data_7VNM
#
_model_server_result.job_id            69QBjq96u2G0aoYeqF6mDg 
_model_server_result.datetime_utc      '2024-11-23 09:44:32' 
_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          7vnm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"ZA","auth_seq_id":102}' 
#
_entry.id    7VNM 
#
_exptl.entry_id    7VNM 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_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    22 
_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            7VNM 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7VNM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    30-meric 
_pdbx_struct_assembly.oligomeric_count      30 
_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 
_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    ? 
_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
? 12 OA N N 
? 12 VA N N 
? 12 ZA N N 
? 12 AB N N 
? 12 BB N N 
? 12 DB N N 
? 12 GB N N 
? 12 JB N N 
? 12 KB N N 
? 12 MB N N 
? 12 NB N N 
? 12 RB N N 
? 12 SB N N 
? 12 UB N N 
? 12 VB N N 
? 12 XB N N 
? 12 AC N N 
? 12 DC N N 
? 12 HC N N 
? 12 KC N N 
? 12 MC N N 
? 12 NC 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
metalc ? metalc1 A NE2 HIS 191 L HIS 190 1_555 LA FE FE2 . M FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? 
metalc ? metalc2 A NE2 HIS 231 L HIS 230 1_555 LA FE FE2 . M FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.517 ? 
metalc ? metalc3 B NE2 HIS 220 M HIS 219 1_555 LA FE FE2 . M FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.419 ? 
metalc ? metalc4 B OE1 GLU 235 M GLU 234 1_555 LA FE FE2 . M FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? 
metalc ? metalc5 B OE2 GLU 235 M GLU 234 1_555 LA FE FE2 . M FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? 
metalc ? metalc6 B NE2 HIS 267 M HIS 266 1_555 LA FE FE2 . M FE2 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.537 ? 
#
_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 978 n n 
CM1 HM11 SPO sing 979 n n 
CM1 HM12 SPO sing 980 n n 
CM1 HM13 SPO sing 981 n n 
O1 C1 SPO sing 982 n n 
C1 C2 SPO sing 983 n n 
C1 C3 SPO sing 984 n n 
C1 C4 SPO sing 985 n n 
C2 H21A SPO sing 986 n n 
C2 H22A SPO sing 987 n n 
C2 H23 SPO sing 988 n n 
C3 H31 SPO sing 989 n n 
C3 H32A SPO sing 990 n n 
C3 H33 SPO sing 991 n n 
C4 C5 SPO sing 992 n n 
C4 H41 SPO sing 993 n n 
C4 H42 SPO sing 994 n n 
C5 C6 SPO doub 995 e n 
C5 H5 SPO sing 996 n n 
C6 C7 SPO sing 997 n n 
C6 H6 SPO sing 998 n n 
C7 C8 SPO sing 999 n n 
C7 C9 SPO doub 1000 e n 
C8 H81 SPO sing 1001 n n 
C8 H82 SPO sing 1002 n n 
C8 H83 SPO sing 1003 n n 
C9 C10 SPO sing 1004 n n 
C9 H9 SPO sing 1005 n n 
C10 C11 SPO doub 1006 e n 
C10 H10 SPO sing 1007 n n 
C11 C12 SPO sing 1008 n n 
C11 H11 SPO sing 1009 n n 
C12 C13 SPO sing 1010 n n 
C12 C14 SPO doub 1011 e n 
C13 H131 SPO sing 1012 n n 
C13 H132 SPO sing 1013 n n 
C13 H133 SPO sing 1014 n n 
C14 C15 SPO sing 1015 n n 
C14 H14 SPO sing 1016 n n 
C15 C16 SPO doub 1017 e n 
C15 H15 SPO sing 1018 n n 
C16 C17 SPO sing 1019 n n 
C16 H16 SPO sing 1020 n n 
C17 C18 SPO sing 1021 n n 
C17 C19 SPO doub 1022 z n 
C18 H181 SPO sing 1023 n n 
C18 H182 SPO sing 1024 n n 
C18 H183 SPO sing 1025 n n 
C19 C20 SPO sing 1026 n n 
C19 H19 SPO sing 1027 n n 
C20 C21 SPO doub 1028 e n 
C20 H20 SPO sing 1029 n n 
C21 C22 SPO sing 1030 n n 
C21 H21 SPO sing 1031 n n 
C22 C23 SPO doub 1032 e n 
C22 H22 SPO sing 1033 n n 
C23 C24 SPO sing 1034 n n 
C23 C25 SPO sing 1035 n n 
C24 H241 SPO sing 1036 n n 
C24 H242 SPO sing 1037 n n 
C24 H243 SPO sing 1038 n n 
C25 C26 SPO doub 1039 e n 
C25 H25 SPO sing 1040 n n 
C26 C27 SPO sing 1041 n n 
C26 H26 SPO sing 1042 n n 
C27 C28 SPO doub 1043 e n 
C27 H27 SPO sing 1044 n n 
C28 C29 SPO sing 1045 n n 
C28 C30 SPO sing 1046 n n 
C29 H291 SPO sing 1047 n n 
C29 H292 SPO sing 1048 n n 
C29 H293 SPO sing 1049 n n 
C30 C31 SPO sing 1050 n n 
C30 H301 SPO sing 1051 n n 
C30 H302 SPO sing 1052 n n 
C31 C32 SPO sing 1053 n n 
C31 H311 SPO sing 1054 n n 
C31 H312 SPO sing 1055 n n 
C32 C33 SPO doub 1056 e n 
C32 H32 SPO sing 1057 n n 
C33 C34 SPO sing 1058 n n 
C33 C35 SPO sing 1059 n n 
C34 H341 SPO sing 1060 n n 
C34 H342 SPO sing 1061 n n 
C34 H343 SPO sing 1062 n n 
C35 C36 SPO sing 1063 n n 
C35 H351 SPO sing 1064 n n 
C35 H352 SPO sing 1065 n n 
C36 C37 SPO sing 1066 n n 
C36 H361 SPO sing 1067 n n 
C36 H362 SPO sing 1068 n n 
C37 C38 SPO doub 1069 n n 
C37 H37 SPO sing 1070 n n 
C38 C39 SPO sing 1071 n n 
C38 C40 SPO sing 1072 n n 
C39 H391 SPO sing 1073 n n 
C39 H392 SPO sing 1074 n n 
C39 H393 SPO sing 1075 n n 
C40 H401 SPO sing 1076 n n 
C40 H402 SPO sing 1077 n n 
C40 H403 SPO sing 1078 n n 
#
_atom_sites.entry_id                     7VNM 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
EA 7 BCL L 1 301 852 BCL BCL . 
FA 8 BPH L 1 302 856 BPH BPH . 
GA 9 PC1 L 1 303 1201 PC1 PC1 . 
HA 10 U10 L 1 304 1401 U10 U10 . 
IA 7 BCL L 1 305 402 BCL BCL . 
JA 8 BPH L 1 306 855 BPH BPH . 
KA 7 BCL M 1 401 854 BCL BCL . 
LA 11 FE2 M 1 402 857 FE2 FE2 . 
MA 7 BCL M 1 403 853 BCL BCL . 
NA 10 U10 M 1 404 858 U10 U10 . 
OA 12 SPO M 1 405 1310 SPO SPO . 
PA 13 CDL M 1 406 1401 CDL CDL . 
QA 9 PC1 H 1 1101 1101 PC1 PC1 . 
RA 9 PC1 H 1 1102 701 PC1 PC1 . 
SA 9 PC1 H 1 1103 201 PC1 PC1 . 
TA 9 PC1 A 1 601 601 PC1 PC1 . 
UA 7 BCL A 1 602 101 BCL BCL . 
VA 12 SPO A 1 603 104 SPO SPO . 
WA 9 PC1 A 1 604 201 PC1 PC1 . 
XA 7 BCL A 1 605 101 BCL BCL . 
YA 7 BCL D 1 101 101 BCL BCL . 
ZA 12 SPO D 1 102 104 SPO SPO . 
AB 12 SPO D 1 103 105 SPO SPO . 
BB 12 SPO D 1 104 104 SPO SPO . 
CB 7 BCL E 1 101 101 BCL BCL . 
DB 12 SPO E 1 102 105 SPO SPO . 
EB 7 BCL F 1 101 101 BCL BCL . 
FB 7 BCL F 1 102 101 BCL BCL . 
GB 12 SPO F 1 103 104 SPO SPO . 
HB 7 BCL I 1 101 101 BCL BCL . 
IB 7 BCL I 1 102 101 BCL BCL . 
JB 12 SPO I 1 103 105 SPO SPO . 
KB 12 SPO I 1 104 104 SPO SPO . 
LB 7 BCL K 1 101 101 BCL BCL . 
MB 12 SPO K 1 102 105 SPO SPO . 
NB 12 SPO K 1 103 104 SPO SPO . 
OB 7 BCL N 1 101 101 BCL BCL . 
PB 7 BCL O 1 101 101 BCL BCL . 
QB 7 BCL O 1 102 101 BCL BCL . 
RB 12 SPO P 1 101 105 SPO SPO . 
SB 12 SPO P 1 102 105 SPO SPO . 
TB 7 BCL Q 1 101 101 BCL BCL . 
UB 12 SPO Q 1 102 104 SPO SPO . 
VB 12 SPO R 1 101 104 SPO SPO . 
WB 7 BCL R 1 102 101 BCL BCL . 
XB 12 SPO R 1 103 105 SPO SPO . 
YB 7 BCL S 1 101 101 BCL BCL . 
ZB 7 BCL S 1 102 101 BCL BCL . 
AC 12 SPO S 1 103 104 SPO SPO . 
BC 7 BCL U 1 101 101 BCL BCL . 
CC 7 BCL U 1 102 101 BCL BCL . 
DC 12 SPO U 1 103 105 SPO SPO . 
EC 7 BCL W 1 101 101 BCL BCL . 
FC 7 BCL C 1 101 101 BCL BCL . 
GC 7 BCL 7 1 101 101 BCL BCL . 
HC 12 SPO 8 1 101 104 SPO SPO . 
IC 7 BCL 8 1 102 101 BCL BCL . 
JC 7 BCL 9 1 101 101 BCL BCL . 
KC 12 SPO 9 1 102 104 SPO SPO . 
LC 7 BCL 9 1 103 101 BCL BCL . 
MC 12 SPO 0 1 101 105 SPO SPO . 
NC 12 SPO 0 1 102 105 SPO SPO . 
OC 9 PC1 X 1 1501 1501 PC1 PC1 . 
PC 7 BCL 1 1 101 101 BCL BCL . 
QC 7 BCL 2 1 101 101 BCL BCL . 
#
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 . . . ZA 12 116.672 95.506 106.788 1 9.78 ? CM1 SPO 102 D 1 
HETATM 2 O O1 SPO . . . ZA 12 115.943 94.316 106.916 1 9.78 ? O1 SPO 102 D 1 
HETATM 3 C C1 SPO . . . ZA 12 114.986 94.054 105.947 1 9.78 ? C1 SPO 102 D 1 
HETATM 4 C C2 SPO . . . ZA 12 115.651 93.918 104.576 1 9.78 ? C2 SPO 102 D 1 
HETATM 5 C C3 SPO . . . ZA 12 113.928 95.136 105.915 1 9.78 ? C3 SPO 102 D 1 
HETATM 6 C C4 SPO . . . ZA 12 114.245 92.771 106.309 1 9.78 ? C4 SPO 102 D 1 
HETATM 7 C C5 SPO . . . ZA 12 113.796 92.673 107.766 1 9.78 ? C5 SPO 102 D 1 
HETATM 8 C C6 SPO . . . ZA 12 112.735 91.887 107.994 1 9.78 ? C6 SPO 102 D 1 
HETATM 9 C C7 SPO . . . ZA 12 112.117 91.644 109.383 1 9.78 ? C7 SPO 102 D 1 
HETATM 10 C C8 SPO . . . ZA 12 112.908 92.397 110.432 1 9.78 ? C8 SPO 102 D 1 
HETATM 11 C C9 SPO . . . ZA 12 110.663 92.094 109.363 1 9.78 ? C9 SPO 102 D 1 
HETATM 12 C C10 SPO . . . ZA 12 109.796 91.443 110.472 1 9.78 ? C10 SPO 102 D 1 
HETATM 13 C C11 SPO . . . ZA 12 108.478 91.68 110.439 1 9.78 ? C11 SPO 102 D 1 
HETATM 14 C C12 SPO . . . ZA 12 107.477 91.109 111.432 1 9.78 ? C12 SPO 102 D 1 
HETATM 15 C C13 SPO . . . ZA 12 108.121 89.998 112.223 1 9.78 ? C13 SPO 102 D 1 
HETATM 16 C C14 SPO . . . ZA 12 106.305 90.615 110.571 1 9.78 ? C14 SPO 102 D 1 
HETATM 17 C C15 SPO . . . ZA 12 104.997 90.274 111.337 1 9.78 ? C15 SPO 102 D 1 
HETATM 18 C C16 SPO . . . ZA 12 103.826 90.3 110.701 1 9.78 ? C16 SPO 102 D 1 
HETATM 19 C C17 SPO . . . ZA 12 102.507 90.007 111.403 1 9.78 ? C17 SPO 102 D 1 
HETATM 20 C C18 SPO . . . ZA 12 102.628 90.432 112.861 1 9.78 ? C18 SPO 102 D 1 
HETATM 21 C C19 SPO . . . ZA 12 101.375 90.805 110.764 1 9.78 ? C19 SPO 102 D 1 
HETATM 22 C C20 SPO . . . ZA 12 99.953 90.41 111.229 1 9.78 ? C20 SPO 102 D 1 
HETATM 23 C C21 SPO . . . ZA 12 98.858 91.079 110.834 1 9.78 ? C21 SPO 102 D 1 
HETATM 24 C C22 SPO . . . ZA 12 97.422 90.718 111.285 1 9.78 ? C22 SPO 102 D 1 
HETATM 25 C C23 SPO . . . ZA 12 96.341 91.683 110.813 1 9.78 ? C23 SPO 102 D 1 
HETATM 26 C C24 SPO . . . ZA 12 96.323 91.672 109.279 1 9.78 ? C24 SPO 102 D 1 
HETATM 27 C C25 SPO . . . ZA 12 94.981 91.207 111.341 1 9.78 ? C25 SPO 102 D 1 
HETATM 28 C C26 SPO . . . ZA 12 93.851 91.856 111.108 1 9.78 ? C26 SPO 102 D 1 
HETATM 29 C C27 SPO . . . ZA 12 92.487 91.381 111.601 1 9.78 ? C27 SPO 102 D 1 
HETATM 30 C C28 SPO . . . ZA 12 91.306 92.218 111.098 1 9.78 ? C28 SPO 102 D 1 
HETATM 31 C C29 SPO . . . ZA 12 91.792 93.45 110.371 1 9.78 ? C29 SPO 102 D 1 
HETATM 32 C C30 SPO . . . ZA 12 90.533 92.7 112.325 1 9.78 ? C30 SPO 102 D 1 
HETATM 33 C C31 SPO . . . ZA 12 90.308 91.571 113.348 1 9.78 ? C31 SPO 102 D 1 
HETATM 34 C C32 SPO . . . ZA 12 90.128 92.052 114.8 1 9.78 ? C32 SPO 102 D 1 
HETATM 35 C C33 SPO . . . ZA 12 88.804 91.657 115.43 1 9.78 ? C33 SPO 102 D 1 
HETATM 36 C C34 SPO . . . ZA 12 87.735 92.421 114.678 1 9.78 ? C34 SPO 102 D 1 
HETATM 37 C C35 SPO . . . ZA 12 88.791 92.134 116.864 1 9.78 ? C35 SPO 102 D 1 
HETATM 38 C C36 SPO . . . ZA 12 87.379 92.328 117.406 1 9.78 ? C36 SPO 102 D 1 
HETATM 39 C C37 SPO . . . ZA 12 86.71 91.014 117.831 1 9.78 ? C37 SPO 102 D 1 
HETATM 40 C C38 SPO . . . ZA 12 86.113 91.135 119.235 1 9.78 ? C38 SPO 102 D 1 
HETATM 41 C C39 SPO . . . ZA 12 85.197 89.949 119.547 1 9.78 ? C39 SPO 102 D 1 
HETATM 42 C C40 SPO . . . ZA 12 85.35 92.457 119.414 1 9.78 ? C40 SPO 102 D 1 
#
_model_server_stats.io_time_ms              77 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    24 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           42 
#