data_4V9G # _model_server_result.job_id ccIsxFOqt6cBpoPB_dFCkw _model_server_result.datetime_utc '2024-12-27 03:23:11' _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 4v9g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"YC","auth_seq_id":406}' # _entry.id 4V9G # _exptl.entry_id 4V9G _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 568.914 _entity.id 12 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description SPHEROIDENE _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 105.75 _cell.angle_gamma 90 _cell.entry_id 4V9G _cell.length_a 78.077 _cell.length_b 415.075 _cell.length_c 129.818 _cell.Z_PDB 56 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4V9G _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 64-meric _pdbx_struct_assembly.oligomeric_count 64 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB,OB,PB,QB,RB,SB,TB,UB,VB,WB,XB,YB,ZB,AC,BC,CC,DC,EC,FC,GC,HC,IC,JC,KC,LC,MC,NC,OC,PC,QC,RC,SC,TC,UC,VC,WC,XC,YC,ZC,AD,BD,CD,DD,ED,FD,GD,HD,ID,JD,KD,LD,MD,ND,OD,PD,QD,RD,SD,TD,UD,VD,WD,XD,YD,ZD,AE,BE,CE,DE,EE,FE,GE,HE,IE,JE _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 12 _struct_asym.id YC _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 FA OE1 GLU 235 AM GLU 234 1_555 WC FE FE2 . AM FE2 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.504 ? metalc ? metalc2 FA OE2 GLU 235 AM GLU 234 1_555 WC FE FE2 . AM FE2 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.79 ? metalc ? metalc3 FA NE2 HIS 267 AM HIS 266 1_555 WC FE FE2 . AM FE2 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc4 KB NE2 HIS 191 BL HIS 190 1_555 FE FE FE2 . BL FE2 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.71 ? metalc ? metalc5 KB NE2 HIS 231 BL HIS 230 1_555 FE FE FE2 . BL FE2 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc6 FE FE FE2 . BL FE2 305 1_555 LB NE2 HIS 220 BM HIS 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? # _chem_comp.formula 'C41 H60 O' _chem_comp.formula_weight 568.914 _chem_comp.id SPO _chem_comp.mon_nstd_flag . _chem_comp.name SPHEROIDENE _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 CM1 O1 SPO sing 586 n n CM1 HM11 SPO sing 587 n n CM1 HM12 SPO sing 588 n n CM1 HM13 SPO sing 589 n n O1 C1 SPO sing 590 n n C1 C2 SPO sing 591 n n C1 C3 SPO sing 592 n n C1 C4 SPO sing 593 n n C2 H21A SPO sing 594 n n C2 H22A SPO sing 595 n n C2 H23 SPO sing 596 n n C3 H31 SPO sing 597 n n C3 H32A SPO sing 598 n n C3 H33 SPO sing 599 n n C4 C5 SPO sing 600 n n C4 H41 SPO sing 601 n n C4 H42 SPO sing 602 n n C5 C6 SPO doub 603 e n C5 H5 SPO sing 604 n n C6 C7 SPO sing 605 n n C6 H6 SPO sing 606 n n C7 C8 SPO sing 607 n n C7 C9 SPO doub 608 e n C8 H81 SPO sing 609 n n C8 H82 SPO sing 610 n n C8 H83 SPO sing 611 n n C9 C10 SPO sing 612 n n C9 H9 SPO sing 613 n n C10 C11 SPO doub 614 e n C10 H10 SPO sing 615 n n C11 C12 SPO sing 616 n n C11 H11 SPO sing 617 n n C12 C13 SPO sing 618 n n C12 C14 SPO doub 619 e n C13 H131 SPO sing 620 n n C13 H132 SPO sing 621 n n C13 H133 SPO sing 622 n n C14 C15 SPO sing 623 n n C14 H14 SPO sing 624 n n C15 C16 SPO doub 625 e n C15 H15 SPO sing 626 n n C16 C17 SPO sing 627 n n C16 H16 SPO sing 628 n n C17 C18 SPO sing 629 n n C17 C19 SPO doub 630 z n C18 H181 SPO sing 631 n n C18 H182 SPO sing 632 n n C18 H183 SPO sing 633 n n C19 C20 SPO sing 634 n n C19 H19 SPO sing 635 n n C20 C21 SPO doub 636 e n C20 H20 SPO sing 637 n n C21 C22 SPO sing 638 n n C21 H21 SPO sing 639 n n C22 C23 SPO doub 640 e n C22 H22 SPO sing 641 n n C23 C24 SPO sing 642 n n C23 C25 SPO sing 643 n n C24 H241 SPO sing 644 n n C24 H242 SPO sing 645 n n C24 H243 SPO sing 646 n n C25 C26 SPO doub 647 e n C25 H25 SPO sing 648 n n C26 C27 SPO sing 649 n n C26 H26 SPO sing 650 n n C27 C28 SPO doub 651 e n C27 H27 SPO sing 652 n n C28 C29 SPO sing 653 n n C28 C30 SPO sing 654 n n C29 H291 SPO sing 655 n n C29 H292 SPO sing 656 n n C29 H293 SPO sing 657 n n C30 C31 SPO sing 658 n n C30 H301 SPO sing 659 n n C30 H302 SPO sing 660 n n C31 C32 SPO sing 661 n n C31 H311 SPO sing 662 n n C31 H312 SPO sing 663 n n C32 C33 SPO doub 664 e n C32 H32 SPO sing 665 n n C33 C34 SPO sing 666 n n C33 C35 SPO sing 667 n n C34 H341 SPO sing 668 n n C34 H342 SPO sing 669 n n C34 H343 SPO sing 670 n n C35 C36 SPO sing 671 n n C35 H351 SPO sing 672 n n C35 H352 SPO sing 673 n n C36 C37 SPO sing 674 n n C36 H361 SPO sing 675 n n C36 H362 SPO sing 676 n n C37 C38 SPO doub 677 n n C37 H37 SPO sing 678 n n C38 C39 SPO sing 679 n n C38 C40 SPO sing 680 n n C39 H391 SPO sing 681 n n C39 H392 SPO sing 682 n n C39 H393 SPO sing 683 n n C40 H401 SPO sing 684 n n C40 H402 SPO sing 685 n n C40 H403 SPO sing 686 n n # _atom_sites.entry_id 4V9G _atom_sites.fract_transf_matrix[1][1] 0.012808 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003612 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.002409 _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] 0.008004 _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 MB 7 BCL AT 1 101 17 BCL BCL . NB 7 BCL AT 1 102 18 BCL BCL . OB 7 BCL AV 1 101 19 BCL BCL . PB 7 BCL A3 1 101 27 BCL BCL . QB 7 BCL A7 1 101 31 BCL BCL . RB 7 BCL AD 1 101 1 BCL BCL . SB 7 BCL AD 1 102 2 BCL BCL . TB 7 BCL AF 1 101 3 BCL BCL . UB 7 BCL A1 1 101 5 BCL BCL . VB 7 BCL AJ 1 101 8 BCL BCL . WB 7 BCL A2 1 101 9 BCL BCL . XB 7 BCL AN 1 101 11 BCL BCL . YB 7 BCL AP 1 101 13 BCL BCL . ZB 7 BCL AP 1 102 14 BCL BCL . AC 7 BCL AZ 1 101 15 BCL BCL . BC 7 BCL AS 1 101 16 BCL BCL . CC 7 BCL A9 1 101 10 BCL BCL . DC 7 BCL AO 1 101 12 BCL BCL . EC 7 BCL A6 1 101 29 BCL BCL . FC 7 BCL A6 1 102 30 BCL BCL . GC 7 BCL AW 1 101 20 BCL BCL . HC 7 BCL AY 1 101 21 BCL BCL . IC 7 BCL AY 1 102 22 BCL BCL . JC 7 BCL A4 1 101 28 BCL BCL . KC 7 BCL A8 1 101 32 BCL BCL . LC 7 BCL AG 1 101 4 BCL BCL . MC 7 BCL AI 1 101 6 BCL BCL . NC 7 BCL AK 1 101 7 BCL BCL . OC 7 BCL AL 1 301 302 BCL BCL . PC 7 BCL AL 1 302 304 BCL BCL . QC 8 BPH AL 1 303 402 BPH BPH . RC 9 U10 AL 1 304 502 U10 U10 . SC 10 PO4 AL 1 305 800 PO4 PO4 . TC 7 BCL AM 1 401 301 BCL BCL . UC 7 BCL AM 1 402 303 BCL BCL . VC 8 BPH AM 1 403 401 BPH BPH . WC 11 FE2 AM 1 404 500 FE2 FE2 . XC 9 U10 AM 1 405 501 U10 U10 . YC 12 SPO AM 1 406 600 SPO SPO . ZC 7 BCL B5 1 101 29 BCL BCL . AD 7 BCL BT 1 101 17 BCL BCL . BD 7 BCL BV 1 101 19 BCL BCL . CD 7 BCL BV 1 102 20 BCL BCL . DD 7 BCL B3 1 101 27 BCL BCL . ED 7 BCL B7 1 101 31 BCL BCL . FD 7 BCL BD 1 101 1 BCL BCL . GD 7 BCL BD 1 102 2 BCL BCL . HD 7 BCL BF 1 101 3 BCL BCL . ID 7 BCL BF 1 102 4 BCL BCL . JD 7 BCL B1 1 101 5 BCL BCL . KD 7 BCL B2 1 101 9 BCL BCL . LD 7 BCL BP 1 101 13 BCL BCL . MD 7 BCL BP 1 102 14 BCL BCL . ND 7 BCL BZ 1 101 15 BCL BCL . OD 7 BCL BZ 1 102 16 BCL BCL . PD 7 BCL B9 1 101 10 BCL BCL . QD 7 BCL BO 1 101 11 BCL BCL . RD 7 BCL BO 1 102 12 BCL BCL . SD 7 BCL B6 1 101 30 BCL BCL . TD 7 BCL BU 1 101 18 BCL BCL . UD 7 BCL BY 1 101 21 BCL BCL . VD 7 BCL BY 1 102 22 BCL BCL . WD 7 BCL B4 1 101 28 BCL BCL . XD 7 BCL B8 1 101 32 BCL BCL . YD 7 BCL BI 1 101 6 BCL BCL . ZD 7 BCL BK 1 101 7 BCL BCL . AE 7 BCL BK 1 102 8 BCL BCL . BE 7 BCL BL 1 301 301 BCL BCL . CE 7 BCL BL 1 302 302 BCL BCL . DE 7 BCL BL 1 303 304 BCL BCL . EE 8 BPH BL 1 304 304 BPH BPH . FE 11 FE2 BL 1 305 500 FE2 FE2 . GE 9 U10 BL 1 306 502 U10 U10 . HE 10 PO4 BL 1 307 800 PO4 PO4 . IE 7 BCL BM 1 401 303 BCL BCL . JE 8 BPH BM 1 402 402 BPH BPH . # 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 CM1 SPO . . . YC 12 16.304 34.359 21.824 1 2 ? CM1 SPO 406 AM 1 HETATM 2 O O1 SPO . . . YC 12 16.772 34.366 20.478 1 2 ? O1 SPO 406 AM 1 HETATM 3 C C1 SPO . . . YC 12 16.471 33.282 19.614 1 2 ? C1 SPO 406 AM 1 HETATM 4 C C2 SPO . . . YC 12 17.012 32 20.236 1 2 ? C2 SPO 406 AM 1 HETATM 5 C C3 SPO . . . YC 12 14.961 33.191 19.464 1 2 ? C3 SPO 406 AM 1 HETATM 6 C C4 SPO . . . YC 12 17.135 33.522 18.251 1 2 ? C4 SPO 406 AM 1 HETATM 7 C C5 SPO . . . YC 12 17.091 34.998 17.874 1 2 ? C5 SPO 406 AM 1 HETATM 8 C C6 SPO . . . YC 12 17.587 35.382 16.688 1 2 ? C6 SPO 406 AM 1 HETATM 9 C C7 SPO . . . YC 12 17.573 36.811 16.264 1 2 ? C7 SPO 406 AM 1 HETATM 10 C C8 SPO . . . YC 12 18.391 37.825 17.011 1 2 ? C8 SPO 406 AM 1 HETATM 11 C C9 SPO . . . YC 12 16.836 37.186 15.193 1 2 ? C9 SPO 406 AM 1 HETATM 12 C C10 SPO . . . YC 12 16.82 38.586 14.732 1 2 ? C10 SPO 406 AM 1 HETATM 13 C C11 SPO . . . YC 12 16.296 38.869 13.529 1 2 ? C11 SPO 406 AM 1 HETATM 14 C C12 SPO . . . YC 12 16.268 40.258 13 1 2 ? C12 SPO 406 AM 1 HETATM 15 C C13 SPO . . . YC 12 15.706 41.382 13.826 1 2 ? C13 SPO 406 AM 1 HETATM 16 C C14 SPO . . . YC 12 16.745 40.499 11.761 1 2 ? C14 SPO 406 AM 1 HETATM 17 C C15 SPO . . . YC 12 16.734 41.852 11.204 1 2 ? C15 SPO 406 AM 1 HETATM 18 C C16 SPO . . . YC 12 16.943 42.033 9.895 1 2 ? C16 SPO 406 AM 1 HETATM 19 C C17 SPO . . . YC 12 16.937 43.398 9.325 1 2 ? C17 SPO 406 AM 1 HETATM 20 C C18 SPO . . . YC 12 16.765 44.582 10.231 1 2 ? C18 SPO 406 AM 1 HETATM 21 C C19 SPO . . . YC 12 17.092 43.587 7.996 1 2 ? C19 SPO 406 AM 1 HETATM 22 C C20 SPO . . . YC 12 17.263 42.452 7.082 1 2 ? C20 SPO 406 AM 1 HETATM 23 C C21 SPO . . . YC 12 16.981 42.614 5.781 1 2 ? C21 SPO 406 AM 1 HETATM 24 C C22 SPO . . . YC 12 17.141 41.506 4.833 1 2 ? C22 SPO 406 AM 1 HETATM 25 C C23 SPO . . . YC 12 18.326 41.426 4.042 1 2 ? C23 SPO 406 AM 1 HETATM 26 C C24 SPO . . . YC 12 19.524 42.474 4.116 1 2 ? C24 SPO 406 AM 1 HETATM 27 C C25 SPO . . . YC 12 18.42 40.293 3.099 1 2 ? C25 SPO 406 AM 1 HETATM 28 C C26 SPO . . . YC 12 18.999 40.444 1.902 1 2 ? C26 SPO 406 AM 1 HETATM 29 C C27 SPO . . . YC 12 19.059 39.299 0.982 1 2 ? C27 SPO 406 AM 1 HETATM 30 C C28 SPO . . . YC 12 18.679 39.45 -0.302 1 2 ? C28 SPO 406 AM 1 HETATM 31 C C29 SPO . . . YC 12 18.204 40.79 -0.787 1 2 ? C29 SPO 406 AM 1 HETATM 32 C C30 SPO . . . YC 12 18.723 38.274 -1.263 1 2 ? C30 SPO 406 AM 1 HETATM 33 C C31 SPO . . . YC 12 19.543 37.132 -0.668 1 2 ? C31 SPO 406 AM 1 HETATM 34 C C32 SPO . . . YC 12 19.707 36.046 -1.711 1 2 ? C32 SPO 406 AM 1 HETATM 35 C C33 SPO . . . YC 12 20.704 35.15 -1.626 1 2 ? C33 SPO 406 AM 1 HETATM 36 C C34 SPO . . . YC 12 21.679 35.213 -0.487 1 2 ? C34 SPO 406 AM 1 HETATM 37 C C35 SPO . . . YC 12 20.847 34.079 -2.683 1 2 ? C35 SPO 406 AM 1 HETATM 38 C C36 SPO . . . YC 12 20.15 32.803 -2.219 1 2 ? C36 SPO 406 AM 1 HETATM 39 C C37 SPO . . . YC 12 19.298 32.257 -3.344 1 2 ? C37 SPO 406 AM 1 HETATM 40 C C38 SPO . . . YC 12 19.782 31.327 -4.185 1 2 ? C38 SPO 406 AM 1 HETATM 41 C C39 SPO . . . YC 12 18.921 30.799 -5.293 1 2 ? C39 SPO 406 AM 1 HETATM 42 C C40 SPO . . . YC 12 21.183 30.815 -4.016 1 2 ? C40 SPO 406 AM 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 137 _model_server_stats.query_time_ms 438 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 42 #