data_5N3C # _model_server_result.job_id '_PsNkHA3PtAOTB95bSBU-A' _model_server_result.datetime_utc '2024-11-22 13:26:53' _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 5n3c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 5N3C # _exptl.entry_id 5N3C _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 127.187 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[azanyl(thiophen-3-yl)methylidene]azanium' _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 5N3C _cell.length_a 58.513 _cell.length_b 72.728 _cell.length_c 108.55 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5N3C _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 covale ? covale1 A C GLY 12 A GLY 9 1_555 A N SEP 13 A SEP 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale2 A C SEP 13 A SEP 10 1_555 A N GLU 14 A GLU 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale3 A C PHE 141 A PHE 138 1_555 A N SEP 142 A SEP 139 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.33 ? covale ? covale4 A C PHE 141 A PHE 138 1_555 A N SEP 142 A SEP 139 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.331 ? covale ? covale5 A C SEP 142 A SEP 139 1_555 A N GLU 143 A GLU 140 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale6 A C SEP 142 A SEP 139 1_555 A N GLU 143 A GLU 140 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale7 A C TRP 199 A TRP 196 1_555 A N TPO 200 A TPO 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale8 A C TPO 200 A TPO 197 1_555 A N LEU 201 A LEU 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale9 A C VAL 340 A VAL 337 1_555 A N SEP 341 A SEP 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale10 A C SEP 341 A SEP 338 1_555 A N ILE 342 A ILE 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? # _chem_comp.formula 'C5 H7 N2 S 1' _chem_comp.formula_weight 127.187 _chem_comp.id 8M2 _chem_comp.mon_nstd_flag . _chem_comp.name '[azanyl(thiophen-3-yl)methylidene]azanium' _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 C3 C5 8M2 doub 1 n y C3 C1 8M2 sing 2 n y C5 S1 8M2 sing 3 n y N1 C2 8M2 doub 4 n n C2 N2 8M2 sing 5 n n C2 C1 8M2 sing 6 n n C1 C4 8M2 doub 7 n y S1 C4 8M2 sing 8 n y C4 HC4 8M2 sing 9 n n C5 HC5 8M2 sing 10 n n C3 HC3 8M2 sing 11 n n N2 HN21 8M2 sing 12 n n N2 HN22 8M2 sing 13 n n N1 HN1 8M2 sing 14 n n N1 H1 8M2 sing 15 n n # _atom_sites.entry_id 5N3C _atom_sites.fract_transf_matrix[1][1] 0.01709 _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] 0.01375 _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] 0.009212 _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 3 8M2 A 1 401 1 8M2 XXX . D 4 MPD A 1 402 1 MPD MPD . E 5 HOH A 1 501 139 HOH HOH . E 5 HOH A 2 502 214 HOH HOH . E 5 HOH A 3 503 121 HOH HOH . E 5 HOH A 4 504 64 HOH HOH . E 5 HOH A 5 505 149 HOH HOH . E 5 HOH A 6 506 133 HOH HOH . E 5 HOH A 7 507 131 HOH HOH . E 5 HOH A 8 508 78 HOH HOH . E 5 HOH A 9 509 219 HOH HOH . E 5 HOH A 10 510 201 HOH HOH . E 5 HOH A 11 511 132 HOH HOH . E 5 HOH A 12 512 183 HOH HOH . E 5 HOH A 13 513 108 HOH HOH . E 5 HOH A 14 514 169 HOH HOH . E 5 HOH A 15 515 75 HOH HOH . E 5 HOH A 16 516 123 HOH HOH . E 5 HOH A 17 517 5 HOH HOH . E 5 HOH A 18 518 146 HOH HOH . E 5 HOH A 19 519 232 HOH HOH . E 5 HOH A 20 520 206 HOH HOH . E 5 HOH A 21 521 216 HOH HOH . E 5 HOH A 22 522 217 HOH HOH . E 5 HOH A 23 523 19 HOH HOH . E 5 HOH A 24 524 155 HOH HOH . E 5 HOH A 25 525 52 HOH HOH . E 5 HOH A 26 526 171 HOH HOH . E 5 HOH A 27 527 158 HOH HOH . E 5 HOH A 28 528 198 HOH HOH . E 5 HOH A 29 529 138 HOH HOH . E 5 HOH A 30 530 55 HOH HOH . E 5 HOH A 31 531 41 HOH HOH . E 5 HOH A 32 532 67 HOH HOH . E 5 HOH A 33 533 49 HOH HOH . E 5 HOH A 34 534 110 HOH HOH . E 5 HOH A 35 535 145 HOH HOH . E 5 HOH A 36 536 74 HOH HOH . E 5 HOH A 37 537 11 HOH HOH . E 5 HOH A 38 538 120 HOH HOH . E 5 HOH A 39 539 211 HOH HOH . E 5 HOH A 40 540 83 HOH HOH . E 5 HOH A 41 541 237 HOH HOH . E 5 HOH A 42 542 85 HOH HOH . E 5 HOH A 43 543 243 HOH HOH . E 5 HOH A 44 544 62 HOH HOH . E 5 HOH A 45 545 209 HOH HOH . E 5 HOH A 46 546 24 HOH HOH . E 5 HOH A 47 547 48 HOH HOH . E 5 HOH A 48 548 109 HOH HOH . E 5 HOH A 49 549 97 HOH HOH . E 5 HOH A 50 550 117 HOH HOH . E 5 HOH A 51 551 9 HOH HOH . E 5 HOH A 52 552 107 HOH HOH . E 5 HOH A 53 553 239 HOH HOH . E 5 HOH A 54 554 161 HOH HOH . E 5 HOH A 55 555 210 HOH HOH . E 5 HOH A 56 556 79 HOH HOH . E 5 HOH A 57 557 47 HOH HOH . E 5 HOH A 58 558 46 HOH HOH . E 5 HOH A 59 559 84 HOH HOH . E 5 HOH A 60 560 60 HOH HOH . E 5 HOH A 61 561 153 HOH HOH . E 5 HOH A 62 562 30 HOH HOH . E 5 HOH A 63 563 14 HOH HOH . E 5 HOH A 64 564 186 HOH HOH . E 5 HOH A 65 565 39 HOH HOH . E 5 HOH A 66 566 56 HOH HOH . E 5 HOH A 67 567 195 HOH HOH . E 5 HOH A 68 568 241 HOH HOH . E 5 HOH A 69 569 147 HOH HOH . E 5 HOH A 70 570 25 HOH HOH . E 5 HOH A 71 571 13 HOH HOH . E 5 HOH A 72 572 68 HOH HOH . E 5 HOH A 73 573 51 HOH HOH . E 5 HOH A 74 574 94 HOH HOH . E 5 HOH A 75 575 98 HOH HOH . E 5 HOH A 76 576 21 HOH HOH . E 5 HOH A 77 577 126 HOH HOH . E 5 HOH A 78 578 81 HOH HOH . E 5 HOH A 79 579 3 HOH HOH . E 5 HOH A 80 580 8 HOH HOH . E 5 HOH A 81 581 236 HOH HOH . E 5 HOH A 82 582 26 HOH HOH . E 5 HOH A 83 583 2 HOH HOH . E 5 HOH A 84 584 95 HOH HOH . E 5 HOH A 85 585 102 HOH HOH . E 5 HOH A 86 586 6 HOH HOH . E 5 HOH A 87 587 128 HOH HOH . E 5 HOH A 88 588 50 HOH HOH . E 5 HOH A 89 589 116 HOH HOH . E 5 HOH A 90 590 174 HOH HOH . E 5 HOH A 91 591 175 HOH HOH . E 5 HOH A 92 592 207 HOH HOH . E 5 HOH A 93 593 22 HOH HOH . E 5 HOH A 94 594 167 HOH HOH . E 5 HOH A 95 595 42 HOH HOH . E 5 HOH A 96 596 20 HOH HOH . E 5 HOH A 97 597 165 HOH HOH . E 5 HOH A 98 598 199 HOH HOH . E 5 HOH A 99 599 38 HOH HOH . E 5 HOH A 100 600 29 HOH HOH . E 5 HOH A 101 601 118 HOH HOH . E 5 HOH A 102 602 154 HOH HOH . E 5 HOH A 103 603 54 HOH HOH . E 5 HOH A 104 604 23 HOH HOH . E 5 HOH A 105 605 170 HOH HOH . E 5 HOH A 106 606 59 HOH HOH . E 5 HOH A 107 607 242 HOH HOH . E 5 HOH A 108 608 189 HOH HOH . E 5 HOH A 109 609 40 HOH HOH . E 5 HOH A 110 610 113 HOH HOH . E 5 HOH A 111 611 156 HOH HOH . E 5 HOH A 112 612 103 HOH HOH . E 5 HOH A 113 613 181 HOH HOH . E 5 HOH A 114 614 43 HOH HOH . E 5 HOH A 115 615 164 HOH HOH . E 5 HOH A 116 616 34 HOH HOH . E 5 HOH A 117 617 45 HOH HOH . E 5 HOH A 118 618 58 HOH HOH . E 5 HOH A 119 619 86 HOH HOH . E 5 HOH A 120 620 178 HOH HOH . E 5 HOH A 121 621 72 HOH HOH . E 5 HOH A 122 622 35 HOH HOH . E 5 HOH A 123 623 63 HOH HOH . E 5 HOH A 124 624 160 HOH HOH . E 5 HOH A 125 625 227 HOH HOH . E 5 HOH A 126 626 159 HOH HOH . E 5 HOH A 127 627 125 HOH HOH . E 5 HOH A 128 628 15 HOH HOH . E 5 HOH A 129 629 184 HOH HOH . E 5 HOH A 130 630 82 HOH HOH . E 5 HOH A 131 631 69 HOH HOH . E 5 HOH A 132 632 71 HOH HOH . E 5 HOH A 133 633 136 HOH HOH . E 5 HOH A 134 634 187 HOH HOH . E 5 HOH A 135 635 36 HOH HOH . E 5 HOH A 136 636 99 HOH HOH . E 5 HOH A 137 637 96 HOH HOH . E 5 HOH A 138 638 66 HOH HOH . E 5 HOH A 139 639 12 HOH HOH . E 5 HOH A 140 640 10 HOH HOH . E 5 HOH A 141 641 91 HOH HOH . E 5 HOH A 142 642 17 HOH HOH . E 5 HOH A 143 643 57 HOH HOH . E 5 HOH A 144 644 28 HOH HOH . E 5 HOH A 145 645 127 HOH HOH . E 5 HOH A 146 646 37 HOH HOH . E 5 HOH A 147 647 148 HOH HOH . E 5 HOH A 148 648 53 HOH HOH . E 5 HOH A 149 649 88 HOH HOH . E 5 HOH A 150 650 230 HOH HOH . E 5 HOH A 151 651 238 HOH HOH . E 5 HOH A 152 652 172 HOH HOH . E 5 HOH A 153 653 244 HOH HOH . E 5 HOH A 154 654 73 HOH HOH . E 5 HOH A 155 655 89 HOH HOH . E 5 HOH A 156 656 33 HOH HOH . E 5 HOH A 157 657 193 HOH HOH . E 5 HOH A 158 658 119 HOH HOH . E 5 HOH A 159 659 234 HOH HOH . E 5 HOH A 160 660 112 HOH HOH . E 5 HOH A 161 661 213 HOH HOH . E 5 HOH A 162 662 208 HOH HOH . E 5 HOH A 163 663 114 HOH HOH . E 5 HOH A 164 664 162 HOH HOH . E 5 HOH A 165 665 168 HOH HOH . E 5 HOH A 166 666 151 HOH HOH . E 5 HOH A 167 667 124 HOH HOH . E 5 HOH A 168 668 27 HOH HOH . E 5 HOH A 169 669 233 HOH HOH . E 5 HOH A 170 670 61 HOH HOH . E 5 HOH A 171 671 245 HOH HOH . E 5 HOH A 172 672 105 HOH HOH . E 5 HOH A 173 673 115 HOH HOH . E 5 HOH A 174 674 185 HOH HOH . E 5 HOH A 175 675 197 HOH HOH . E 5 HOH A 176 676 223 HOH HOH . E 5 HOH A 177 677 191 HOH HOH . E 5 HOH A 178 678 80 HOH HOH . E 5 HOH A 179 679 90 HOH HOH . E 5 HOH A 180 680 177 HOH HOH . E 5 HOH A 181 681 200 HOH HOH . E 5 HOH A 182 682 220 HOH HOH . E 5 HOH A 183 683 196 HOH HOH . E 5 HOH A 184 684 70 HOH HOH . E 5 HOH A 185 685 194 HOH HOH . E 5 HOH A 186 686 137 HOH HOH . E 5 HOH A 187 687 134 HOH HOH . E 5 HOH A 188 688 100 HOH HOH . E 5 HOH A 189 689 203 HOH HOH . E 5 HOH A 190 690 92 HOH HOH . E 5 HOH A 191 691 228 HOH HOH . E 5 HOH A 192 692 31 HOH HOH . E 5 HOH A 193 693 205 HOH HOH . E 5 HOH A 194 694 166 HOH HOH . E 5 HOH A 195 695 202 HOH HOH . E 5 HOH A 196 696 142 HOH HOH . E 5 HOH A 197 697 104 HOH HOH . E 5 HOH A 198 698 225 HOH HOH . E 5 HOH A 199 699 144 HOH HOH . E 5 HOH A 200 700 229 HOH HOH . E 5 HOH A 201 701 140 HOH HOH . E 5 HOH A 202 702 246 HOH HOH . E 5 HOH A 203 703 150 HOH HOH . E 5 HOH A 204 704 87 HOH HOH . E 5 HOH A 205 705 176 HOH HOH . E 5 HOH A 206 706 77 HOH HOH . E 5 HOH A 207 707 190 HOH HOH . E 5 HOH A 208 708 221 HOH HOH . E 5 HOH A 209 709 226 HOH HOH . E 5 HOH A 210 710 188 HOH HOH . E 5 HOH A 211 711 93 HOH HOH . E 5 HOH A 212 712 222 HOH HOH . E 5 HOH A 213 713 224 HOH HOH . E 5 HOH A 214 714 235 HOH HOH . E 5 HOH A 215 715 215 HOH HOH . E 5 HOH A 216 716 157 HOH HOH . E 5 HOH A 217 717 204 HOH HOH . E 5 HOH A 218 718 135 HOH HOH . E 5 HOH A 219 719 240 HOH HOH . E 5 HOH A 220 720 212 HOH HOH . E 5 HOH A 221 721 218 HOH HOH . E 5 HOH A 222 722 179 HOH HOH . E 5 HOH A 223 723 180 HOH HOH . F 5 HOH B 1 101 7 HOH HOH . F 5 HOH B 2 102 65 HOH HOH . F 5 HOH B 3 103 32 HOH HOH . F 5 HOH B 4 104 141 HOH HOH . F 5 HOH B 5 105 16 HOH HOH . F 5 HOH B 6 106 192 HOH HOH . F 5 HOH B 7 107 111 HOH HOH . F 5 HOH B 8 108 143 HOH HOH . F 5 HOH B 9 109 152 HOH HOH . F 5 HOH B 10 110 173 HOH HOH . F 5 HOH B 11 111 163 HOH HOH . F 5 HOH B 12 112 231 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 C4 8M2 . . . C 3 -13.691 25.708 -26.003 0.69 36.48 ? C4 8M2 401 A 1 HETATM 2 S S1 8M2 . . . C 3 -14.127 27.348 -26.141 0.69 38.02 ? S1 8M2 401 A 1 HETATM 3 C C5 8M2 . . . C 3 -12.554 27.782 -26.697 0.69 35.14 ? C5 8M2 401 A 1 HETATM 4 C C3 8M2 . . . C 3 -11.745 26.701 -26.76 0.69 32.14 ? C3 8M2 401 A 1 HETATM 5 C C1 8M2 . . . C 3 -12.389 25.484 -26.367 0.69 32.56 ? C1 8M2 401 A 1 HETATM 6 C C2 8M2 . . . C 3 -11.733 24.209 -26.388 0.69 30.42 ? C2 8M2 401 A 1 HETATM 7 N N2 8M2 . . . C 3 -10.422 24.164 -26.379 0.69 29.97 ? N2 8M2 401 A 1 HETATM 8 N N1 8M2 . . . C 3 -12.442 23.109 -26.436 0.69 29.86 1 N1 8M2 401 A 1 HETATM 9 H HC4 8M2 . . . C 3 -14.412 24.968 -25.659 0.69 43.78 ? HC4 8M2 401 A 1 HETATM 10 H HC5 8M2 . . . C 3 -12.296 28.809 -26.952 0.69 42.17 ? HC5 8M2 401 A 1 HETATM 11 H HC3 8M2 . . . C 3 -10.704 26.743 -27.078 0.69 38.57 ? HC3 8M2 401 A 1 HETATM 12 H HN21 8M2 . . . C 3 -9.932 23.276 -26.408 0.69 35.97 ? HN21 8M2 401 A 1 HETATM 13 H HN22 8M2 . . . C 3 -9.815 24.977 -26.343 0.69 35.97 ? HN22 8M2 401 A 1 HETATM 14 H HN1 8M2 . . . C 3 -12.052 22.172 -26.468 0.69 35.83 1 HN1 8M2 401 A 1 HETATM 15 H H1 8M2 . . . C 3 -13.456 23.143 -26.443 0.69 35.83 1 H1 8M2 401 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 17 _model_server_stats.element_count 15 #