data_7VY9
#
_model_server_result.job_id            9AJSA48jv20jvpei0DXfOQ 
_model_server_result.datetime_utc      '2024-12-21 16:18:33' 
_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          7vy9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"EA","auth_seq_id":201}' 
#
_entry.id    7VY9 
#
_exptl.entry_id    7VY9 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              1464.043 
_entity.id                          31 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            CARDIOLIPIN 
_entity.pdbx_number_of_molecules    9 
_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            7VY9 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7VY9 
_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,YA,ZA,AB,BB,CB,DB 
_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
? 31 EA N N 
? 31 FA N N 
? 31 IA N N 
? 31 LA N N 
? 31 PA N N 
? 31 RA N N 
? 31 SA N N 
? 31 VA N N 
? 31 AB 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 17 V CYS 18 1_555 D SG CYS 74 V CYS 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf2 D SG CYS 94 V CYS 95 1_555 D SG CYS 114 V CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf3 L SG CYS 112 d CYS 113 1_555 L SG CYS 124 d CYS 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf4 P SG CYS 32 h CYS 33 1_555 P SG CYS 65 h CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf5 AA SG CYS 45 u CYS 46 1_555 AA SG CYS 55 u CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf6 AA SG CYS 77 u CYS 78 1_555 AA SG CYS 109 u CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf7 AA SG CYS 87 u CYS 88 1_555 AA SG CYS 99 u CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
#
_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                     7VY9 
_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 Q 1 101 718 PEE PEE . 
EA 31 CDL V 1 201 201 CDL CDL . 
FA 31 CDL V 1 202 203 CDL CDL . 
GA 30 PEE W 1 201 202 PEE PEE . 
HA 32 8Q1 X 1 201 201 8Q1 8Q1 . 
IA 31 CDL a 1 201 201 CDL CDL . 
JA 33 PLX a 1 202 101 PLX PLX . 
KA 33 PLX g 1 201 705 PLX PLX . 
LA 31 CDL g 1 202 714 CDL CDL . 
MA 30 PEE j 1 201 101 PEE PEE . 
NA 33 PLX j 1 202 202 PLX PLX . 
OA 33 PLX j 1 203 203 PLX PLX . 
PA 31 CDL k 1 101 101 CDL CDL . 
QA 30 PEE l 1 701 207 PEE PEE . 
RA 31 CDL l 1 702 712 CDL CDL . 
SA 31 CDL l 1 703 713 CDL CDL . 
TA 30 PEE l 1 704 719 PEE PEE . 
UA 30 PEE l 1 705 720 PEE PEE . 
VA 31 CDL n 1 101 102 CDL CDL . 
WA 30 PEE r 1 501 202 PEE PEE . 
XA 33 PLX r 1 502 205 PLX PLX . 
YA 33 PLX r 1 503 201 PLX PLX . 
ZA 30 PEE s 1 401 201 PEE PEE . 
AB 31 CDL s 1 402 201 CDL CDL . 
BB 30 PEE s 1 403 401 PEE PEE . 
CB 34 UQ s 1 404 402 UQ UQ . 
DB 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 . . . EA 31 161.12 169.246 136.047 1 58.64 ? C1 CDL 201 V 1 
HETATM 2 O O1 CDL . . . EA 31 162.143 169.869 135.331 1 62.92 ? O1 CDL 201 V 1 
HETATM 3 C CA2 CDL . . . EA 31 159.768 169.861 135.598 1 56.84 ? CA2 CDL 201 V 1 
HETATM 4 O OA2 CDL . . . EA 31 160.028 170.947 134.72 1 60.62 ? OA2 CDL 201 V 1 
HETATM 5 P PA1 CDL . . . EA 31 159.238 172.38 134.991 1 75.05 ? PA1 CDL 201 V 1 
HETATM 6 O OA3 CDL . . . EA 31 158.191 172.175 136.058 1 61.53 ? OA3 CDL 201 V 1 
HETATM 7 O OA4 CDL . . . EA 31 160.221 173.418 135.444 1 58.38 ? OA4 CDL 201 V 1 
HETATM 8 O OA5 CDL . . . EA 31 158.5 172.883 133.589 1 58.02 ? OA5 CDL 201 V 1 
HETATM 9 C CA3 CDL . . . EA 31 159.303 173.388 132.532 1 55.25 ? CA3 CDL 201 V 1 
HETATM 10 C CA4 CDL . . . EA 31 159.325 172.361 131.405 1 57.05 ? CA4 CDL 201 V 1 
HETATM 11 O OA6 CDL . . . EA 31 158.955 172.941 130.174 1 56.28 ? OA6 CDL 201 V 1 
HETATM 12 C CA5 CDL . . . EA 31 157.561 173.128 129.935 1 58.16 ? CA5 CDL 201 V 1 
HETATM 13 O OA7 CDL . . . EA 31 156.938 173.911 130.584 1 55.99 ? OA7 CDL 201 V 1 
HETATM 14 C C11 CDL . . . EA 31 156.833 172.309 128.82 1 51.32 ? C11 CDL 201 V 1 
HETATM 15 C C12 CDL . . . EA 31 157.017 172.899 127.418 1 50.38 ? C12 CDL 201 V 1 
HETATM 16 C C13 CDL . . . EA 31 158.183 172.253 126.672 1 51.48 ? C13 CDL 201 V 1 
HETATM 17 C C14 CDL . . . EA 31 158.6 173.054 125.423 1 54.17 ? C14 CDL 201 V 1 
HETATM 18 C C15 CDL . . . EA 31 158.068 172.415 124.107 1 56.15 ? C15 CDL 201 V 1 
HETATM 19 C C16 CDL . . . EA 31 158.556 173.164 122.842 1 54.04 ? C16 CDL 201 V 1 
HETATM 20 C C17 CDL . . . EA 31 157.526 173.093 121.672 1 56.19 ? C17 CDL 201 V 1 
HETATM 21 C C18 CDL . . . EA 31 157.909 174.021 120.491 1 53.3 ? C18 CDL 201 V 1 
HETATM 22 C C19 CDL . . . EA 31 157 173.814 119.246 1 52.93 ? C19 CDL 201 V 1 
HETATM 23 C C20 CDL . . . EA 31 157.078 175.005 118.26 1 56.38 ? C20 CDL 201 V 1 
HETATM 24 C C21 CDL . . . EA 31 156.442 174.678 116.883 1 52.24 ? C21 CDL 201 V 1 
HETATM 25 C C22 CDL . . . EA 31 156.539 175.869 115.888 1 50.91 ? C22 CDL 201 V 1 
HETATM 26 C C23 CDL . . . EA 31 156.078 175.484 114.464 1 51.84 ? C23 CDL 201 V 1 
HETATM 27 C C24 CDL . . . EA 31 157.096 174.557 113.749 1 54.99 ? C24 CDL 201 V 1 
HETATM 28 C C25 CDL . . . EA 31 156.655 174.192 112.32 1 52.09 ? C25 CDL 201 V 1 
HETATM 29 C CA6 CDL . . . EA 31 158.4 171.177 131.753 1 58.17 ? CA6 CDL 201 V 1 
HETATM 30 O OA8 CDL . . . EA 31 158.503 170.222 130.717 1 58.53 ? OA8 CDL 201 V 1 
HETATM 31 C CA7 CDL . . . EA 31 158.996 168.949 131.138 1 56.89 ? CA7 CDL 201 V 1 
HETATM 32 O OA9 CDL . . . EA 31 159.045 168.677 132.287 1 53.68 ? OA9 CDL 201 V 1 
HETATM 33 C C31 CDL . . . EA 31 159.469 167.936 130.081 1 56.12 ? C31 CDL 201 V 1 
HETATM 34 C C32 CDL . . . EA 31 160.8 168.35 129.459 1 54.38 ? C32 CDL 201 V 1 
HETATM 35 C C33 CDL . . . EA 31 160.625 169.397 128.35 1 57.89 ? C33 CDL 201 V 1 
HETATM 36 C C34 CDL . . . EA 31 160.179 168.769 127.01 1 57.98 ? C34 CDL 201 V 1 
HETATM 37 C C35 CDL . . . EA 31 160.838 167.388 126.747 1 54.69 ? C35 CDL 201 V 1 
HETATM 38 C C36 CDL . . . EA 31 160.72 166.959 125.266 1 57.98 ? C36 CDL 201 V 1 
HETATM 39 C C37 CDL . . . EA 31 160.934 168.133 124.296 1 56.26 ? C37 CDL 201 V 1 
HETATM 40 C C38 CDL . . . EA 31 159.712 168.376 123.402 1 54.62 ? C38 CDL 201 V 1 
HETATM 41 C C39 CDL . . . EA 31 160.07 169.156 122.123 1 54.09 ? C39 CDL 201 V 1 
HETATM 42 C C40 CDL . . . EA 31 159.722 168.356 120.849 1 59.16 ? C40 CDL 201 V 1 
HETATM 43 C C41 CDL . . . EA 31 160.663 168.702 119.644 1 59.73 ? C41 CDL 201 V 1 
HETATM 44 C C42 CDL . . . EA 31 160.264 167.935 118.353 1 58.84 ? C42 CDL 201 V 1 
HETATM 45 C C43 CDL . . . EA 31 159.031 168.564 117.642 1 59.98 ? C43 CDL 201 V 1 
HETATM 46 C C44 CDL . . . EA 31 159.294 170.031 117.208 1 56.71 ? C44 CDL 201 V 1 
HETATM 47 C C45 CDL . . . EA 31 158.267 170.529 116.194 1 54.4 ? C45 CDL 201 V 1 
HETATM 48 C C46 CDL . . . EA 31 158.011 169.508 115.069 1 53.21 ? C46 CDL 201 V 1 
HETATM 49 C C47 CDL . . . EA 31 157.903 170.174 113.701 1 53.32 ? C47 CDL 201 V 1 
HETATM 50 C CB2 CDL . . . EA 31 161.2 167.703 135.782 1 52.56 ? CB2 CDL 201 V 1 
HETATM 51 O OB2 CDL . . . EA 31 159.989 167.298 135.159 1 62.88 ? OB2 CDL 201 V 1 
HETATM 52 P PB2 CDL . . . EA 31 159.697 165.658 134.953 1 84.91 ? PB2 CDL 201 V 1 
HETATM 53 O OB3 CDL . . . EA 31 160.677 164.856 135.788 1 57.04 ? OB3 CDL 201 V 1 
HETATM 54 O OB4 CDL . . . EA 31 158.285 165.348 135.392 1 62.42 ? OB4 CDL 201 V 1 
HETATM 55 O OB5 CDL . . . EA 31 159.874 165.252 133.337 1 58.85 ? OB5 CDL 201 V 1 
HETATM 56 C CB3 CDL . . . EA 31 158.711 164.875 132.612 1 56.7 ? CB3 CDL 201 V 1 
HETATM 57 C CB4 CDL . . . EA 31 158.7 163.346 132.492 1 51.37 ? CB4 CDL 201 V 1 
HETATM 58 O OB6 CDL . . . EA 31 160.027 162.882 132.46 1 56.43 ? OB6 CDL 201 V 1 
HETATM 59 C CB5 CDL . . . EA 31 160.151 161.47 132.584 1 54.51 ? CB5 CDL 201 V 1 
HETATM 60 O OB7 CDL . . . EA 31 159.382 160.862 133.251 1 59.6 ? OB7 CDL 201 V 1 
HETATM 61 C C51 CDL . . . EA 31 161.287 160.735 131.847 1 49.25 ? C51 CDL 201 V 1 
HETATM 62 C C52 CDL . . . EA 31 161.443 161.218 130.396 1 50.48 ? C52 CDL 201 V 1 
HETATM 63 C C53 CDL . . . EA 31 162.278 160.251 129.543 1 51.6 ? C53 CDL 201 V 1 
HETATM 64 C C54 CDL . . . EA 31 161.7 158.82 129.543 1 50.78 ? C54 CDL 201 V 1 
HETATM 65 C C55 CDL . . . EA 31 161.201 158.393 128.154 1 52.93 ? C55 CDL 201 V 1 
HETATM 66 C C56 CDL . . . EA 31 160.147 159.379 127.586 1 50.31 ? C56 CDL 201 V 1 
HETATM 67 C C57 CDL . . . EA 31 160.263 159.545 126.058 1 50.94 ? C57 CDL 201 V 1 
HETATM 68 C C58 CDL . . . EA 31 158.97 159.11 125.329 1 49.08 ? C58 CDL 201 V 1 
HETATM 69 C C59 CDL . . . EA 31 159.156 159.046 123.794 1 53.74 ? C59 CDL 201 V 1 
HETATM 70 C C60 CDL . . . EA 31 159.366 160.442 123.18 1 51.31 ? C60 CDL 201 V 1 
HETATM 71 C C61 CDL . . . EA 31 158.332 160.773 122.069 1 51.2 ? C61 CDL 201 V 1 
HETATM 72 C C62 CDL . . . EA 31 157.724 159.513 121.419 1 48.95 ? C62 CDL 201 V 1 
HETATM 73 C C63 CDL . . . EA 31 156.949 159.842 120.135 1 52.7 ? C63 CDL 201 V 1 
HETATM 74 C C64 CDL . . . EA 31 156.434 158.587 119.414 1 57.12 ? C64 CDL 201 V 1 
HETATM 75 C C65 CDL . . . EA 31 157.274 157.352 119.712 1 55.44 ? C65 CDL 201 V 1 
HETATM 76 C C66 CDL . . . EA 31 156.925 156.188 118.795 1 49.97 ? C66 CDL 201 V 1 
HETATM 77 C C67 CDL . . . EA 31 158.168 155.596 118.137 1 48.54 ? C67 CDL 201 V 1 
HETATM 78 C CB6 CDL . . . EA 31 157.994 162.947 131.203 1 51.16 ? CB6 CDL 201 V 1 
HETATM 79 O OB8 CDL . . . EA 31 158.894 163.154 130.12 1 53.32 ? OB8 CDL 201 V 1 
HETATM 80 C CB7 CDL . . . EA 31 158.316 163.828 129.019 1 52.8 ? CB7 CDL 201 V 1 
HETATM 81 O OB9 CDL . . . EA 31 157.874 164.919 129.163 1 56.66 ? OB9 CDL 201 V 1 
HETATM 82 C C71 CDL . . . EA 31 158.263 163.149 127.632 1 51.53 ? C71 CDL 201 V 1 
HETATM 83 C C72 CDL . . . EA 31 158.115 164.171 126.497 1 52.73 ? C72 CDL 201 V 1 
HETATM 84 C C73 CDL . . . EA 31 158.77 163.699 125.19 1 53.45 ? C73 CDL 201 V 1 
HETATM 85 C C74 CDL . . . EA 31 157.813 163.826 123.994 1 55.92 ? C74 CDL 201 V 1 
HETATM 86 C C75 CDL . . . EA 31 158.509 164.426 122.742 1 56.21 ? C75 CDL 201 V 1 
HETATM 87 C C76 CDL . . . EA 31 157.6 165.427 121.982 1 56.37 ? C76 CDL 201 V 1 
HETATM 88 C C77 CDL . . . EA 31 157.759 165.308 120.437 1 55.07 ? C77 CDL 201 V 1 
HETATM 89 C C78 CDL . . . EA 31 156.412 165.214 119.707 1 53.94 ? C78 CDL 201 V 1 
HETATM 90 C C79 CDL . . . EA 31 156.588 164.865 118.213 1 54.27 ? C79 CDL 201 V 1 
HETATM 91 C C80 CDL . . . EA 31 155.238 164.798 117.452 1 58.5 ? C80 CDL 201 V 1 
HETATM 92 C C81 CDL . . . EA 31 154.555 166.161 117.329 1 59.39 ? C81 CDL 201 V 1 
HETATM 93 C C82 CDL . . . EA 31 153.204 166.072 116.559 1 52.74 ? C82 CDL 201 V 1 
HETATM 94 C C83 CDL . . . EA 31 152.744 167.437 116.012 1 48.05 ? C83 CDL 201 V 1 
#
_model_server_stats.io_time_ms              20 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    252 
_model_server_stats.query_time_ms           517 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           94 
#