data_7WDB
#
_model_server_result.job_id            74by9CJVoSLo-ueIRJUUig 
_model_server_result.datetime_utc      '2024-10-31 12:20:56' 
_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          7wdb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"S","auth_seq_id":901}' 
#
_entry.id    7WDB 
#
_exptl.entry_id    7WDB 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              760.076 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate' 
_entity.pdbx_number_of_molecules    4 
_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            7WDB 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7WDB 
_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    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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 
_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
? 2 E N N 
? 2 L N N 
? 2 S N N 
? 2 Z 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 A SG CYS 553 A CYS 553 1_555 A SG CYS 558 A CYS 558 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf2 B SG CYS 553 B CYS 553 1_555 B SG CYS 558 B CYS 558 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf3 C SG CYS 553 C CYS 553 1_555 C SG CYS 558 C CYS 558 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf4 D SG CYS 553 D CYS 553 1_555 D SG CYS 558 D CYS 558 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
metalc ? metalc1 A ND1 HIS 172 A HIS 172 1_555 G ZN ZN . A ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? 
metalc ? metalc2 A SG CYS 176 A CYS 176 1_555 G ZN ZN . A ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? 
metalc ? metalc3 A SG CYS 178 A CYS 178 1_555 G ZN ZN . A ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? 
metalc ? metalc4 A SG CYS 181 A CYS 181 1_555 G ZN ZN . A ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc5 A OE1 GLU 418 A GLU 418 1_555 H CA CA . A CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.998 ? 
metalc ? metalc6 A OD1 ASN 436 A ASN 436 1_555 H CA CA . A CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? 
metalc ? metalc7 A OD2 ASP 439 A ASP 439 1_555 H CA CA . A CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.675 ? 
metalc ? metalc8 B ND1 HIS 172 B HIS 172 1_555 N ZN ZN . B ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? 
metalc ? metalc9 B SG CYS 176 B CYS 176 1_555 N ZN ZN . B ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? 
metalc ? metalc10 B SG CYS 178 B CYS 178 1_555 N ZN ZN . B ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc11 B SG CYS 181 B CYS 181 1_555 N ZN ZN . B ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc12 B OE1 GLU 418 B GLU 418 1_555 O CA CA . B CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.998 ? 
metalc ? metalc13 B OD1 ASN 436 B ASN 436 1_555 O CA CA . B CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? 
metalc ? metalc14 B OD2 ASP 439 B ASP 439 1_555 O CA CA . B CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? 
metalc ? metalc15 C ND1 HIS 172 C HIS 172 1_555 U ZN ZN . C ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? 
metalc ? metalc16 C SG CYS 176 C CYS 176 1_555 U ZN ZN . C ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc17 C SG CYS 178 C CYS 178 1_555 U ZN ZN . C ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc18 C SG CYS 181 C CYS 181 1_555 U ZN ZN . C ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc19 C OE1 GLU 418 C GLU 418 1_555 V CA CA . C CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.998 ? 
metalc ? metalc20 C OD1 ASN 436 C ASN 436 1_555 V CA CA . C CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? 
metalc ? metalc21 C OD2 ASP 439 C ASP 439 1_555 V CA CA . C CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.675 ? 
metalc ? metalc22 D ND1 HIS 172 D HIS 172 1_555 BA ZN ZN . D ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? 
metalc ? metalc23 D SG CYS 176 D CYS 176 1_555 BA ZN ZN . D ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? 
metalc ? metalc24 D SG CYS 178 D CYS 178 1_555 BA ZN ZN . D ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc25 D SG CYS 181 D CYS 181 1_555 BA ZN ZN . D ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc26 D OE1 GLU 418 D GLU 418 1_555 CA CA CA . D CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.998 ? 
metalc ? metalc27 D OD1 ASN 436 D ASN 436 1_555 CA CA CA . D CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? 
metalc ? metalc28 D OD2 ASP 439 D ASP 439 1_555 CA CA CA . D CA 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.675 ? 
#
_chem_comp.formula           'C42 H82 N O8 P' 
_chem_comp.formula_weight    760.076 
_chem_comp.id                POV 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     POPC 
#
_atom_sites.entry_id                     7WDB 
_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
E 2 POV A 1 901 901 POV POV . 
F 3 Y01 A 1 902 1001 Y01 Y01 . 
G 4 ZN A 1 903 1101 ZN ZN . 
H 5 CA A 1 904 1201 CA CA . 
I 6 657 A 1 905 1401 657 LIG . 
J 7 PTY A 1 906 1501 PTY PTY . 
K 8 7OC A 1 907 1601 7OC DAX . 
L 2 POV B 1 901 901 POV POV . 
M 3 Y01 B 1 902 1001 Y01 Y01 . 
N 4 ZN B 1 903 1101 ZN ZN . 
O 5 CA B 1 904 1201 CA CA . 
P 6 657 B 1 905 1401 657 LIG . 
Q 7 PTY B 1 906 1501 PTY PTY . 
R 8 7OC B 1 907 1601 7OC DAX . 
S 2 POV C 1 901 901 POV POV . 
T 3 Y01 C 1 902 1001 Y01 Y01 . 
U 4 ZN C 1 903 1101 ZN ZN . 
V 5 CA C 1 904 1201 CA CA . 
W 6 657 C 1 905 1401 657 LIG . 
X 7 PTY C 1 906 1501 PTY PTY . 
Y 8 7OC C 1 907 1601 7OC DAX . 
Z 2 POV D 1 901 901 POV POV . 
AA 3 Y01 D 1 902 1001 Y01 Y01 . 
BA 4 ZN D 1 903 1101 ZN ZN . 
CA 5 CA D 1 904 1201 CA CA . 
DA 6 657 D 1 905 1401 657 LIG . 
EA 7 PTY D 1 906 1501 PTY PTY . 
FA 8 7OC D 1 907 1601 7OC DAX . 
#
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 P P POV . . . S 2 110.803 143.937 185.683 1 146.66 ? P POV 901 C 1 
HETATM 2 C C1 POV . . . S 2 111.652 144.1 183.188 1 122.2 ? C1 POV 901 C 1 
HETATM 3 C C2 POV . . . S 2 111.497 144.94 181.919 1 114.28 ? C2 POV 901 C 1 
HETATM 4 C C3 POV . . . S 2 112.691 144.667 181.019 1 104.48 ? C3 POV 901 C 1 
HETATM 5 C C210 POV . . . S 2 111.252 149.264 173.605 1 74.46 ? C210 POV 901 C 1 
HETATM 6 C C310 POV . . . S 2 119.127 149.56 170.167 1 67.19 ? C310 POV 901 C 1 
HETATM 7 O O11 POV . . . S 2 111.234 144.777 184.378 1 126.71 ? O11 POV 901 C 1 
HETATM 8 C C211 POV . . . S 2 112.013 150.017 172.546 1 73.16 ? C211 POV 901 C 1 
HETATM 9 C C311 POV . . . S 2 117.999 149.515 169.147 1 61.92 ? C311 POV 901 C 1 
HETATM 10 O O12 POV . . . S 2 112.175 143.909 186.525 1 130.16 ? O12 POV 901 C 1 
HETATM 11 C C212 POV . . . S 2 113.078 149.101 171.973 1 77.62 ? C212 POV 901 C 1 
HETATM 12 O O13 POV . . . S 2 109.797 144.737 186.472 1 131.25 ? O13 POV 901 C 1 
HETATM 13 C C213 POV . . . S 2 114.042 149.9 171.118 1 79.36 ? C213 POV 901 C 1 
HETATM 14 O O14 POV . . . S 2 110.482 142.523 185.255 1 142.08 ? O14 POV 901 C 1 
HETATM 15 C C214 POV . . . S 2 113.311 150.584 169.975 1 69.22 ? C214 POV 901 C 1 
HETATM 16 C C215 POV . . . S 2 113.113 149.618 168.826 1 67.36 ? C215 POV 901 C 1 
HETATM 17 C C216 POV . . . S 2 113.407 150.309 167.502 1 68.63 ? C216 POV 901 C 1 
HETATM 18 C C217 POV . . . S 2 114.906 150.345 167.222 1 73.19 ? C217 POV 901 C 1 
HETATM 19 C C218 POV . . . S 2 115.182 150.702 165.78 1 63.29 ? C218 POV 901 C 1 
HETATM 20 C C21 POV . . . S 2 110.125 146.792 182.564 1 115.59 ? C21 POV 901 C 1 
HETATM 21 O O21 POV . . . S 2 111.458 146.32 182.261 1 116.65 ? O21 POV 901 C 1 
HETATM 22 C C22 POV . . . S 2 109.922 148.278 182.76 1 104.58 ? C22 POV 901 C 1 
HETATM 23 O O22 POV . . . S 2 109.192 146.012 182.651 1 118.77 ? O22 POV 901 C 1 
HETATM 24 C C23 POV . . . S 2 110.244 149.029 181.472 1 96.92 ? C23 POV 901 C 1 
HETATM 25 C C24 POV . . . S 2 109.89 148.203 180.244 1 95.76 ? C24 POV 901 C 1 
HETATM 26 C C25 POV . . . S 2 110.619 148.697 179.001 1 90.96 ? C25 POV 901 C 1 
HETATM 27 C C26 POV . . . S 2 111.002 147.521 178.115 1 89.06 ? C26 POV 901 C 1 
HETATM 28 C C27 POV . . . S 2 111.713 147.978 176.85 1 81.15 ? C27 POV 901 C 1 
HETATM 29 C C28 POV . . . S 2 110.751 148.704 175.928 1 79.48 ? C28 POV 901 C 1 
HETATM 30 C C29 POV . . . S 2 111.529 149.464 174.885 1 76.79 ? C29 POV 901 C 1 
HETATM 31 C C31 POV . . . S 2 113.73 145.555 178.967 1 97.17 ? C31 POV 901 C 1 
HETATM 32 O O31 POV . . . S 2 112.852 145.746 180.11 1 99.88 ? O31 POV 901 C 1 
HETATM 33 C C32 POV . . . S 2 113.983 146.674 177.987 1 92 ? C32 POV 901 C 1 
HETATM 34 O O32 POV . . . S 2 114.252 144.466 178.815 1 96.23 ? O32 POV 901 C 1 
HETATM 35 C C33 POV . . . S 2 114.866 146.19 176.843 1 85.14 ? C33 POV 901 C 1 
HETATM 36 C C34 POV . . . S 2 115.331 147.356 175.977 1 76.37 ? C34 POV 901 C 1 
HETATM 37 C C35 POV . . . S 2 116.054 146.828 174.747 1 78.49 ? C35 POV 901 C 1 
HETATM 38 C C36 POV . . . S 2 116.477 147.94 173.799 1 78.63 ? C36 POV 901 C 1 
HETATM 39 C C37 POV . . . S 2 117.469 147.399 172.781 1 79.07 ? C37 POV 901 C 1 
HETATM 40 C C38 POV . . . S 2 117.518 148.227 171.507 1 73.22 ? C38 POV 901 C 1 
HETATM 41 C C39 POV . . . S 2 118.612 149.276 171.567 1 68.53 ? C39 POV 901 C 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    46 
_model_server_stats.query_time_ms           361 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           41 
#