data_1EC3 # _model_server_result.job_id JlBMatG9OFXOJMECHyTlWA _model_server_result.datetime_utc '2025-02-27 02:24:53' _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 1ec3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 1EC3 # _exptl.entry_id 1EC3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 768.898 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N,N-[2,5-O-DIBENZYL-GLUCARYL]-DI-[VALINYL-AMINOMETHANYL-PYRIDINE] _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 1EC3 _cell.length_a 58.89 _cell.length_b 86.7 _cell.length_c 46.7 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1EC3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _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 _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 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C42 H52 N6 O8' _chem_comp.formula_weight 768.898 _chem_comp.id MS3 _chem_comp.mon_nstd_flag . _chem_comp.name N,N-[2,5-O-DIBENZYL-GLUCARYL]-DI-[VALINYL-AMINOMETHANYL-PYRIDINE] _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'INHIBITOR MSA367' # 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 C01 C02 MS3 doub 237 n y C01 C06 MS3 sing 238 n y C01 C31 MS3 sing 239 n n C02 C03 MS3 sing 240 n y C02 H2 MS3 sing 241 n n C03 C04 MS3 doub 242 n y C03 H3 MS3 sing 243 n n C04 C05 MS3 sing 244 n y C04 H4 MS3 sing 245 n n C05 C06 MS3 doub 246 n y C05 H5 MS3 sing 247 n n C06 H6 MS3 sing 248 n n C07 C08 MS3 doub 249 n y C07 C12 MS3 sing 250 n y C07 C13 MS3 sing 251 n n C08 C09 MS3 sing 252 n y C08 H8 MS3 sing 253 n n C09 C10 MS3 doub 254 n y C09 H9 MS3 sing 255 n n C10 C11 MS3 sing 256 n y C10 H10 MS3 sing 257 n n C11 C12 MS3 doub 258 n y C11 H11 MS3 sing 259 n n C12 H12 MS3 sing 260 n n C13 O14 MS3 sing 261 n n C13 H131 MS3 sing 262 n n C13 H132 MS3 sing 263 n n O14 C15 MS3 sing 264 n n C15 C16 MS3 sing 265 n n C15 C34 MS3 sing 266 n n C15 H15 MS3 sing 267 n n C16 C17 MS3 sing 268 n n C16 O33 MS3 sing 269 n n C16 H16 MS3 sing 270 n n C17 C18 MS3 sing 271 n n C17 O32 MS3 sing 272 n n C17 H17 MS3 sing 273 n n C18 C19 MS3 sing 274 n n C18 O30 MS3 sing 275 n n C18 H18 MS3 sing 276 n n C19 O20 MS3 doub 277 n n C19 N21 MS3 sing 278 n n N21 C22 MS3 sing 279 n n N21 H21 MS3 sing 280 n n C22 C23 MS3 sing 281 n n C22 C26 MS3 sing 282 n n C22 H22 MS3 sing 283 n n C23 C24 MS3 sing 284 n n C23 C25 MS3 sing 285 n n C23 H23 MS3 sing 286 n n C24 H241 MS3 sing 287 n n C24 H242 MS3 sing 288 n n C24 H243 MS3 sing 289 n n C25 H251 MS3 sing 290 n n C25 H252 MS3 sing 291 n n C25 H253 MS3 sing 292 n n C26 O27 MS3 doub 293 n n C26 N28 MS3 sing 294 n n N28 C29 MS3 sing 295 n n N28 H28 MS3 sing 296 n n C29 C51 MS3 sing 297 n n C29 H291 MS3 sing 298 n n C29 H292 MS3 sing 299 n n O30 C31 MS3 sing 300 n n C31 H311 MS3 sing 301 n n C31 H312 MS3 sing 302 n n O32 H32 MS3 sing 303 n n O33 H33 MS3 sing 304 n n C34 O35 MS3 doub 305 n n C34 N36 MS3 sing 306 n n N36 C37 MS3 sing 307 n n N36 H36 MS3 sing 308 n n C37 C38 MS3 sing 309 n n C37 C41 MS3 sing 310 n n C37 H37 MS3 sing 311 n n C38 C39 MS3 sing 312 n n C38 C40 MS3 sing 313 n n C38 H38 MS3 sing 314 n n C39 H391 MS3 sing 315 n n C39 H392 MS3 sing 316 n n C39 H393 MS3 sing 317 n n C40 H401 MS3 sing 318 n n C40 H402 MS3 sing 319 n n C40 H403 MS3 sing 320 n n C41 O42 MS3 doub 321 n n C41 N43 MS3 sing 322 n n N43 C44 MS3 sing 323 n n N43 H43 MS3 sing 324 n n C44 C45 MS3 sing 325 n n C44 H441 MS3 sing 326 n n C44 H442 MS3 sing 327 n n C45 C46 MS3 doub 328 n y C45 N50 MS3 sing 329 n y C46 C47 MS3 sing 330 n y C46 H46 MS3 sing 331 n n C47 C48 MS3 doub 332 n y C47 H47 MS3 sing 333 n n C48 C49 MS3 sing 334 n y C48 H48 MS3 sing 335 n n C49 N50 MS3 doub 336 n y C49 H49 MS3 sing 337 n n C51 C52 MS3 doub 338 n y C51 N56 MS3 sing 339 n y C52 C53 MS3 sing 340 n y C52 H52 MS3 sing 341 n n C53 C54 MS3 doub 342 n y C53 H53 MS3 sing 343 n n C54 C55 MS3 sing 344 n y C54 H54 MS3 sing 345 n n C55 N56 MS3 doub 346 n y C55 H55 MS3 sing 347 n n # _atom_sites.entry_id 1EC3 _atom_sites.fract_transf_matrix[1][1] 0.016981 _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] 0.011534 _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] 0.021413 _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 MS3 A 1 501 501 MS3 MS3 . D 3 HOH A 1 604 604 HOH HOH . D 3 HOH A 2 606 606 HOH HOH . D 3 HOH A 3 610 610 HOH HOH . D 3 HOH A 4 611 611 HOH HOH . D 3 HOH A 5 613 613 HOH HOH . D 3 HOH A 6 614 614 HOH HOH . D 3 HOH A 7 615 615 HOH HOH . D 3 HOH A 8 616 616 HOH HOH . D 3 HOH A 9 619 619 HOH HOH . D 3 HOH A 10 620 620 HOH HOH . D 3 HOH A 11 621 621 HOH HOH . D 3 HOH A 12 622 622 HOH HOH . D 3 HOH A 13 623 623 HOH HOH . D 3 HOH A 14 624 624 HOH HOH . D 3 HOH A 15 625 625 HOH HOH . D 3 HOH A 16 626 626 HOH HOH . D 3 HOH A 17 629 629 HOH HOH . D 3 HOH A 18 632 632 HOH HOH . D 3 HOH A 19 635 635 HOH HOH . D 3 HOH A 20 638 638 HOH HOH . D 3 HOH A 21 639 639 HOH HOH . D 3 HOH A 22 642 642 HOH HOH . D 3 HOH A 23 643 643 HOH HOH . D 3 HOH A 24 644 644 HOH HOH . D 3 HOH A 25 645 645 HOH HOH . D 3 HOH A 26 647 647 HOH HOH . D 3 HOH A 27 648 648 HOH HOH . D 3 HOH A 28 653 653 HOH HOH . D 3 HOH A 29 661 661 HOH HOH . D 3 HOH A 30 663 663 HOH HOH . D 3 HOH A 31 664 664 HOH HOH . D 3 HOH A 32 665 665 HOH HOH . D 3 HOH A 33 667 667 HOH HOH . D 3 HOH A 34 671 671 HOH HOH . D 3 HOH A 35 672 672 HOH HOH . D 3 HOH A 36 673 673 HOH HOH . D 3 HOH A 37 674 674 HOH HOH . D 3 HOH A 38 675 675 HOH HOH . D 3 HOH A 39 676 676 HOH HOH . D 3 HOH A 40 677 677 HOH HOH . D 3 HOH A 41 679 679 HOH HOH . D 3 HOH A 42 680 680 HOH HOH . D 3 HOH A 43 681 681 HOH HOH . D 3 HOH A 44 683 683 HOH HOH . D 3 HOH A 45 685 685 HOH HOH . D 3 HOH A 46 693 693 HOH HOH . D 3 HOH A 47 694 694 HOH HOH . D 3 HOH A 48 696 696 HOH HOH . D 3 HOH A 49 700 700 HOH HOH . D 3 HOH A 50 703 703 HOH HOH . D 3 HOH A 51 706 706 HOH HOH . D 3 HOH A 52 707 707 HOH HOH . D 3 HOH A 53 709 709 HOH HOH . D 3 HOH A 54 710 710 HOH HOH . D 3 HOH A 55 712 712 HOH HOH . D 3 HOH A 56 718 718 HOH HOH . E 3 HOH B 1 601 601 HOH HOH . E 3 HOH B 2 602 602 HOH HOH . E 3 HOH B 3 603 603 HOH HOH . E 3 HOH B 4 605 605 HOH HOH . E 3 HOH B 5 607 607 HOH HOH . E 3 HOH B 6 608 608 HOH HOH . E 3 HOH B 7 609 609 HOH HOH . E 3 HOH B 8 612 612 HOH HOH . E 3 HOH B 9 617 617 HOH HOH . E 3 HOH B 10 618 618 HOH HOH . E 3 HOH B 11 627 627 HOH HOH . E 3 HOH B 12 628 628 HOH HOH . E 3 HOH B 13 630 630 HOH HOH . E 3 HOH B 14 631 631 HOH HOH . E 3 HOH B 15 633 633 HOH HOH . E 3 HOH B 16 634 634 HOH HOH . E 3 HOH B 17 636 636 HOH HOH . E 3 HOH B 18 637 637 HOH HOH . E 3 HOH B 19 640 640 HOH HOH . E 3 HOH B 20 641 641 HOH HOH . E 3 HOH B 21 646 646 HOH HOH . E 3 HOH B 22 649 649 HOH HOH . E 3 HOH B 23 650 650 HOH HOH . E 3 HOH B 24 651 651 HOH HOH . E 3 HOH B 25 652 652 HOH HOH . E 3 HOH B 26 654 654 HOH HOH . E 3 HOH B 27 655 655 HOH HOH . E 3 HOH B 28 656 656 HOH HOH . E 3 HOH B 29 657 657 HOH HOH . E 3 HOH B 30 658 658 HOH HOH . E 3 HOH B 31 659 659 HOH HOH . E 3 HOH B 32 660 660 HOH HOH . E 3 HOH B 33 662 662 HOH HOH . E 3 HOH B 34 666 666 HOH HOH . E 3 HOH B 35 668 668 HOH HOH . E 3 HOH B 36 669 669 HOH HOH . E 3 HOH B 37 670 670 HOH HOH . E 3 HOH B 38 678 678 HOH HOH . E 3 HOH B 39 682 682 HOH HOH . E 3 HOH B 40 684 684 HOH HOH . E 3 HOH B 41 686 686 HOH HOH . E 3 HOH B 42 687 687 HOH HOH . E 3 HOH B 43 688 688 HOH HOH . E 3 HOH B 44 689 689 HOH HOH . E 3 HOH B 45 690 690 HOH HOH . E 3 HOH B 46 691 691 HOH HOH . E 3 HOH B 47 692 692 HOH HOH . E 3 HOH B 48 695 695 HOH HOH . E 3 HOH B 49 697 697 HOH HOH . E 3 HOH B 50 698 698 HOH HOH . E 3 HOH B 51 699 699 HOH HOH . E 3 HOH B 52 701 701 HOH HOH . E 3 HOH B 53 702 702 HOH HOH . E 3 HOH B 54 704 704 HOH HOH . E 3 HOH B 55 705 705 HOH HOH . E 3 HOH B 56 708 708 HOH HOH . E 3 HOH B 57 711 711 HOH HOH . E 3 HOH B 58 713 713 HOH HOH . E 3 HOH B 59 714 714 HOH HOH . E 3 HOH B 60 715 715 HOH HOH . E 3 HOH B 61 716 716 HOH HOH . E 3 HOH B 62 717 717 HOH HOH . E 3 HOH B 63 719 719 HOH HOH . E 3 HOH B 64 720 720 HOH HOH . E 3 HOH B 65 721 721 HOH HOH . E 3 HOH B 66 722 722 HOH HOH . E 3 HOH B 67 723 723 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 C01 MS3 . . . C 2 16.258 22.069 9.02 1 27.77 ? C01 MS3 501 A 1 HETATM 2 C C02 MS3 . . . C 2 17.204 20.962 8.878 1 30.33 ? C02 MS3 501 A 1 HETATM 3 C C03 MS3 . . . C 2 16.914 19.704 9.581 1 31.31 ? C03 MS3 501 A 1 HETATM 4 C C04 MS3 . . . C 2 15.716 19.577 10.394 1 32.7 ? C04 MS3 501 A 1 HETATM 5 C C05 MS3 . . . C 2 14.777 20.68 10.538 1 32.51 ? C05 MS3 501 A 1 HETATM 6 C C06 MS3 . . . C 2 15.037 21.942 9.85 1 30.64 ? C06 MS3 501 A 1 HETATM 7 C C07 MS3 . . . C 2 10.41 23.813 2.245 1 24.91 ? C07 MS3 501 A 1 HETATM 8 C C08 MS3 . . . C 2 9.404 22.82 2.631 1 26.29 ? C08 MS3 501 A 1 HETATM 9 C C09 MS3 . . . C 2 8.021 23.135 2.504 1 28.01 ? C09 MS3 501 A 1 HETATM 10 C C10 MS3 . . . C 2 7.63 24.442 1.992 1 28.62 ? C10 MS3 501 A 1 HETATM 11 C C11 MS3 . . . C 2 8.619 25.444 1.605 1 27.28 ? C11 MS3 501 A 1 HETATM 12 C C12 MS3 . . . C 2 10.023 25.114 1.739 1 26.88 ? C12 MS3 501 A 1 HETATM 13 C C13 MS3 . . . C 2 11.845 23.45 2.408 1 22.87 ? C13 MS3 501 A 1 HETATM 14 O O14 MS3 . . . C 2 12.125 23.15 3.797 1 25.48 ? O14 MS3 501 A 1 HETATM 15 C C15 MS3 . . . C 2 12.208 24.323 4.682 1 22.97 ? C15 MS3 501 A 1 HETATM 16 C C16 MS3 . . . C 2 13.331 24.143 5.668 1 23.37 ? C16 MS3 501 A 1 HETATM 17 C C17 MS3 . . . C 2 14.655 23.825 5.006 1 23.07 ? C17 MS3 501 A 1 HETATM 18 C C18 MS3 . . . C 2 15.592 23.081 5.963 1 22.2 ? C18 MS3 501 A 1 HETATM 19 C C19 MS3 . . . C 2 15.457 21.549 5.782 1 21.4 ? C19 MS3 501 A 1 HETATM 20 O O20 MS3 . . . C 2 14.44 20.942 6.109 1 20.97 ? O20 MS3 501 A 1 HETATM 21 N N21 MS3 . . . C 2 16.582 20.929 5.232 1 18.76 ? N21 MS3 501 A 1 HETATM 22 C C22 MS3 . . . C 2 16.761 19.505 4.945 1 21.15 ? C22 MS3 501 A 1 HETATM 23 C C23 MS3 . . . C 2 16.535 19.142 3.409 1 23.33 ? C23 MS3 501 A 1 HETATM 24 C C24 MS3 . . . C 2 16.732 17.634 3.059 1 27.12 ? C24 MS3 501 A 1 HETATM 25 C C25 MS3 . . . C 2 15.119 19.496 2.927 1 25.7 ? C25 MS3 501 A 1 HETATM 26 C C26 MS3 . . . C 2 18.186 19.163 5.422 1 21.38 ? C26 MS3 501 A 1 HETATM 27 O O27 MS3 . . . C 2 19.153 19.758 4.957 1 20.35 ? O27 MS3 501 A 1 HETATM 28 N N28 MS3 . . . C 2 18.268 18.163 6.379 1 21.9 ? N28 MS3 501 A 1 HETATM 29 C C29 MS3 . . . C 2 19.763 17.743 6.921 1 24.59 ? C29 MS3 501 A 1 HETATM 30 O O30 MS3 . . . C 2 15.383 23.453 7.389 1 23.48 ? O30 MS3 501 A 1 HETATM 31 C C31 MS3 . . . C 2 16.499 23.329 8.33 1 26.6 ? C31 MS3 501 A 1 HETATM 32 O O32 MS3 . . . C 2 15.181 25.07 4.525 1 22.16 ? O32 MS3 501 A 1 HETATM 33 O O33 MS3 . . . C 2 13.449 25.319 6.562 1 23.04 ? O33 MS3 501 A 1 HETATM 34 C C34 MS3 . . . C 2 10.983 24.483 5.514 1 20.63 ? C34 MS3 501 A 1 HETATM 35 O O35 MS3 . . . C 2 10.545 23.513 6.167 1 18.69 ? O35 MS3 501 A 1 HETATM 36 N N36 MS3 . . . C 2 10.391 25.735 5.515 1 18.46 ? N36 MS3 501 A 1 HETATM 37 C C37 MS3 . . . C 2 9.176 26.073 6.296 1 18.87 ? C37 MS3 501 A 1 HETATM 38 C C38 MS3 . . . C 2 9.493 26.871 7.647 1 22.36 ? C38 MS3 501 A 1 HETATM 39 C C39 MS3 . . . C 2 8.221 27.219 8.492 1 22.65 ? C39 MS3 501 A 1 HETATM 40 C C40 MS3 . . . C 2 10.496 26.138 8.553 1 21.94 ? C40 MS3 501 A 1 HETATM 41 C C41 MS3 . . . C 2 8.283 26.913 5.382 1 20.53 ? C41 MS3 501 A 1 HETATM 42 O O42 MS3 . . . C 2 8.704 27.959 4.954 1 16.02 ? O42 MS3 501 A 1 HETATM 43 N N43 MS3 . . . C 2 7.043 26.381 5.124 1 21.56 ? N43 MS3 501 A 1 HETATM 44 C C44 MS3 . . . C 2 6.061 27.057 4.27 1 26.93 ? C44 MS3 501 A 1 HETATM 45 C C45 MS3 . . . C 2 4.98 26.107 3.794 1 29.76 ? C45 MS3 501 A 1 HETATM 46 C C46 MS3 . . . C 2 4.559 26.122 2.413 1 31.66 ? C46 MS3 501 A 1 HETATM 47 C C47 MS3 . . . C 2 3.506 25.175 2.004 1 34.41 ? C47 MS3 501 A 1 HETATM 48 C C48 MS3 . . . C 2 2.893 24.238 2.963 1 33.88 ? C48 MS3 501 A 1 HETATM 49 C C49 MS3 . . . C 2 3.402 24.32 4.331 1 33.44 ? C49 MS3 501 A 1 HETATM 50 N N50 MS3 . . . C 2 4.405 25.222 4.719 1 32.84 ? N50 MS3 501 A 1 HETATM 51 C C51 MS3 . . . C 2 19.998 18.034 8.42 1 53.21 ? C51 MS3 501 A 1 HETATM 52 C C52 MS3 . . . C 2 20.481 19.314 8.835 1 22.71 ? C52 MS3 501 A 1 HETATM 53 C C53 MS3 . . . C 2 20.698 19.582 10.245 1 22.71 ? C53 MS3 501 A 1 HETATM 54 C C54 MS3 . . . C 2 20.422 18.551 11.198 1 22.71 ? C54 MS3 501 A 1 HETATM 55 C C55 MS3 . . . C 2 19.938 17.279 10.738 1 22.71 ? C55 MS3 501 A 1 HETATM 56 N N56 MS3 . . . C 2 19.739 17.049 9.378 1 22.71 ? N56 MS3 501 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 56 #