data_7VYI
#
_model_server_result.job_id            w3VemWatqmsUYoeKR8SSNQ 
_model_server_result.datetime_utc      '2024-12-21 17:25:40' 
_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          7vyi 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"VA","auth_seq_id":505}' 
#
_entry.id    7VYI 
#
_exptl.entry_id    7VYI 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              1464.043 
_entity.id                          32 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            CARDIOLIPIN 
_entity.pdbx_number_of_molecules    6 
_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            7VYI 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7VYI 
_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    29-meric 
_pdbx_struct_assembly.oligomeric_count      29 
_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 
_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
? 32 GA N N 
? 32 KA N N 
? 32 LA N N 
? 32 OA N N 
? 32 UA N N 
? 32 VA 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 D SG CYS 94 V CYS 95 1_555 D SG CYS 114 V CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? 
disulf ? disulf2 L SG CYS 112 d CYS 113 1_555 L SG CYS 124 d CYS 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf3 P SG CYS 32 h CYS 33 1_555 P SG CYS 65 h CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf4 P SG CYS 42 h CYS 43 1_555 P SG CYS 55 h CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf5 AA SG CYS 87 u CYS 88 1_555 AA SG CYS 99 u CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf6 BA SG CYS 69 v CYS 69 1_555 BA SG CYS 80 v CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
#
_chem_comp.formula           'C81 H156 O17 P2 -2' 
_chem_comp.formula_weight    1464.043 
_chem_comp.id                CDL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              CARDIOLIPIN 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "DIPHOSPHATIDYL GLYCEROL;BIS-(1,2-DIACYL-SN-GLYCERO-3-PHOSPHO)-1',3'-SN-GLYCEROL" 
#
_atom_sites.entry_id                     7VYI 
_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
DA 30 PEE U 1 101 101 PEE PEE . 
EA 30 PEE U 1 102 401 PEE PEE . 
FA 31 8Q1 X 1 201 201 8Q1 8Q1 . 
GA 32 CDL a 1 201 201 CDL CDL . 
HA 33 PLX a 1 202 101 PLX PLX . 
IA 30 PEE b 1 201 720 PEE PEE . 
JA 33 PLX g 1 201 705 PLX PLX . 
KA 32 CDL g 1 202 102 CDL CDL . 
LA 32 CDL i 1 401 401 CDL CDL . 
MA 30 PEE i 1 402 718 PEE PEE . 
NA 33 PLX j 1 201 203 PLX PLX . 
OA 32 CDL l 1 701 713 CDL CDL . 
PA 30 PEE l 1 702 719 PEE PEE . 
QA 30 PEE m 1 201 202 PEE PEE . 
RA 30 PEE r 1 501 202 PEE PEE . 
SA 33 PLX r 1 502 205 PLX PLX . 
TA 33 PLX r 1 503 201 PLX PLX . 
UA 32 CDL r 1 504 712 CDL CDL . 
VA 32 CDL r 1 505 714 CDL CDL . 
WA 34 UQ s 1 401 403 UQ UQ . 
XA 35 ADP w 1 401 401 ADP ADP . 
#
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 CDL . . . VA 32 205.837 151.058 135.147 1 31.03 ? C1 CDL 505 r 1 
HETATM 2 O O1 CDL . . . VA 32 205.421 150.598 133.895 1 31.03 ? O1 CDL 505 r 1 
HETATM 3 C CA2 CDL . . . VA 32 204.858 152.174 135.593 1 31.03 ? CA2 CDL 505 r 1 
HETATM 4 O OA2 CDL . . . VA 32 205.618 153.267 136.087 1 31.03 ? OA2 CDL 505 r 1 
HETATM 5 P PA1 CDL . . . VA 32 205.01 154.128 137.366 1 31.03 ? PA1 CDL 505 r 1 
HETATM 6 O OA3 CDL . . . VA 32 205.901 153.935 138.569 1 31.03 ? OA3 CDL 505 r 1 
HETATM 7 O OA4 CDL . . . VA 32 203.63 153.637 137.684 1 31.03 ? OA4 CDL 505 r 1 
HETATM 8 O OA5 CDL . . . VA 32 204.944 155.74 136.968 1 31.03 ? OA5 CDL 505 r 1 
HETATM 9 C CA3 CDL . . . VA 32 203.703 156.418 137.09 1 31.03 ? CA3 CDL 505 r 1 
HETATM 10 C CA4 CDL . . . VA 32 203.3 156.929 135.714 1 31.03 ? CA4 CDL 505 r 1 
HETATM 11 O OA6 CDL . . . VA 32 202.108 157.661 135.809 1 31.03 ? OA6 CDL 505 r 1 
HETATM 12 C CA5 CDL . . . VA 32 202.289 159.037 136.12 1 31.03 ? CA5 CDL 505 r 1 
HETATM 13 O OA7 CDL . . . VA 32 203.382 159.51 136.127 1 31.03 ? OA7 CDL 505 r 1 
HETATM 14 C C11 CDL . . . VA 32 201.051 159.927 136.455 1 31.03 ? C11 CDL 505 r 1 
HETATM 15 C C12 CDL . . . VA 32 200.981 161.2 135.603 1 31.03 ? C12 CDL 505 r 1 
HETATM 16 C C13 CDL . . . VA 32 201.265 160.94 134.126 1 31.03 ? C13 CDL 505 r 1 
HETATM 17 C C14 CDL . . . VA 32 201.537 162.242 133.348 1 31.03 ? C14 CDL 505 r 1 
HETATM 18 C C15 CDL . . . VA 32 200.434 162.533 132.29 1 31.03 ? C15 CDL 505 r 1 
HETATM 19 C C16 CDL . . . VA 32 200.137 161.293 131.41 1 31.03 ? C16 CDL 505 r 1 
HETATM 20 C C17 CDL . . . VA 32 200.455 161.541 129.904 1 31.03 ? C17 CDL 505 r 1 
HETATM 21 C C18 CDL . . . VA 32 200.749 160.221 129.149 1 31.03 ? C18 CDL 505 r 1 
HETATM 22 C C19 CDL . . . VA 32 200.711 160.396 127.604 1 31.03 ? C19 CDL 505 r 1 
HETATM 23 C C20 CDL . . . VA 32 201.85 159.616 126.904 1 31.03 ? C20 CDL 505 r 1 
HETATM 24 C C21 CDL . . . VA 32 201.752 159.671 125.357 1 31.03 ? C21 CDL 505 r 1 
HETATM 25 C C22 CDL . . . VA 32 203.033 159.114 124.674 1 31.03 ? C22 CDL 505 r 1 
HETATM 26 C C23 CDL . . . VA 32 203.488 157.777 125.301 1 31.03 ? C23 CDL 505 r 1 
HETATM 27 C C24 CDL . . . VA 32 204.855 157.298 124.75 1 31.03 ? C24 CDL 505 r 1 
HETATM 28 C C25 CDL . . . VA 32 205.329 156.002 125.432 1 31.03 ? C25 CDL 505 r 1 
HETATM 29 C C26 CDL . . . VA 32 205.354 156.129 126.972 1 31.03 ? C26 CDL 505 r 1 
HETATM 30 C C27 CDL . . . VA 32 205.968 154.898 127.646 1 31.03 ? C27 CDL 505 r 1 
HETATM 31 C CA6 CDL . . . VA 32 203.09 155.733 134.765 1 31.03 ? CA6 CDL 505 r 1 
HETATM 32 O OA8 CDL . . . VA 32 202.119 156.096 133.805 1 31.03 ? OA8 CDL 505 r 1 
HETATM 33 C CA7 CDL . . . VA 32 202.565 155.969 132.453 1 31.03 ? CA7 CDL 505 r 1 
HETATM 34 O OA9 CDL . . . VA 32 203.718 156.027 132.202 1 31.03 ? OA9 CDL 505 r 1 
HETATM 35 C C31 CDL . . . VA 32 201.538 155.753 131.327 1 31.03 ? C31 CDL 505 r 1 
HETATM 36 C C32 CDL . . . VA 32 202.174 155.235 130.04 1 31.03 ? C32 CDL 505 r 1 
HETATM 37 C C33 CDL . . . VA 32 202.111 156.27 128.907 1 31.03 ? C33 CDL 505 r 1 
HETATM 38 C C34 CDL . . . VA 32 200.661 156.536 128.442 1 31.03 ? C34 CDL 505 r 1 
HETATM 39 C C35 CDL . . . VA 32 200.267 155.666 127.22 1 31.03 ? C35 CDL 505 r 1 
HETATM 40 C C36 CDL . . . VA 32 199.596 156.494 126.099 1 31.03 ? C36 CDL 505 r 1 
HETATM 41 C C37 CDL . . . VA 32 198.784 155.617 125.133 1 31.03 ? C37 CDL 505 r 1 
HETATM 42 C C38 CDL . . . VA 32 199.25 155.764 123.679 1 31.03 ? C38 CDL 505 r 1 
HETATM 43 C C39 CDL . . . VA 32 198.871 157.128 123.072 1 31.03 ? C39 CDL 505 r 1 
HETATM 44 C C40 CDL . . . VA 32 200.099 157.894 122.53 1 31.03 ? C40 CDL 505 r 1 
HETATM 45 C C41 CDL . . . VA 32 199.733 159.344 122.061 1 31.03 ? C41 CDL 505 r 1 
HETATM 46 C C42 CDL . . . VA 32 200.774 159.921 121.063 1 31.03 ? C42 CDL 505 r 1 
HETATM 47 C C43 CDL . . . VA 32 200.357 161.31 120.497 1 31.03 ? C43 CDL 505 r 1 
HETATM 48 C C44 CDL . . . VA 32 200.856 162.493 121.37 1 31.03 ? C44 CDL 505 r 1 
HETATM 49 C C45 CDL . . . VA 32 199.806 162.965 122.373 1 31.03 ? C45 CDL 505 r 1 
HETATM 50 C C46 CDL . . . VA 32 200.153 162.563 123.819 1 31.03 ? C46 CDL 505 r 1 
HETATM 51 C C47 CDL . . . VA 32 198.922 162.136 124.613 1 31.03 ? C47 CDL 505 r 1 
HETATM 52 C CB2 CDL . . . VA 32 207.312 151.569 135.007 1 31.03 ? CB2 CDL 505 r 1 
HETATM 53 O OB2 CDL . . . VA 32 208.171 150.441 134.897 1 31.03 ? OB2 CDL 505 r 1 
HETATM 54 P PB2 CDL . . . VA 32 209.506 150.563 133.889 1 31.03 ? PB2 CDL 505 r 1 
HETATM 55 O OB3 CDL . . . VA 32 210.778 150.458 134.712 1 31.03 ? OB3 CDL 505 r 1 
HETATM 56 O OB4 CDL . . . VA 32 209.469 149.44 132.879 1 31.03 ? OB4 CDL 505 r 1 
HETATM 57 O OB5 CDL . . . VA 32 209.467 152.043 133.099 1 31.03 ? OB5 CDL 505 r 1 
HETATM 58 C CB3 CDL . . . VA 32 209.898 152.115 131.746 1 31.03 ? CB3 CDL 505 r 1 
HETATM 59 C CB4 CDL . . . VA 32 208.685 151.898 130.828 1 31.03 ? CB4 CDL 505 r 1 
HETATM 60 O OB6 CDL . . . VA 32 208.932 152.464 129.563 1 31.03 ? OB6 CDL 505 r 1 
HETATM 61 C CB5 CDL . . . VA 32 209.449 151.546 128.605 1 31.03 ? CB5 CDL 505 r 1 
HETATM 62 O OB7 CDL . . . VA 32 210.44 150.941 128.838 1 31.03 ? OB7 CDL 505 r 1 
HETATM 63 C C51 CDL . . . VA 32 208.718 151.334 127.264 1 31.03 ? C51 CDL 505 r 1 
HETATM 64 C C52 CDL . . . VA 32 208.995 152.463 126.256 1 31.03 ? C52 CDL 505 r 1 
HETATM 65 C C53 CDL . . . VA 32 209.023 151.952 124.806 1 31.03 ? C53 CDL 505 r 1 
HETATM 66 C C54 CDL . . . VA 32 209.987 150.761 124.62 1 31.03 ? C54 CDL 505 r 1 
HETATM 67 C C55 CDL . . . VA 32 211.057 151.039 123.552 1 31.03 ? C55 CDL 505 r 1 
HETATM 68 C C56 CDL . . . VA 32 211.908 149.785 123.221 1 31.03 ? C56 CDL 505 r 1 
HETATM 69 C C57 CDL . . . VA 32 212.296 149.727 121.729 1 31.03 ? C57 CDL 505 r 1 
HETATM 70 C C58 CDL . . . VA 32 213.668 150.393 121.455 1 31.03 ? C58 CDL 505 r 1 
HETATM 71 C C59 CDL . . . VA 32 214.755 149.377 121.024 1 31.03 ? C59 CDL 505 r 1 
HETATM 72 C C60 CDL . . . VA 32 214.623 148.977 119.543 1 31.03 ? C60 CDL 505 r 1 
HETATM 73 C C61 CDL . . . VA 32 214.827 150.182 118.585 1 31.03 ? C61 CDL 505 r 1 
HETATM 74 C C62 CDL . . . VA 32 213.626 150.389 117.637 1 31.03 ? C62 CDL 505 r 1 
HETATM 75 C C63 CDL . . . VA 32 214.021 151.096 116.332 1 31.03 ? C63 CDL 505 r 1 
HETATM 76 C C64 CDL . . . VA 32 214.307 150.11 115.189 1 31.03 ? C64 CDL 505 r 1 
HETATM 77 C C65 CDL . . . VA 32 215.633 150.392 114.493 1 31.03 ? C65 CDL 505 r 1 
HETATM 78 C C66 CDL . . . VA 32 216.803 149.677 115.163 1 31.03 ? C66 CDL 505 r 1 
HETATM 79 C C67 CDL . . . VA 32 217.804 149.127 114.148 1 31.03 ? C67 CDL 505 r 1 
HETATM 80 C CB6 CDL . . . VA 32 207.455 152.561 131.439 1 31.03 ? CB6 CDL 505 r 1 
HETATM 81 O OB8 CDL . . . VA 32 206.628 153.022 130.373 1 31.03 ? OB8 CDL 505 r 1 
HETATM 82 C CB7 CDL . . . VA 32 205.254 152.717 130.536 1 31.03 ? CB7 CDL 505 r 1 
HETATM 83 O OB9 CDL . . . VA 32 204.591 153.352 131.288 1 31.03 ? OB9 CDL 505 r 1 
HETATM 84 C C71 CDL . . . VA 32 204.623 151.55 129.741 1 31.03 ? C71 CDL 505 r 1 
HETATM 85 C C72 CDL . . . VA 32 203.369 151.97 128.962 1 31.03 ? C72 CDL 505 r 1 
HETATM 86 C C73 CDL . . . VA 32 203.384 151.439 127.519 1 31.03 ? C73 CDL 505 r 1 
HETATM 87 C C74 CDL . . . VA 32 203.399 152.568 126.478 1 31.03 ? C74 CDL 505 r 1 
HETATM 88 C C75 CDL . . . VA 32 204.082 152.131 125.153 1 31.03 ? C75 CDL 505 r 1 
HETATM 89 C C76 CDL . . . VA 32 203.143 152.274 123.928 1 31.03 ? C76 CDL 505 r 1 
HETATM 90 C C77 CDL . . . VA 32 202.306 153.588 123.967 1 31.03 ? C77 CDL 505 r 1 
HETATM 91 C C78 CDL . . . VA 32 202.474 154.412 122.684 1 31.03 ? C78 CDL 505 r 1 
HETATM 92 C C79 CDL . . . VA 32 203.953 154.534 122.26 1 31.03 ? C79 CDL 505 r 1 
HETATM 93 C C80 CDL . . . VA 32 204.118 155.23 120.885 1 31.03 ? C80 CDL 505 r 1 
HETATM 94 C C81 CDL . . . VA 32 203.664 156.689 120.904 1 31.03 ? C81 CDL 505 r 1 
HETATM 95 C C82 CDL . . . VA 32 204.773 157.647 120.379 1 31.03 ? C82 CDL 505 r 1 
HETATM 96 C C83 CDL . . . VA 32 205.23 157.281 118.954 1 31.03 ? C83 CDL 505 r 1 
HETATM 97 C C84 CDL . . . VA 32 206.317 158.247 118.424 1 31.03 ? C84 CDL 505 r 1 
HETATM 98 C C85 CDL . . . VA 32 206.092 158.642 116.952 1 31.03 ? C85 CDL 505 r 1 
HETATM 99 C C86 CDL . . . VA 32 204.65 159.078 116.683 1 31.03 ? C86 CDL 505 r 1 
HETATM 100 C C87 CDL . . . VA 32 204.397 160.528 117.093 1 31.03 ? C87 CDL 505 r 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    104 
_model_server_stats.query_time_ms           606 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           100 
#