data_6Y12 # _model_server_result.job_id InkdKEUjGQpAG8jik1pqjw _model_server_result.datetime_utc '2024-11-25 08:36:04' _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 6y12 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":403}' # _entry.id 6Y12 # _exptl.entry_id 6Y12 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 190.2 _entity.id 4 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description (2S,3S)-3-HYDROXYARGININE _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 110.15 _cell.angle_gamma 90 _cell.entry_id 6Y12 _cell.length_a 82.369 _cell.length_b 67.125 _cell.length_c 63.984 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6Y12 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 4 _struct_asym.id D _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 metalc ? metalc1 A NE2 HIS 168 A HIS 168 1_555 C FE FE . A FE 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? metalc ? metalc2 A OE1 GLU 170 A GLU 170 1_555 C FE FE . A FE 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? metalc ? metalc3 A NE2 HIS 316 A HIS 316 1_555 C FE FE . A FE 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? metalc ? metalc4 B O3 SIN . A SIN 401 1_555 C FE FE . A FE 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc5 B O4 SIN . A SIN 401 1_555 C FE FE . A FE 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc6 C FE FE . A FE 402 1_555 D OB ZZU . A ZZU 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.562 ? # _chem_comp.formula 'C6 H14 N4 O3' _chem_comp.formula_weight 190.2 _chem_comp.id ZZU _chem_comp.mon_nstd_flag . _chem_comp.name (2S,3S)-3-HYDROXYARGININE _chem_comp.type 'l-peptide linking' _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 O C ZZU doub 389 n n C OXT ZZU sing 390 n n C CA ZZU sing 391 n n CA N ZZU sing 392 n n CA CB ZZU sing 393 n n CB OB ZZU sing 394 n n CB CG ZZU sing 395 n n CG CD ZZU sing 396 n n CD NE ZZU sing 397 n n NE CZ ZZU sing 398 n n CZ NH2 ZZU doub 399 n n CZ NH1 ZZU sing 400 n n OXT HXT ZZU sing 401 n n CA HA ZZU sing 402 n n N H2 ZZU sing 403 n n N H ZZU sing 404 n n CB HB ZZU sing 405 n n OB HC ZZU sing 406 n n CG HG1C ZZU sing 407 n n CG HG2C ZZU sing 408 n n CD HD1C ZZU sing 409 n n CD HD2C ZZU sing 410 n n NE HE ZZU sing 411 n n NH2 HH2 ZZU sing 412 n n NH1 HH11 ZZU sing 413 n n NH1 HH12 ZZU sing 414 n n # _atom_sites.entry_id 6Y12 _atom_sites.fract_transf_matrix[1][1] 0.01214 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004455 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014898 _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] 0.016648 _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 SIN A 1 401 1 SIN SIN . C 3 FE A 1 402 1 FE FE . D 4 ZZU A 1 403 1 ZZU ZZU . E 5 HOH A 1 501 192 HOH HOH . E 5 HOH A 2 502 66 HOH HOH . E 5 HOH A 3 503 69 HOH HOH . E 5 HOH A 4 504 116 HOH HOH . E 5 HOH A 5 505 173 HOH HOH . E 5 HOH A 6 506 47 HOH HOH . E 5 HOH A 7 507 57 HOH HOH . E 5 HOH A 8 508 35 HOH HOH . E 5 HOH A 9 509 103 HOH HOH . E 5 HOH A 10 510 155 HOH HOH . E 5 HOH A 11 511 160 HOH HOH . E 5 HOH A 12 512 119 HOH HOH . E 5 HOH A 13 513 123 HOH HOH . E 5 HOH A 14 514 81 HOH HOH . E 5 HOH A 15 515 80 HOH HOH . E 5 HOH A 16 516 229 HOH HOH . E 5 HOH A 17 517 104 HOH HOH . E 5 HOH A 18 518 183 HOH HOH . E 5 HOH A 19 519 106 HOH HOH . E 5 HOH A 20 520 8 HOH HOH . E 5 HOH A 21 521 7 HOH HOH . E 5 HOH A 22 522 9 HOH HOH . E 5 HOH A 23 523 203 HOH HOH . E 5 HOH A 24 524 54 HOH HOH . E 5 HOH A 25 525 67 HOH HOH . E 5 HOH A 26 526 58 HOH HOH . E 5 HOH A 27 527 85 HOH HOH . E 5 HOH A 28 528 74 HOH HOH . E 5 HOH A 29 529 41 HOH HOH . E 5 HOH A 30 530 73 HOH HOH . E 5 HOH A 31 531 50 HOH HOH . E 5 HOH A 32 532 14 HOH HOH . E 5 HOH A 33 533 2 HOH HOH . E 5 HOH A 34 534 37 HOH HOH . E 5 HOH A 35 535 53 HOH HOH . E 5 HOH A 36 536 124 HOH HOH . E 5 HOH A 37 537 44 HOH HOH . E 5 HOH A 38 538 117 HOH HOH . E 5 HOH A 39 539 4 HOH HOH . E 5 HOH A 40 540 211 HOH HOH . E 5 HOH A 41 541 77 HOH HOH . E 5 HOH A 42 542 191 HOH HOH . E 5 HOH A 43 543 49 HOH HOH . E 5 HOH A 44 544 62 HOH HOH . E 5 HOH A 45 545 36 HOH HOH . E 5 HOH A 46 546 60 HOH HOH . E 5 HOH A 47 547 178 HOH HOH . E 5 HOH A 48 548 63 HOH HOH . E 5 HOH A 49 549 92 HOH HOH . E 5 HOH A 50 550 196 HOH HOH . E 5 HOH A 51 551 26 HOH HOH . E 5 HOH A 52 552 101 HOH HOH . E 5 HOH A 53 553 168 HOH HOH . E 5 HOH A 54 554 20 HOH HOH . E 5 HOH A 55 555 19 HOH HOH . E 5 HOH A 56 556 181 HOH HOH . E 5 HOH A 57 557 84 HOH HOH . E 5 HOH A 58 558 24 HOH HOH . E 5 HOH A 59 559 140 HOH HOH . E 5 HOH A 60 560 42 HOH HOH . E 5 HOH A 61 561 3 HOH HOH . E 5 HOH A 62 562 39 HOH HOH . E 5 HOH A 63 563 11 HOH HOH . E 5 HOH A 64 564 10 HOH HOH . E 5 HOH A 65 565 138 HOH HOH . E 5 HOH A 66 566 78 HOH HOH . E 5 HOH A 67 567 45 HOH HOH . E 5 HOH A 68 568 98 HOH HOH . E 5 HOH A 69 569 21 HOH HOH . E 5 HOH A 70 570 96 HOH HOH . E 5 HOH A 71 571 31 HOH HOH . E 5 HOH A 72 572 22 HOH HOH . E 5 HOH A 73 573 13 HOH HOH . E 5 HOH A 74 574 6 HOH HOH . E 5 HOH A 75 575 112 HOH HOH . E 5 HOH A 76 576 15 HOH HOH . E 5 HOH A 77 577 28 HOH HOH . E 5 HOH A 78 578 159 HOH HOH . E 5 HOH A 79 579 27 HOH HOH . E 5 HOH A 80 580 190 HOH HOH . E 5 HOH A 81 581 194 HOH HOH . E 5 HOH A 82 582 46 HOH HOH . E 5 HOH A 83 583 72 HOH HOH . E 5 HOH A 84 584 143 HOH HOH . E 5 HOH A 85 585 111 HOH HOH . E 5 HOH A 86 586 230 HOH HOH . E 5 HOH A 87 587 89 HOH HOH . E 5 HOH A 88 588 1 HOH HOH . E 5 HOH A 89 589 5 HOH HOH . E 5 HOH A 90 590 29 HOH HOH . E 5 HOH A 91 591 125 HOH HOH . E 5 HOH A 92 592 97 HOH HOH . E 5 HOH A 93 593 30 HOH HOH . E 5 HOH A 94 594 134 HOH HOH . E 5 HOH A 95 595 90 HOH HOH . E 5 HOH A 96 596 64 HOH HOH . E 5 HOH A 97 597 129 HOH HOH . E 5 HOH A 98 598 121 HOH HOH . E 5 HOH A 99 599 149 HOH HOH . E 5 HOH A 100 600 162 HOH HOH . E 5 HOH A 101 601 38 HOH HOH . E 5 HOH A 102 602 79 HOH HOH . E 5 HOH A 103 603 55 HOH HOH . E 5 HOH A 104 604 215 HOH HOH . E 5 HOH A 105 605 165 HOH HOH . E 5 HOH A 106 606 48 HOH HOH . E 5 HOH A 107 607 171 HOH HOH . E 5 HOH A 108 608 70 HOH HOH . E 5 HOH A 109 609 34 HOH HOH . E 5 HOH A 110 610 122 HOH HOH . E 5 HOH A 111 611 87 HOH HOH . E 5 HOH A 112 612 114 HOH HOH . E 5 HOH A 113 613 61 HOH HOH . E 5 HOH A 114 614 71 HOH HOH . E 5 HOH A 115 615 25 HOH HOH . E 5 HOH A 116 616 88 HOH HOH . E 5 HOH A 117 617 130 HOH HOH . E 5 HOH A 118 618 150 HOH HOH . E 5 HOH A 119 619 32 HOH HOH . E 5 HOH A 120 620 164 HOH HOH . E 5 HOH A 121 621 99 HOH HOH . E 5 HOH A 122 622 152 HOH HOH . E 5 HOH A 123 623 51 HOH HOH . E 5 HOH A 124 624 82 HOH HOH . E 5 HOH A 125 625 12 HOH HOH . E 5 HOH A 126 626 146 HOH HOH . E 5 HOH A 127 627 208 HOH HOH . E 5 HOH A 128 628 193 HOH HOH . E 5 HOH A 129 629 56 HOH HOH . E 5 HOH A 130 630 128 HOH HOH . E 5 HOH A 131 631 220 HOH HOH . E 5 HOH A 132 632 43 HOH HOH . E 5 HOH A 133 633 107 HOH HOH . E 5 HOH A 134 634 127 HOH HOH . E 5 HOH A 135 635 133 HOH HOH . E 5 HOH A 136 636 68 HOH HOH . E 5 HOH A 137 637 131 HOH HOH . E 5 HOH A 138 638 180 HOH HOH . E 5 HOH A 139 639 212 HOH HOH . E 5 HOH A 140 640 100 HOH HOH . E 5 HOH A 141 641 158 HOH HOH . E 5 HOH A 142 642 187 HOH HOH . E 5 HOH A 143 643 156 HOH HOH . E 5 HOH A 144 644 153 HOH HOH . E 5 HOH A 145 645 23 HOH HOH . E 5 HOH A 146 646 76 HOH HOH . E 5 HOH A 147 647 225 HOH HOH . E 5 HOH A 148 648 52 HOH HOH . E 5 HOH A 149 649 135 HOH HOH . E 5 HOH A 150 650 175 HOH HOH . E 5 HOH A 151 651 40 HOH HOH . E 5 HOH A 152 652 141 HOH HOH . E 5 HOH A 153 653 93 HOH HOH . E 5 HOH A 154 654 163 HOH HOH . E 5 HOH A 155 655 17 HOH HOH . E 5 HOH A 156 656 86 HOH HOH . E 5 HOH A 157 657 16 HOH HOH . E 5 HOH A 158 658 147 HOH HOH . E 5 HOH A 159 659 33 HOH HOH . E 5 HOH A 160 660 110 HOH HOH . E 5 HOH A 161 661 65 HOH HOH . E 5 HOH A 162 662 151 HOH HOH . E 5 HOH A 163 663 59 HOH HOH . E 5 HOH A 164 664 199 HOH HOH . E 5 HOH A 165 665 95 HOH HOH . E 5 HOH A 166 666 218 HOH HOH . E 5 HOH A 167 667 204 HOH HOH . E 5 HOH A 168 668 142 HOH HOH . E 5 HOH A 169 669 195 HOH HOH . E 5 HOH A 170 670 120 HOH HOH . E 5 HOH A 171 671 231 HOH HOH . E 5 HOH A 172 672 207 HOH HOH . E 5 HOH A 173 673 113 HOH HOH . E 5 HOH A 174 674 83 HOH HOH . E 5 HOH A 175 675 174 HOH HOH . E 5 HOH A 176 676 169 HOH HOH . E 5 HOH A 177 677 75 HOH HOH . E 5 HOH A 178 678 161 HOH HOH . E 5 HOH A 179 679 182 HOH HOH . E 5 HOH A 180 680 157 HOH HOH . E 5 HOH A 181 681 198 HOH HOH . E 5 HOH A 182 682 209 HOH HOH . E 5 HOH A 183 683 214 HOH HOH . E 5 HOH A 184 684 154 HOH HOH . E 5 HOH A 185 685 167 HOH HOH . E 5 HOH A 186 686 206 HOH HOH . E 5 HOH A 187 687 91 HOH HOH . E 5 HOH A 188 688 108 HOH HOH . E 5 HOH A 189 689 226 HOH HOH . E 5 HOH A 190 690 228 HOH HOH . E 5 HOH A 191 691 109 HOH HOH . E 5 HOH A 192 692 144 HOH HOH . E 5 HOH A 193 693 115 HOH HOH . E 5 HOH A 194 694 148 HOH HOH . E 5 HOH A 195 695 170 HOH HOH . E 5 HOH A 196 696 139 HOH HOH . E 5 HOH A 197 697 105 HOH HOH . E 5 HOH A 198 698 205 HOH HOH . E 5 HOH A 199 699 221 HOH HOH . E 5 HOH A 200 700 223 HOH HOH . E 5 HOH A 201 701 213 HOH HOH . E 5 HOH A 202 702 227 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 O O ZZU . . . D 4 12.111 4.618 19.651 0.7 55.27 ? O ZZU 403 A 1 HETATM 2 C C ZZU . . . D 4 12.074 5.817 19.838 0.7 55.27 ? C ZZU 403 A 1 HETATM 3 O OXT ZZU . . . D 4 12.67 6.424 20.828 0.7 55.32 ? OXT ZZU 403 A 1 HETATM 4 C CA ZZU . . . D 4 11.319 6.771 18.897 0.7 54.23 ? CA ZZU 403 A 1 HETATM 5 N N ZZU . . . D 4 11.241 6.194 17.56 0.7 54.22 ? N ZZU 403 A 1 HETATM 6 C CB ZZU . . . D 4 9.885 7.098 19.454 0.7 53.08 ? CB ZZU 403 A 1 HETATM 7 O OB ZZU . . . D 4 9.075 5.922 19.42 0.7 52.85 ? OB ZZU 403 A 1 HETATM 8 C CG ZZU . . . D 4 9.885 7.677 20.867 0.7 52.09 ? CG ZZU 403 A 1 HETATM 9 C CD ZZU . . . D 4 10.175 9.17 20.862 0.7 51.65 ? CD ZZU 403 A 1 HETATM 10 N NE ZZU . . . D 4 8.977 9.969 21.085 0.7 51.19 ? NE ZZU 403 A 1 HETATM 11 C CZ ZZU . . . D 4 8.729 10.709 22.295 0.7 50.59 ? CZ ZZU 403 A 1 HETATM 12 N NH2 ZZU . . . D 4 7.753 11.705 22.147 0.7 49.45 ? NH2 ZZU 403 A 1 HETATM 13 N NH1 ZZU . . . D 4 9.353 10.444 23.415 0.7 50.38 ? NH1 ZZU 403 A 1 HETATM 14 H H2 ZZU . . . D 4 10.442 5.592 17.391 0.7 65.06 ? H2 ZZU 403 A 1 HETATM 15 H HXT ZZU . . . D 4 12.521 7.405 20.787 0.7 66.39 ? HXT ZZU 403 A 1 HETATM 16 H HA ZZU . . . D 4 11.886 7.697 18.812 0.7 65.08 ? HA ZZU 403 A 1 HETATM 17 H H ZZU . . . D 4 11.436 6.839 16.801 0.7 65.06 ? H ZZU 403 A 1 HETATM 18 H HB ZZU . . . D 4 9.364 7.755 18.759 0.7 63.7 ? HB ZZU 403 A 1 HETATM 19 H HC ZZU . . . D 4 9.498 5.239 20.003 0.7 63.41 ? HC ZZU 403 A 1 HETATM 20 H HG1C ZZU . . . D 4 10.6 7.152 21.498 0.7 62.51 ? HG1C ZZU 403 A 1 HETATM 21 H HG2C ZZU . . . D 4 8.917 7.486 21.33 0.7 62.51 ? HG2C ZZU 403 A 1 HETATM 22 H HD1C ZZU . . . D 4 10.892 9.418 21.643 0.7 61.98 ? HD1C ZZU 403 A 1 HETATM 23 H HD2C ZZU . . . D 4 10.673 9.444 19.933 0.7 61.98 ? HD2C ZZU 403 A 1 HETATM 24 H HE ZZU . . . D 4 8.466 10.252 20.255 0.7 61.42 ? HE ZZU 403 A 1 HETATM 25 H HH2 ZZU . . . D 4 7.268 11.888 21.275 0.7 59.34 ? HH2 ZZU 403 A 1 HETATM 26 H HH11 ZZU . . . D 4 10.023 9.682 23.372 0.7 60.46 ? HH11 ZZU 403 A 1 HETATM 27 H HH12 ZZU . . . D 4 7.499 12.288 22.939 0.7 59.34 ? HH12 ZZU 403 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #