data_6RVP # _model_server_result.job_id 9BPjGLTe-bZ-YYnIgsfHHg _model_server_result.datetime_utc '2025-07-15 13:31:56' _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 6rvp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":403}' # _entry.id 6RVP # _exptl.entry_id 6RVP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 99.131 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-methylpyrrolidin-2-one _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 111.78 _cell.angle_gamma 90 _cell.entry_id 6RVP _cell.length_a 72.477 _cell.length_b 50.079 _cell.length_c 88.502 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RVP _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _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 O LEU 193 A LEU 200 1_555 C CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.44 ? metalc ? metalc2 A O VAL 196 A VAL 203 1_555 C CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc3 A OD1 ASN 201 A ASN 208 1_555 C CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.657 ? metalc ? metalc4 A O LEU 202 A LEU 209 1_555 C CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? metalc ? metalc5 C CA CA . A CA 402 1_555 E O HOH . A HOH 688 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.485 ? # _chem_comp.formula 'C5 H9 N O' _chem_comp.formula_weight 99.131 _chem_comp.id MB3 _chem_comp.mon_nstd_flag . _chem_comp.name 1-methylpyrrolidin-2-one _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 CAA NAG MB3 sing 250 n n CAA HAA MB3 sing 251 n n CAA HAAA MB3 sing 252 n n CAA HAAB MB3 sing 253 n n CAF OAB MB3 doub 254 n n CAE CAC MB3 sing 255 n n CAC CAD MB3 sing 256 n n CAC HAC MB3 sing 257 n n CAC HACA MB3 sing 258 n n CAF CAD MB3 sing 259 n n CAD HAD MB3 sing 260 n n CAD HADA MB3 sing 261 n n NAG CAE MB3 sing 262 n n CAE HAE MB3 sing 263 n n CAE HAEA MB3 sing 264 n n NAG CAF MB3 sing 265 n n # _atom_sites.entry_id 6RVP _atom_sites.fract_transf_matrix[1][1] 0.013797 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005512 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019968 _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] 0.012167 _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 GDP A 1 401 401 GDP GDP . C 3 CA A 1 402 402 CA CA . D 4 MB3 A 1 403 1 MB3 MB3 . E 5 HOH A 1 501 370 HOH HOH . E 5 HOH A 2 502 178 HOH HOH . E 5 HOH A 3 503 129 HOH HOH . E 5 HOH A 4 504 371 HOH HOH . E 5 HOH A 5 505 212 HOH HOH . E 5 HOH A 6 506 149 HOH HOH . E 5 HOH A 7 507 157 HOH HOH . E 5 HOH A 8 508 36 HOH HOH . E 5 HOH A 9 509 199 HOH HOH . E 5 HOH A 10 510 367 HOH HOH . E 5 HOH A 11 511 82 HOH HOH . E 5 HOH A 12 512 23 HOH HOH . E 5 HOH A 13 513 96 HOH HOH . E 5 HOH A 14 514 22 HOH HOH . E 5 HOH A 15 515 363 HOH HOH . E 5 HOH A 16 516 333 HOH HOH . E 5 HOH A 17 517 280 HOH HOH . E 5 HOH A 18 518 338 HOH HOH . E 5 HOH A 19 519 359 HOH HOH . E 5 HOH A 20 520 358 HOH HOH . E 5 HOH A 21 521 185 HOH HOH . E 5 HOH A 22 522 31 HOH HOH . E 5 HOH A 23 523 64 HOH HOH . E 5 HOH A 24 524 194 HOH HOH . E 5 HOH A 25 525 245 HOH HOH . E 5 HOH A 26 526 274 HOH HOH . E 5 HOH A 27 527 67 HOH HOH . E 5 HOH A 28 528 136 HOH HOH . E 5 HOH A 29 529 17 HOH HOH . E 5 HOH A 30 530 88 HOH HOH . E 5 HOH A 31 531 60 HOH HOH . E 5 HOH A 32 532 161 HOH HOH . E 5 HOH A 33 533 38 HOH HOH . E 5 HOH A 34 534 140 HOH HOH . E 5 HOH A 35 535 32 HOH HOH . E 5 HOH A 36 536 138 HOH HOH . E 5 HOH A 37 537 30 HOH HOH . E 5 HOH A 38 538 152 HOH HOH . E 5 HOH A 39 539 145 HOH HOH . E 5 HOH A 40 540 42 HOH HOH . E 5 HOH A 41 541 146 HOH HOH . E 5 HOH A 42 542 95 HOH HOH . E 5 HOH A 43 543 271 HOH HOH . E 5 HOH A 44 544 9 HOH HOH . E 5 HOH A 45 545 37 HOH HOH . E 5 HOH A 46 546 142 HOH HOH . E 5 HOH A 47 547 80 HOH HOH . E 5 HOH A 48 548 208 HOH HOH . E 5 HOH A 49 549 137 HOH HOH . E 5 HOH A 50 550 7 HOH HOH . E 5 HOH A 51 551 16 HOH HOH . E 5 HOH A 52 552 28 HOH HOH . E 5 HOH A 53 553 63 HOH HOH . E 5 HOH A 54 554 253 HOH HOH . E 5 HOH A 55 555 21 HOH HOH . E 5 HOH A 56 556 18 HOH HOH . E 5 HOH A 57 557 328 HOH HOH . E 5 HOH A 58 558 130 HOH HOH . E 5 HOH A 59 559 94 HOH HOH . E 5 HOH A 60 560 79 HOH HOH . E 5 HOH A 61 561 65 HOH HOH . E 5 HOH A 62 562 1 HOH HOH . E 5 HOH A 63 563 177 HOH HOH . E 5 HOH A 64 564 213 HOH HOH . E 5 HOH A 65 565 14 HOH HOH . E 5 HOH A 66 566 211 HOH HOH . E 5 HOH A 67 567 3 HOH HOH . E 5 HOH A 68 568 12 HOH HOH . E 5 HOH A 69 569 319 HOH HOH . E 5 HOH A 70 570 218 HOH HOH . E 5 HOH A 71 571 113 HOH HOH . E 5 HOH A 72 572 44 HOH HOH . E 5 HOH A 73 573 19 HOH HOH . E 5 HOH A 74 574 29 HOH HOH . E 5 HOH A 75 575 336 HOH HOH . E 5 HOH A 76 576 107 HOH HOH . E 5 HOH A 77 577 360 HOH HOH . E 5 HOH A 78 578 217 HOH HOH . E 5 HOH A 79 579 90 HOH HOH . E 5 HOH A 80 580 99 HOH HOH . E 5 HOH A 81 581 33 HOH HOH . E 5 HOH A 82 582 56 HOH HOH . E 5 HOH A 83 583 166 HOH HOH . E 5 HOH A 84 584 6 HOH HOH . E 5 HOH A 85 585 52 HOH HOH . E 5 HOH A 86 586 100 HOH HOH . E 5 HOH A 87 587 62 HOH HOH . E 5 HOH A 88 588 343 HOH HOH . E 5 HOH A 89 589 41 HOH HOH . E 5 HOH A 90 590 346 HOH HOH . E 5 HOH A 91 591 168 HOH HOH . E 5 HOH A 92 592 2 HOH HOH . E 5 HOH A 93 593 176 HOH HOH . E 5 HOH A 94 594 323 HOH HOH . E 5 HOH A 95 595 135 HOH HOH . E 5 HOH A 96 596 72 HOH HOH . E 5 HOH A 97 597 195 HOH HOH . E 5 HOH A 98 598 302 HOH HOH . E 5 HOH A 99 599 86 HOH HOH . E 5 HOH A 100 600 25 HOH HOH . E 5 HOH A 101 601 234 HOH HOH . E 5 HOH A 102 602 173 HOH HOH . E 5 HOH A 103 603 348 HOH HOH . E 5 HOH A 104 604 13 HOH HOH . E 5 HOH A 105 605 340 HOH HOH . E 5 HOH A 106 606 5 HOH HOH . E 5 HOH A 107 607 8 HOH HOH . E 5 HOH A 108 608 362 HOH HOH . E 5 HOH A 109 609 39 HOH HOH . E 5 HOH A 110 610 352 HOH HOH . E 5 HOH A 111 611 148 HOH HOH . E 5 HOH A 112 612 59 HOH HOH . E 5 HOH A 113 613 341 HOH HOH . E 5 HOH A 114 614 103 HOH HOH . E 5 HOH A 115 615 153 HOH HOH . E 5 HOH A 116 616 20 HOH HOH . E 5 HOH A 117 617 332 HOH HOH . E 5 HOH A 118 618 216 HOH HOH . E 5 HOH A 119 619 134 HOH HOH . E 5 HOH A 120 620 77 HOH HOH . E 5 HOH A 121 621 106 HOH HOH . E 5 HOH A 122 622 15 HOH HOH . E 5 HOH A 123 623 237 HOH HOH . E 5 HOH A 124 624 350 HOH HOH . E 5 HOH A 125 625 45 HOH HOH . E 5 HOH A 126 626 74 HOH HOH . E 5 HOH A 127 627 47 HOH HOH . E 5 HOH A 128 628 230 HOH HOH . E 5 HOH A 129 629 163 HOH HOH . E 5 HOH A 130 630 97 HOH HOH . E 5 HOH A 131 631 83 HOH HOH . E 5 HOH A 132 632 228 HOH HOH . E 5 HOH A 133 633 154 HOH HOH . E 5 HOH A 134 634 143 HOH HOH . E 5 HOH A 135 635 349 HOH HOH . E 5 HOH A 136 636 183 HOH HOH . E 5 HOH A 137 637 43 HOH HOH . E 5 HOH A 138 638 89 HOH HOH . E 5 HOH A 139 639 115 HOH HOH . E 5 HOH A 140 640 75 HOH HOH . E 5 HOH A 141 641 182 HOH HOH . E 5 HOH A 142 642 24 HOH HOH . E 5 HOH A 143 643 315 HOH HOH . E 5 HOH A 144 644 132 HOH HOH . E 5 HOH A 145 645 93 HOH HOH . E 5 HOH A 146 646 156 HOH HOH . E 5 HOH A 147 647 49 HOH HOH . E 5 HOH A 148 648 87 HOH HOH . E 5 HOH A 149 649 187 HOH HOH . E 5 HOH A 150 650 356 HOH HOH . E 5 HOH A 151 651 172 HOH HOH . E 5 HOH A 152 652 4 HOH HOH . E 5 HOH A 153 653 40 HOH HOH . E 5 HOH A 154 654 27 HOH HOH . E 5 HOH A 155 655 46 HOH HOH . E 5 HOH A 156 656 48 HOH HOH . E 5 HOH A 157 657 51 HOH HOH . E 5 HOH A 158 658 58 HOH HOH . E 5 HOH A 159 659 326 HOH HOH . E 5 HOH A 160 660 322 HOH HOH . E 5 HOH A 161 661 186 HOH HOH . E 5 HOH A 162 662 141 HOH HOH . E 5 HOH A 163 663 266 HOH HOH . E 5 HOH A 164 664 34 HOH HOH . E 5 HOH A 165 665 26 HOH HOH . E 5 HOH A 166 666 84 HOH HOH . E 5 HOH A 167 667 275 HOH HOH . E 5 HOH A 168 668 353 HOH HOH . E 5 HOH A 169 669 369 HOH HOH . E 5 HOH A 170 670 101 HOH HOH . E 5 HOH A 171 671 133 HOH HOH . E 5 HOH A 172 672 285 HOH HOH . E 5 HOH A 173 673 131 HOH HOH . E 5 HOH A 174 674 247 HOH HOH . E 5 HOH A 175 675 50 HOH HOH . E 5 HOH A 176 676 78 HOH HOH . E 5 HOH A 177 677 147 HOH HOH . E 5 HOH A 178 678 259 HOH HOH . E 5 HOH A 179 679 192 HOH HOH . E 5 HOH A 180 680 190 HOH HOH . E 5 HOH A 181 681 55 HOH HOH . E 5 HOH A 182 682 361 HOH HOH . E 5 HOH A 183 683 155 HOH HOH . E 5 HOH A 184 684 189 HOH HOH . E 5 HOH A 185 685 175 HOH HOH . E 5 HOH A 186 686 191 HOH HOH . E 5 HOH A 187 687 169 HOH HOH . E 5 HOH A 188 688 139 HOH HOH . E 5 HOH A 189 689 320 HOH HOH . E 5 HOH A 190 690 151 HOH HOH . E 5 HOH A 191 691 114 HOH HOH . E 5 HOH A 192 692 366 HOH HOH . E 5 HOH A 193 693 184 HOH HOH . E 5 HOH A 194 694 85 HOH HOH . E 5 HOH A 195 695 251 HOH HOH . E 5 HOH A 196 696 372 HOH HOH . E 5 HOH A 197 697 61 HOH HOH . E 5 HOH A 198 698 327 HOH HOH . E 5 HOH A 199 699 66 HOH HOH . E 5 HOH A 200 700 347 HOH HOH . E 5 HOH A 201 701 246 HOH HOH . E 5 HOH A 202 702 241 HOH HOH . E 5 HOH A 203 703 345 HOH HOH . E 5 HOH A 204 704 150 HOH HOH . E 5 HOH A 205 705 317 HOH HOH . E 5 HOH A 206 706 235 HOH HOH . E 5 HOH A 207 707 351 HOH HOH . E 5 HOH A 208 708 111 HOH HOH . E 5 HOH A 209 709 10 HOH HOH . E 5 HOH A 210 710 210 HOH HOH . E 5 HOH A 211 711 239 HOH HOH . E 5 HOH A 212 712 54 HOH HOH . E 5 HOH A 213 713 198 HOH HOH . E 5 HOH A 214 714 221 HOH HOH . E 5 HOH A 215 715 209 HOH HOH . E 5 HOH A 216 716 214 HOH HOH . E 5 HOH A 217 717 98 HOH HOH . E 5 HOH A 218 718 244 HOH HOH . E 5 HOH A 219 719 249 HOH HOH . E 5 HOH A 220 720 301 HOH HOH . E 5 HOH A 221 721 70 HOH HOH . E 5 HOH A 222 722 254 HOH HOH . E 5 HOH A 223 723 365 HOH HOH . E 5 HOH A 224 724 303 HOH HOH . E 5 HOH A 225 725 272 HOH HOH . E 5 HOH A 226 726 112 HOH HOH . E 5 HOH A 227 727 76 HOH HOH . E 5 HOH A 228 728 73 HOH HOH . E 5 HOH A 229 729 110 HOH HOH . E 5 HOH A 230 730 252 HOH HOH . E 5 HOH A 231 731 232 HOH HOH . E 5 HOH A 232 732 201 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 CAA MB3 . . . D 4 -3.287 -2.34 20.513 1 26.58 ? CAA MB3 403 A 1 HETATM 2 O OAB MB3 . . . D 4 -1.051 -2.432 18.893 1 27.64 ? OAB MB3 403 A 1 HETATM 3 C CAC MB3 . . . D 4 -0.774 -4.869 21.55 1 22.73 ? CAC MB3 403 A 1 HETATM 4 C CAD MB3 . . . D 4 -0.026 -4.142 20.394 1 25.99 ? CAD MB3 403 A 1 HETATM 5 C CAE MB3 . . . D 4 -1.935 -4.087 21.787 1 21.58 ? CAE MB3 403 A 1 HETATM 6 C CAF MB3 . . . D 4 -1.095 -3.129 19.858 1 23.94 ? CAF MB3 403 A 1 HETATM 7 N NAG MB3 . . . D 4 -2.135 -3.15 20.694 1 23.91 ? NAG MB3 403 A 1 HETATM 8 H HAA MB3 . . . D 4 -3.049 -1.407 20.633 1 31.94 ? HAA MB3 403 A 1 HETATM 9 H HAAA MB3 . . . D 4 -3.962 -2.588 21.163 1 31.94 ? HAAA MB3 403 A 1 HETATM 10 H HAAB MB3 . . . D 4 -3.637 -2.472 19.617 1 31.94 ? HAAB MB3 403 A 1 HETATM 11 H HAC MB3 . . . D 4 -0.219 -4.894 22.345 1 27.31 ? HAC MB3 403 A 1 HETATM 12 H HACA MB3 . . . D 4 -1.024 -5.765 21.277 1 27.31 ? HACA MB3 403 A 1 HETATM 13 H HAD MB3 . . . D 4 0.227 -4.772 19.701 1 31.22 ? HAD MB3 403 A 1 HETATM 14 H HADA MB3 . . . D 4 0.752 -3.673 20.731 1 31.22 ? HADA MB3 403 A 1 HETATM 15 H HAE MB3 . . . D 4 -2.707 -4.671 21.854 1 25.93 ? HAE MB3 403 A 1 HETATM 16 H HAEA MB3 . . . D 4 -1.827 -3.595 22.616 1 25.93 ? HAEA MB3 403 A 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 364 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 16 #