G 4 HOH A 118 618 219 HOH HOH . 
G 4 HOH A 119 619 227 HOH HOH . 
G 4 HOH A 120 620 228 HOH HOH . 
G 4 HOH A 121 621 229 HOH HOH . 
G 4 HOH A 122 622 235 HOH HOH . 
G 4 HOH A 123 623 236 HOH HOH . 
H 4 HOH B 1 601 91 HOH HOH . 
H 4 HOH B 2 602 104 HOH HOH . 
H 4 HOH B 3 603 36 HOH HOH . 
H 4 HOH B 4 604 108 HOH HOH . 
H 4 HOH B 5 605 195 HOH HOH . 
H 4 HOH B 6 606 213 HOH HOH . 
H 4 HOH B 7 607 165 HOH HOH . 
H 4 HOH B 8 608 154 HOH HOH . 
H 4 HOH B 9 609 32 HOH HOH . 
H 4 HOH B 10 610 174 HOH HOH . 
H 4 HOH B 11 611 85 HOH HOH . 
H 4 HOH B 12 612 47 HOH HOH . 
H 4 HOH B 13 613 55 HOH HOH . 
H 4 HOH B 14 614 186 HOH HOH . 
H 4 HOH B 15 615 128 HOH HOH . 
H 4 HOH B 16 616 168 HOH HOH . 
H 4 HOH B 17 617 107 HOH HOH . 
H 4 HOH B 18 618 146 HOH HOH . 
H 4 HOH B 19 619 185 HOH HOH . 
H 4 HOH B 20 620 238 HOH HOH . 
H 4 HOH B 21 621 239 HOH HOH . 
H 4 HOH B 22 622 194 HOH HOH . 
H 4 HOH B 23 623 159 HOH HOH . 
H 4 HOH B 24 624 93 HOH HOH . 
H 4 HOH B 25 625 1 HOH HOH . 
H 4 HOH B 26 626 4 HOH HOH . 
H 4 HOH B 27 627 7 HOH HOH . 
H 4 HOH B 28 628 8 HOH HOH . 
H 4 HOH B 29 629 10 HOH HOH . 
H 4 HOH B 30 630 11 HOH HOH . 
H 4 HOH B 31 631 17 HOH HOH . 
H 4 HOH B 32 632 21 HOH HOH . 
H 4 HOH B 33 633 23 HOH HOH . 
H 4 HOH B 34 634 26 HOH HOH . 
H 4 HOH B 35 635 27 HOH HOH . 
H 4 HOH B 36 636 29 HOH HOH . 
H 4 HOH B 37 637 30 HOH HOH . 
H 4 HOH B 38 638 31 HOH HOH . 
H 4 HOH B 39 639 34 HOH HOH . 
H 4 HOH B 40 640 37 HOH HOH . 
H 4 HOH B 41 641 43 HOH HOH . 
H 4 HOH B 42 642 49 HOH HOH . 
H 4 HOH B 43 643 53 HOH HOH . 
H 4 HOH B 44 644 57 HOH HOH . 
H 4 HOH B 45 645 58 HOH HOH . 
H 4 HOH B 46 646 59 HOH HOH . 
H 4 HOH B 47 647 61 HOH HOH . 
H 4 HOH B 48 648 63 HOH HOH . 
H 4 HOH B 49 649 65 HOH HOH . 
H 4 HOH B 50 650 69 HOH HOH . 
H 4 HOH B 51 651 72 HOH HOH . 
H 4 HOH B 52 652 73 HOH HOH . 
H 4 HOH B 53 653 75 HOH HOH . 
H 4 HOH B 54 654 76 HOH HOH . 
H 4 HOH B 55 655 82 HOH HOH . 
H 4 HOH B 56 656 83 HOH HOH . 
H 4 HOH B 57 657 89 HOH HOH . 
H 4 HOH B 58 658 90 HOH HOH . 
H 4 HOH B 59 659 92 HOH HOH . 
H 4 HOH B 60 660 95 HOH HOH . 
H 4 HOH B 61 661 96 HOH HOH . 
H 4 HOH B 62 662 101 HOH HOH . 
H 4 HOH B 63 663 102 HOH HOH . 
H 4 HOH B 64 664 103 HOH HOH . 
H 4 HOH B 65 665 110 HOH HOH . 
H 4 HOH B 66 666 112 HOH HOH . 
H 4 HOH B 67 667 113 HOH HOH . 
H 4 HOH B 68 668 116 HOH HOH . 
H 4 HOH B 69 669 118 HOH HOH . 
H 4 HOH B 70 670 119 HOH HOH . 
H 4 HOH B 71 671 120 HOH HOH . 
H 4 HOH B 72 672 121 HOH HOH . 
H 4 HOH B 73 673 123 HOH HOH . 
H 4 HOH B 74 674 124 HOH HOH . 
H 4 HOH B 75 675 132 HOH HOH . 
H 4 HOH B 76 676 133 HOH HOH . 
H 4 HOH B 77 677 139 HOH HOH . 
H 4 HOH B 78 678 140 HOH HOH . 
H 4 HOH B 79 679 141 HOH HOH . 
H 4 HOH B 80 680 142 HOH HOH . 
H 4 HOH B 81 681 143 HOH HOH . 
H 4 HOH B 82 682 144 HOH HOH . 
H 4 HOH B 83 683 145 HOH HOH . 
H 4 HOH B 84 684 147 HOH HOH . 
H 4 HOH B 85 685 148 HOH HOH . 
H 4 HOH B 86 686 149 HOH HOH . 
H 4 HOH B 87 687 155 HOH HOH . 
H 4 HOH B 88 688 156 HOH HOH . 
H 4 HOH B 89 689 162 HOH HOH . 
H 4 HOH B 90 690 163 HOH HOH . 
H 4 HOH B 91 691 170 HOH HOH . 
H 4 HOH B 92 692 171 HOH HOH . 
H 4 HOH B 93 693 172 HOH HOH . 
H 4 HOH B 94 694 176 HOH HOH . 
H 4 HOH B 95 695 177 HOH HOH . 
H 4 HOH B 96 696 180 HOH HOH . 
H 4 HOH B 97 697 190 HOH HOH . 
H 4 HOH B 98 698 197 HOH HOH . 
H 4 HOH B 99 699 198 HOH HOH . 
H 4 HOH B 100 700 199 HOH HOH . 
H 4 HOH B 101 701 203 HOH HOH . 
H 4 HOH B 102 702 205 HOH HOH . 
H 4 HOH B 103 703 211 HOH HOH . 
H 4 HOH B 104 704 215 HOH HOH . 
H 4 HOH B 105 705 218 HOH HOH . 
H 4 HOH B 106 706 220 HOH HOH . 
H 4 HOH B 107 707 221 HOH HOH . 
H 4 HOH B 108 708 222 HOH HOH . 
H 4 HOH B 109 709 224 HOH HOH . 
H 4 HOH B 110 710 225 HOH HOH . 
H 4 HOH B 111 711 226 HOH HOH . 
H 4 HOH B 112 712 230 HOH HOH . 
H 4 HOH B 113 713 231 HOH HOH . 
H 4 HOH B 114 714 232 HOH HOH . 
H 4 HOH B 115 715 233 HOH HOH . 
H 4 HOH B 116 716 234 HOH HOH . 
H 4 HOH B 117 717 240 HOH HOH . 
H 4 HOH B 118 718 241 HOH HOH . 
H 4 HOH B 119 719 242 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         E 
_atom_site.label_entity_id       3 
_atom_site.Cartn_x               -26.426 
_atom_site.Cartn_y               8.382 
_atom_site.Cartn_z               9.74 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        77.31 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NI 
_atom_site.auth_comp_id          NI 
_atom_site.auth_seq_id           403 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              48 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    13 
_model_server_stats.query_time_ms           329 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           1 
#