data_1NCH
#
_model_server_result.job_id            vZEz6QIFYvALqgq9u3HaqQ 
_model_server_result.datetime_utc      '2024-11-05 00:19:56' 
_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          1nch 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":500}' 
#
_entry.id    1NCH 
#
_exptl.entry_id    1NCH 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              173.04 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'YTTERBIUM (III) 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 
_cell.angle_gamma         120 
_cell.entry_id            1NCH 
_cell.length_a            79.73 
_cell.length_b            79.73 
_cell.length_c            74.96 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1NCH 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        150 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 3 2 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? dimeric 2 author_defined_assembly 1 
PISA,PQS dimeric 2 software_defined_assembly 2 
PQS dimeric 2 software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F 1 1 
A,C,E 2 1,2 
B,D,F 3 1,3 
#
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' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 
3 'crystal symmetry operation' 4_556 y,x,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 74.96 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 D 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
metalc ? metalc1 A OE1 GLU 13 A GLU 11 1_555 C YB YB . A YB 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? 
metalc ? metalc2 A OD1 ASP 69 A ASP 67 1_555 C YB YB . A YB 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.29 ? 
metalc ? metalc3 A OE1 GLU 71 A GLU 69 1_555 C YB YB . A YB 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? 
metalc ? metalc4 B OE1 GLU 13 B GLU 11 1_555 D YB YB . B YB 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? 
metalc ? metalc5 B OD1 ASP 102 B ASP 100 1_555 D YB YB . B YB 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.376 ? 
#
_chem_comp.formula           'Yb 3' 
_chem_comp.formula_weight    173.04 
_chem_comp.id                YB 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'YTTERBIUM (III) ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     1NCH 
_atom_sites.fract_transf_matrix[1][1]    0.012542 
_atom_sites.fract_transf_matrix[1][2]    0.007241 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014483 
_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]    0.01334 
_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 YB A 1 500 500 YB YB . 
D 2 YB B 1 600 600 YB YB . 
E 3 HOH A 1 501 1 HOH HOH . 
E 3 HOH A 2 502 8 HOH HOH . 
E 3 HOH A 3 503 9 HOH HOH . 
E 3 HOH A 4 504 10 HOH HOH . 
E 3 HOH A 5 505 13 HOH HOH . 
E 3 HOH A 6 506 15 HOH HOH . 
E 3 HOH A 7 507 16 HOH HOH . 
E 3 HOH A 8 508 18 HOH HOH . 
E 3 HOH A 9 509 21 HOH HOH . 
E 3 HOH A 10 510 23 HOH HOH . 
E 3 HOH A 11 511 25 HOH HOH . 
E 3 HOH A 12 512 26 HOH HOH . 
E 3 HOH A 13 513 33 HOH HOH . 
E 3 HOH A 14 514 34 HOH HOH . 
E 3 HOH A 15 515 35 HOH HOH . 
E 3 HOH A 16 516 36 HOH HOH . 
E 3 HOH A 17 517 38 HOH HOH . 
E 3 HOH A 18 518 40 HOH HOH . 
E 3 HOH A 19 519 41 HOH HOH . 
E 3 HOH A 20 520 43 HOH HOH . 
E 3 HOH A 21 521 44 HOH HOH . 
E 3 HOH A 22 522 52 HOH HOH . 
E 3 HOH A 23 523 54 HOH HOH . 
E 3 HOH A 24 524 55 HOH HOH . 
E 3 HOH A 25 525 64 HOH HOH . 
E 3 HOH A 26 526 65 HOH HOH . 
E 3 HOH A 27 527 66 HOH HOH . 
E 3 HOH A 28 528 68 HOH HOH . 
E 3 HOH A 29 529 69 HOH HOH . 
E 3 HOH A 30 530 70 HOH HOH . 
E 3 HOH A 31 531 71 HOH HOH . 
E 3 HOH A 32 532 72 HOH HOH . 
E 3 HOH A 33 533 74 HOH HOH . 
E 3 HOH A 34 534 75 HOH HOH . 
E 3 HOH A 35 535 77 HOH HOH . 
E 3 HOH A 36 536 78 HOH HOH . 
E 3 HOH A 37 537 81 HOH HOH . 
E 3 HOH A 38 538 85 HOH HOH . 
E 3 HOH A 39 539 86 HOH HOH . 
E 3 HOH A 40 540 87 HOH HOH . 
E 3 HOH A 41 541 88 HOH HOH . 
E 3 HOH A 42 542 91 HOH HOH . 
E 3 HOH A 43 543 93 HOH HOH . 
E 3 HOH A 44 544 98 HOH HOH . 
E 3 HOH A 45 545 99 HOH HOH . 
E 3 HOH A 46 546 100 HOH HOH . 
E 3 HOH A 47 547 102 HOH HOH . 
E 3 HOH A 48 548 103 HOH HOH . 
E 3 HOH A 49 549 104 HOH HOH . 
E 3 HOH A 50 550 105 HOH HOH . 
E 3 HOH A 51 551 106 HOH HOH . 
E 3 HOH A 52 552 107 HOH HOH . 
E 3 HOH A 53 553 108 HOH HOH . 
E 3 HOH A 54 554 109 HOH HOH . 
E 3 HOH A 55 555 110 HOH HOH . 
E 3 HOH A 56 556 111 HOH HOH . 
E 3 HOH A 57 557 112 HOH HOH . 
E 3 HOH A 58 558 114 HOH HOH . 
E 3 HOH A 59 559 115 HOH HOH . 
E 3 HOH A 60 560 116 HOH HOH . 
E 3 HOH A 61 561 117 HOH HOH . 
E 3 HOH A 62 562 118 HOH HOH . 
E 3 HOH A 63 563 119 HOH HOH . 
E 3 HOH A 64 564 131 HOH HOH . 
E 3 HOH A 65 565 132 HOH HOH . 
E 3 HOH A 66 566 133 HOH HOH . 
E 3 HOH A 67 567 134 HOH HOH . 
E 3 HOH A 68 568 135 HOH HOH . 
E 3 HOH A 69 569 136 HOH HOH . 
E 3 HOH A 70 570 137 HOH HOH . 
E 3 HOH A 71 571 138 HOH HOH . 
E 3 HOH A 72 572 139 HOH HOH . 
E 3 HOH A 73 573 140 HOH HOH . 
E 3 HOH A 74 574 141 HOH HOH . 
E 3 HOH A 75 575 142 HOH HOH . 
E 3 HOH A 76 576 147 HOH HOH . 
E 3 HOH A 77 577 151 HOH HOH . 
E 3 HOH A 78 578 152 HOH HOH . 
E 3 HOH A 79 579 153 HOH HOH . 
E 3 HOH A 80 580 154 HOH HOH . 
E 3 HOH A 81 581 155 HOH HOH . 
E 3 HOH A 82 582 156 HOH HOH . 
E 3 HOH A 83 583 157 HOH HOH . 
E 3 HOH A 84 584 158 HOH HOH . 
E 3 HOH A 85 585 159 HOH HOH . 
E 3 HOH A 86 586 160 HOH HOH . 
E 3 HOH A 87 587 161 HOH HOH . 
E 3 HOH A 88 588 162 HOH HOH . 
E 3 HOH A 89 589 163 HOH HOH . 
E 3 HOH A 90 590 164 HOH HOH . 
E 3 HOH A 91 591 169 HOH HOH . 
E 3 HOH A 92 592 170 HOH HOH . 
E 3 HOH A 93 593 172 HOH HOH . 
E 3 HOH A 94 594 174 HOH HOH . 
E 3 HOH A 95 595 175 HOH HOH . 
E 3 HOH A 96 596 176 HOH HOH . 
E 3 HOH A 97 597 177 HOH HOH . 
E 3 HOH A 98 598 178 HOH HOH . 
E 3 HOH A 99 599 179 HOH HOH . 
E 3 HOH A 100 600 180 HOH HOH . 
E 3 HOH A 101 601 181 HOH HOH . 
E 3 HOH A 102 602 182 HOH HOH . 
E 3 HOH A 103 603 183 HOH HOH . 
E 3 HOH A 104 604 184 HOH HOH . 
E 3 HOH A 105 605 185 HOH HOH . 
E 3 HOH A 106 606 186 HOH HOH . 
E 3 HOH A 107 607 197 HOH HOH . 
E 3 HOH A 108 608 198 HOH HOH . 
E 3 HOH A 109 609 203 HOH HOH . 
E 3 HOH A 110 610 204 HOH HOH . 
E 3 HOH A 111 611 205 HOH HOH . 
E 3 HOH A 112 612 206 HOH HOH . 
E 3 HOH A 113 613 207 HOH HOH . 
E 3 HOH A 114 614 208 HOH HOH . 
E 3 HOH A 115 615 209 HOH HOH . 
E 3 HOH A 116 616 210 HOH HOH . 
E 3 HOH A 117 617 211 HOH HOH . 
E 3 HOH A 118 618 212 HOH HOH . 
E 3 HOH A 119 619 213 HOH HOH . 
E 3 HOH A 120 620 214 HOH HOH . 
E 3 HOH A 121 621 215 HOH HOH . 
E 3 HOH A 122 622 216 HOH HOH . 
E 3 HOH A 123 623 217 HOH HOH . 
E 3 HOH A 124 624 218 HOH HOH . 
E 3 HOH A 125 625 219 HOH HOH . 
E 3 HOH A 126 626 220 HOH HOH . 
E 3 HOH A 127 627 221 HOH HOH . 
E 3 HOH A 128 628 222 HOH HOH . 
F 3 HOH B 1 601 2 HOH HOH . 
F 3 HOH B 2 602 3 HOH HOH . 
F 3 HOH B 3 603 4 HOH HOH . 
F 3 HOH B 4 604 5 HOH HOH . 
F 3 HOH B 5 605 6 HOH HOH . 
F 3 HOH B 6 606 7 HOH HOH . 
F 3 HOH B 7 607 11 HOH HOH . 
F 3 HOH B 8 608 12 HOH HOH . 
F 3 HOH B 9 609 14 HOH HOH . 
F 3 HOH B 10 610 17 HOH HOH . 
F 3 HOH B 11 611 19 HOH HOH . 
F 3 HOH B 12 612 20 HOH HOH . 
F 3 HOH B 13 613 22 HOH HOH . 
F 3 HOH B 14 614 24 HOH HOH . 
F 3 HOH B 15 615 27 HOH HOH . 
F 3 HOH B 16 616 28 HOH HOH . 
F 3 HOH B 17 617 29 HOH HOH . 
F 3 HOH B 18 618 30 HOH HOH . 
F 3 HOH B 19 619 31 HOH HOH . 
F 3 HOH B 20 620 32 HOH HOH . 
F 3 HOH B 21 621 37 HOH HOH . 
F 3 HOH B 22 622 39 HOH HOH . 
F 3 HOH B 23 623 42 HOH HOH . 
F 3 HOH B 24 624 45 HOH HOH . 
F 3 HOH B 25 625 46 HOH HOH . 
F 3 HOH B 26 626 47 HOH HOH . 
F 3 HOH B 27 627 48 HOH HOH . 
F 3 HOH B 28 628 49 HOH HOH . 
F 3 HOH B 29 629 50 HOH HOH . 
F 3 HOH B 30 630 51 HOH HOH . 
F 3 HOH B 31 631 53 HOH HOH . 
F 3 HOH B 32 632 56 HOH HOH . 
F 3 HOH B 33 633 57 HOH HOH . 
F 3 HOH B 34 634 58 HOH HOH . 
F 3 HOH B 35 635 59 HOH HOH . 
F 3 HOH B 36 636 60 HOH HOH . 
F 3 HOH B 37 637 61 HOH HOH . 
F 3 HOH B 38 638 62 HOH HOH . 
F 3 HOH B 39 639 63 HOH HOH . 
F 3 HOH B 40 640 67 HOH HOH . 
F 3 HOH B 41 641 73 HOH HOH . 
F 3 HOH B 42 642 76 HOH HOH . 
F 3 HOH B 43 643 79 HOH HOH . 
F 3 HOH B 44 644 80 HOH HOH . 
F 3 HOH B 45 645 82 HOH HOH . 
F 3 HOH B 46 646 83 HOH HOH . 
F 3 HOH B 47 647 84 HOH HOH . 
F 3 HOH B 48 648 89 HOH HOH . 
F 3 HOH B 49 649 90 HOH HOH . 
F 3 HOH B 50 650 92 HOH HOH . 
F 3 HOH B 51 651 94 HOH HOH . 
F 3 HOH B 52 652 95 HOH HOH . 
F 3 HOH B 53 653 96 HOH HOH . 
F 3 HOH B 54 654 97 HOH HOH . 
F 3 HOH B 55 655 101 HOH HOH . 
F 3 HOH B 56 656 113 HOH HOH . 
F 3 HOH B 57 657 120 HOH HOH . 
F 3 HOH B 58 658 121 HOH HOH . 
F 3 HOH B 59 659 122 HOH HOH . 
F 3 HOH B 60 660 123 HOH HOH . 
F 3 HOH B 61 661 124 HOH HOH . 
F 3 HOH B 62 662 125 HOH HOH . 
F 3 HOH B 63 663 126 HOH HOH . 
F 3 HOH B 64 664 127 HOH HOH . 
F 3 HOH B 65 665 128 HOH HOH . 
F 3 HOH B 66 666 129 HOH HOH . 
F 3 HOH B 67 667 130 HOH HOH . 
F 3 HOH B 68 668 143 HOH HOH . 
F 3 HOH B 69 669 144 HOH HOH . 
F 3 HOH B 70 670 145 HOH HOH . 
F 3 HOH B 71 671 146 HOH HOH . 
F 3 HOH B 72 672 148 HOH HOH . 
F 3 HOH B 73 673 149 HOH HOH . 
F 3 HOH B 74 674 150 HOH HOH . 
F 3 HOH B 75 675 165 HOH HOH . 
F 3 HOH B 76 676 166 HOH HOH . 
F 3 HOH B 77 677 167 HOH HOH . 
F 3 HOH B 78 678 168 HOH HOH . 
F 3 HOH B 79 679 171 HOH HOH . 
F 3 HOH B 80 680 173 HOH HOH . 
F 3 HOH B 81 681 187 HOH HOH . 
F 3 HOH B 82 682 188 HOH HOH . 
F 3 HOH B 83 683 189 HOH HOH . 
F 3 HOH B 84 684 190 HOH HOH . 
F 3 HOH B 85 685 191 HOH HOH . 
F 3 HOH B 86 686 192 HOH HOH . 
F 3 HOH B 87 687 193 HOH HOH . 
F 3 HOH B 88 688 194 HOH HOH . 
F 3 HOH B 89 689 195 HOH HOH . 
F 3 HOH B 90 690 196 HOH HOH . 
F 3 HOH B 91 691 199 HOH HOH . 
F 3 HOH B 92 692 200 HOH HOH . 
F 3 HOH B 93 693 201 HOH HOH . 
F 3 HOH B 94 694 202 HOH HOH . 
F 3 HOH B 95 695 223 HOH HOH . 
F 3 HOH B 96 696 224 HOH HOH . 
F 3 HOH B 97 697 225 HOH HOH . 
F 3 HOH B 98 698 226 HOH HOH . 
F 3 HOH B 99 699 227 HOH HOH . 
F 3 HOH B 100 700 228 HOH HOH . 
F 3 HOH B 101 701 229 HOH HOH . 
F 3 HOH B 102 702 230 HOH HOH . 
F 3 HOH B 103 703 231 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           YB 
_atom_site.label_atom_id         YB 
_atom_site.label_comp_id         YB 
_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       2 
_atom_site.Cartn_x               -3.046 
_atom_site.Cartn_y               16.512 
_atom_site.Cartn_z               11.346 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        56.46 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          YB 
_atom_site.auth_comp_id          YB 
_atom_site.auth_seq_id           500 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           308 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           1 
#