data_6T8V # _model_server_result.job_id ALeTkXBzososWouhcnzK-w _model_server_result.datetime_utc '2024-11-23 23:35:08' _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 6t8v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":306}' # _entry.id 6T8V # _exptl.entry_id 6T8V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 362.465 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '4-[(2~{S})-1-[(5,7-dimethyl-1~{H}-indol-4-yl)methyl]piperidin-2-yl]benzoic acid' _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 100.465 _cell.angle_gamma 90 _cell.entry_id 6T8V _cell.length_a 54.652 _cell.length_b 97.487 _cell.length_c 61.975 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6T8V _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,L 1 1 B,F,G,H,I,J,K,M 2 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 E N N ? 3 K 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 disulf ? disulf1 A SG CYS 5 AAA CYS 1 1_555 A SG CYS 123 AAA CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? disulf ? disulf2 A SG CYS 38 AAA CYS 42 1_555 A SG CYS 54 AAA CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? disulf ? disulf3 A SG CYS 126 AAA CYS 125 1_555 A SG CYS 142 AAA CYS 125 1_555 ? ? ? P ? ? ? ? ? ? ? ? 2.103 ? disulf ? disulf4 A SG CYS 183 AAA CYS 168 1_555 A SG CYS 209 AAA CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? disulf ? disulf5 A SG CYS 222 AAA CYS 191 1_555 A SG CYS 252 AAA CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? disulf ? disulf6 B SG CYS 5 BBB CYS 1 1_555 B SG CYS 123 BBB CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? disulf ? disulf7 B SG CYS 38 BBB CYS 42 1_555 B SG CYS 54 BBB CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? disulf ? disulf8 B SG CYS 126 BBB CYS 125 1_555 B SG CYS 142 BBB CYS 125 1_555 ? ? ? P ? ? ? ? ? ? ? ? 2.089 ? disulf ? disulf9 B SG CYS 183 BBB CYS 168 1_555 B SG CYS 209 BBB CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? disulf ? disulf10 B SG CYS 222 BBB CYS 191 1_555 B SG CYS 252 BBB CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc1 A NE2 HIS 62 AAA HIS 62 1_555 J ZN ZN . BBB ZN 305 1_556 D ? ? ? ? ? ? ? ? ? ? ? 2.025 ? metalc ? metalc2 A OD1 ASP 186 AAA ASP 171 1_555 I ZN ZN . BBB ZN 304 1_655 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? metalc ? metalc3 A OD2 ASP 186 AAA ASP 171 1_555 I ZN ZN . BBB ZN 304 1_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.596 ? metalc ? metalc4 A ND1 HIS 264 AAA HIS 223 1_555 I ZN ZN . BBB ZN 304 1_655 ? ? ? ? ? ? ? ? ? ? ? ? 1.994 ? metalc ? metalc5 B NE2 HIS 62 BBB HIS 62 1_555 I ZN ZN . BBB ZN 304 1_555 D ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc6 B OD1 ASP 186 BBB ASP 171 1_555 J ZN ZN . BBB ZN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? metalc ? metalc7 B OD2 ASP 186 BBB ASP 171 1_555 J ZN ZN . BBB ZN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.524 ? metalc ? metalc8 B ND1 HIS 264 BBB HIS 223 1_555 J ZN ZN . BBB ZN 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc9 I ZN ZN . BBB ZN 304 1_555 M O HOH . BBB HOH 414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? # _chem_comp.formula 'C23 H26 N2 O2' _chem_comp.formula_weight 362.465 _chem_comp.id MVK _chem_comp.mon_nstd_flag . _chem_comp.name '4-[(2~{S})-1-[(5,7-dimethyl-1~{H}-indol-4-yl)methyl]piperidin-2-yl]benzoic acid' _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 C15 C16 MVK sing 237 n n C15 C14 MVK sing 238 n n C16 C17 MVK sing 239 n n C17 C18 MVK sing 240 n n C14 N9 MVK sing 241 n n C18 N9 MVK sing 242 n n C18 C19 MVK sing 243 n n C24 C19 MVK doub 244 n y C24 C23 MVK sing 245 n y N9 C8 MVK sing 246 n n C19 C20 MVK sing 247 n y C23 C22 MVK doub 248 n y C12 C11 MVK doub 249 n y C12 N13 MVK sing 250 n y C11 C5 MVK sing 251 n y N13 C4 MVK sing 252 n y C20 C21 MVK doub 253 n y C5 C4 MVK doub 254 n y C5 C6 MVK sing 255 n y C22 C21 MVK sing 256 n y C22 C25 MVK sing 257 n n C8 C6 MVK sing 258 n n C4 C3 MVK sing 259 n y C6 C1 MVK doub 260 n y O26 C25 MVK doub 261 n n C3 C7 MVK sing 262 n n C3 C2 MVK doub 263 n y C1 C2 MVK sing 264 n y C1 C10 MVK sing 265 n n C25 O27 MVK sing 266 n n C2 H1 MVK sing 267 n n C11 H2 MVK sing 268 n n C12 H3 MVK sing 269 n n C14 H4 MVK sing 270 n n C14 H5 MVK sing 271 n n C15 H6 MVK sing 272 n n C15 H7 MVK sing 273 n n C16 H8 MVK sing 274 n n C16 H9 MVK sing 275 n n C17 H10 MVK sing 276 n n C17 H11 MVK sing 277 n n C18 H12 MVK sing 278 n n C20 H13 MVK sing 279 n n C21 H14 MVK sing 280 n n C23 H15 MVK sing 281 n n C24 H16 MVK sing 282 n n C7 H17 MVK sing 283 n n C7 H18 MVK sing 284 n n C7 H19 MVK sing 285 n n C8 H20 MVK sing 286 n n C8 H21 MVK sing 287 n n C10 H23 MVK sing 288 n n C10 H24 MVK sing 289 n n C10 H25 MVK sing 290 n n N13 H26 MVK sing 291 n n O27 H27 MVK sing 292 n n # _atom_sites.entry_id 6T8V _atom_sites.fract_transf_matrix[1][1] 0.018298 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00338 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010258 _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] 0.016408 _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 SO4 AAA 1 301 3 SO4 SO4 . D 2 SO4 AAA 1 302 6 SO4 SO4 . E 3 MVK AAA 1 303 1 MVK LI1 . F 2 SO4 BBB 1 301 1 SO4 SO4 . G 2 SO4 BBB 1 302 2 SO4 SO4 . H 2 SO4 BBB 1 303 7 SO4 SO4 . I 4 ZN BBB 1 304 2 ZN ZN . J 4 ZN BBB 1 305 3 ZN ZN . K 3 MVK BBB 1 306 1 MVK LI1 . L 5 HOH AAA 1 401 599 HOH HOH . L 5 HOH AAA 2 402 574 HOH HOH . L 5 HOH AAA 3 403 662 HOH HOH . L 5 HOH AAA 4 404 658 HOH HOH . L 5 HOH AAA 5 405 608 HOH HOH . L 5 HOH AAA 6 406 685 HOH HOH . L 5 HOH AAA 7 407 610 HOH HOH . L 5 HOH AAA 8 408 652 HOH HOH . L 5 HOH AAA 9 409 601 HOH HOH . L 5 HOH AAA 10 410 650 HOH HOH . L 5 HOH AAA 11 411 583 HOH HOH . L 5 HOH AAA 12 412 594 HOH HOH . L 5 HOH AAA 13 413 628 HOH HOH . L 5 HOH AAA 14 414 686 HOH HOH . L 5 HOH AAA 15 415 614 HOH HOH . L 5 HOH AAA 16 416 615 HOH HOH . L 5 HOH AAA 17 417 592 HOH HOH . L 5 HOH AAA 18 418 670 HOH HOH . L 5 HOH AAA 19 419 584 HOH HOH . L 5 HOH AAA 20 420 622 HOH HOH . L 5 HOH AAA 21 421 619 HOH HOH . L 5 HOH AAA 22 422 680 HOH HOH . L 5 HOH AAA 23 423 653 HOH HOH . L 5 HOH AAA 24 424 661 HOH HOH . L 5 HOH AAA 25 425 641 HOH HOH . L 5 HOH AAA 26 426 655 HOH HOH . L 5 HOH AAA 27 427 669 HOH HOH . L 5 HOH AAA 28 428 682 HOH HOH . L 5 HOH AAA 29 429 623 HOH HOH . L 5 HOH AAA 30 430 609 HOH HOH . L 5 HOH AAA 31 431 577 HOH HOH . L 5 HOH AAA 32 432 582 HOH HOH . L 5 HOH AAA 33 433 633 HOH HOH . L 5 HOH AAA 34 434 587 HOH HOH . L 5 HOH AAA 35 435 598 HOH HOH . L 5 HOH AAA 36 436 629 HOH HOH . L 5 HOH AAA 37 437 606 HOH HOH . L 5 HOH AAA 38 438 600 HOH HOH . L 5 HOH AAA 39 439 591 HOH HOH . L 5 HOH AAA 40 440 579 HOH HOH . L 5 HOH AAA 41 441 613 HOH HOH . L 5 HOH AAA 42 442 638 HOH HOH . L 5 HOH AAA 43 443 595 HOH HOH . L 5 HOH AAA 44 444 643 HOH HOH . L 5 HOH AAA 45 445 637 HOH HOH . L 5 HOH AAA 46 446 665 HOH HOH . L 5 HOH AAA 47 447 675 HOH HOH . L 5 HOH AAA 48 448 644 HOH HOH . L 5 HOH AAA 49 449 617 HOH HOH . L 5 HOH AAA 50 450 597 HOH HOH . L 5 HOH AAA 51 451 683 HOH HOH . L 5 HOH AAA 52 452 645 HOH HOH . L 5 HOH AAA 53 453 668 HOH HOH . L 5 HOH AAA 54 454 620 HOH HOH . L 5 HOH AAA 55 455 689 HOH HOH . M 5 HOH BBB 1 401 618 HOH HOH . M 5 HOH BBB 2 402 593 HOH HOH . M 5 HOH BBB 3 403 684 HOH HOH . M 5 HOH BBB 4 404 590 HOH HOH . M 5 HOH BBB 5 405 581 HOH HOH . M 5 HOH BBB 6 406 612 HOH HOH . M 5 HOH BBB 7 407 647 HOH HOH . M 5 HOH BBB 8 408 624 HOH HOH . M 5 HOH BBB 9 409 611 HOH HOH . M 5 HOH BBB 10 410 648 HOH HOH . M 5 HOH BBB 11 411 657 HOH HOH . M 5 HOH BBB 12 412 607 HOH HOH . M 5 HOH BBB 13 413 639 HOH HOH . M 5 HOH BBB 14 414 625 HOH HOH . M 5 HOH BBB 15 415 621 HOH HOH . M 5 HOH BBB 16 416 642 HOH HOH . M 5 HOH BBB 17 417 632 HOH HOH . M 5 HOH BBB 18 418 672 HOH HOH . M 5 HOH BBB 19 419 676 HOH HOH . M 5 HOH BBB 20 420 667 HOH HOH . M 5 HOH BBB 21 421 589 HOH HOH . M 5 HOH BBB 22 422 604 HOH HOH . M 5 HOH BBB 23 423 578 HOH HOH . M 5 HOH BBB 24 424 576 HOH HOH . M 5 HOH BBB 25 425 674 HOH HOH . M 5 HOH BBB 26 426 630 HOH HOH . M 5 HOH BBB 27 427 603 HOH HOH . M 5 HOH BBB 28 428 575 HOH HOH . M 5 HOH BBB 29 429 631 HOH HOH . M 5 HOH BBB 30 430 635 HOH HOH . M 5 HOH BBB 31 431 605 HOH HOH . M 5 HOH BBB 32 432 688 HOH HOH . M 5 HOH BBB 33 433 586 HOH HOH . M 5 HOH BBB 34 434 660 HOH HOH . M 5 HOH BBB 35 435 656 HOH HOH . M 5 HOH BBB 36 436 626 HOH HOH . M 5 HOH BBB 37 437 634 HOH HOH . M 5 HOH BBB 38 438 580 HOH HOH . M 5 HOH BBB 39 439 678 HOH HOH . M 5 HOH BBB 40 440 654 HOH HOH . M 5 HOH BBB 41 441 664 HOH HOH . M 5 HOH BBB 42 442 666 HOH HOH . M 5 HOH BBB 43 443 588 HOH HOH . M 5 HOH BBB 44 444 616 HOH HOH . M 5 HOH BBB 45 445 585 HOH HOH . M 5 HOH BBB 46 446 640 HOH HOH . M 5 HOH BBB 47 447 651 HOH HOH . M 5 HOH BBB 48 448 627 HOH HOH . M 5 HOH BBB 49 449 673 HOH HOH . M 5 HOH BBB 50 450 596 HOH HOH . M 5 HOH BBB 51 451 681 HOH HOH . M 5 HOH BBB 52 452 646 HOH HOH . M 5 HOH BBB 53 453 671 HOH HOH . M 5 HOH BBB 54 454 687 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 C1 MVK . . . K 3 -37.218 -22.724 -37.309 1 18.22 ? C1 MVK 306 BBB 1 HETATM 2 C C2 MVK . . . K 3 -37.285 -24.12 -37.036 1 16.03 ? C2 MVK 306 BBB 1 HETATM 3 C C3 MVK . . . K 3 -36.898 -25.103 -38.008 1 16.76 ? C3 MVK 306 BBB 1 HETATM 4 C C11 MVK . . . K 3 -35.943 -23.23 -40.97 1 17.4 ? C11 MVK 306 BBB 1 HETATM 5 C C12 MVK . . . K 3 -35.8 -24.525 -41.349 1 17.47 ? C12 MVK 306 BBB 1 HETATM 6 C C14 MVK . . . K 3 -34.787 -20.121 -37.367 1 23.94 ? C14 MVK 306 BBB 1 HETATM 7 C C15 MVK . . . K 3 -33.349 -19.558 -37.224 1 24.93 ? C15 MVK 306 BBB 1 HETATM 8 C C16 MVK . . . K 3 -33.276 -18.068 -37.64 1 25.88 ? C16 MVK 306 BBB 1 HETATM 9 C C17 MVK . . . K 3 -33.658 -18.052 -39.148 1 26.02 ? C17 MVK 306 BBB 1 HETATM 10 C C18 MVK . . . K 3 -35.071 -18.68 -39.36 1 26.26 ? C18 MVK 306 BBB 1 HETATM 11 C C19 MVK . . . K 3 -35.407 -18.726 -40.857 1 26.73 ? C19 MVK 306 BBB 1 HETATM 12 C C20 MVK . . . K 3 -36.422 -17.904 -41.385 1 28.83 ? C20 MVK 306 BBB 1 HETATM 13 C C21 MVK . . . K 3 -36.776 -17.984 -42.744 1 28.04 ? C21 MVK 306 BBB 1 HETATM 14 C C22 MVK . . . K 3 -36.093 -18.866 -43.59 1 30.01 ? C22 MVK 306 BBB 1 HETATM 15 C C23 MVK . . . K 3 -35.084 -19.699 -43.068 1 28.7 ? C23 MVK 306 BBB 1 HETATM 16 C C24 MVK . . . K 3 -34.742 -19.625 -41.704 1 28.76 ? C24 MVK 306 BBB 1 HETATM 17 C C25 MVK . . . K 3 -36.458 -18.94 -45.05 1 31.97 ? C25 MVK 306 BBB 1 HETATM 18 C C4 MVK . . . K 3 -36.497 -24.624 -39.273 1 16.77 ? C4 MVK 306 BBB 1 HETATM 19 C C5 MVK . . . K 3 -36.436 -23.243 -39.538 1 17.68 ? C5 MVK 306 BBB 1 HETATM 20 C C6 MVK . . . K 3 -36.761 -22.242 -38.583 1 18.22 ? C6 MVK 306 BBB 1 HETATM 21 C C7 MVK . . . K 3 -36.96 -26.621 -37.707 1 14.86 ? C7 MVK 306 BBB 1 HETATM 22 C C8 MVK . . . K 3 -36.628 -20.759 -39.003 1 20.88 ? C8 MVK 306 BBB 1 HETATM 23 N N9 MVK . . . K 3 -35.274 -20.081 -38.765 1 25.58 ? N9 MVK 306 BBB 1 HETATM 24 C C10 MVK . . . K 3 -37.624 -21.804 -36.133 1 17.78 ? C10 MVK 306 BBB 1 HETATM 25 N N13 MVK . . . K 3 -36.12 -25.333 -40.367 1 16.66 ? N13 MVK 306 BBB 1 HETATM 26 O O26 MVK . . . K 3 -36.11 -20.05 -45.718 1 32.35 ? O26 MVK 306 BBB 1 HETATM 27 O O27 MVK . . . K 3 -37.084 -18.018 -45.573 1 35.18 ? O27 MVK 306 BBB 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #