data_9CTU
#
_model_server_result.job_id            BelqS9EnFoeN1rVZY55Uqg 
_model_server_result.datetime_utc      '2025-08-31 13:30:07' 
_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          9ctu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":301}' 
#
_entry.id    9CTU 
#
_exptl.entry_id    9CTU 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              617.881 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2S,3R,4E)-2-(hexadecanoylamino)-3-hydroxyoctadec-4-en-1-yl dihydrogen phosphate' 
_entity.pdbx_number_of_molecules    2 
_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            9CTU 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9CTU 
_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    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 G N N 
? 4 I 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 43 C CYS 23 1_555 A SG CYS 112 C CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf2 A SG CYS 158 C CYS 138 1_555 A SG CYS 218 C CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf3 B SG CYS 41 D CYS 22 1_555 B SG CYS 115 D CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf4 B SG CYS 159 D CYS 140 1_555 B SG CYS 214 D CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf5 C SG CYS 43 E CYS 23 1_555 C SG CYS 112 E CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf6 C SG CYS 158 E CYS 138 1_555 C SG CYS 218 E CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf7 D SG CYS 41 F CYS 22 1_555 D SG CYS 115 F CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf8 D SG CYS 159 F CYS 140 1_555 D SG CYS 214 F CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
metalc ? metalc1 E OG SER 99 A SER 99 1_555 H K K . A K 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.674 ? 
metalc ? metalc2 E O SER 111 A SER 111 1_555 H K K . A K 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.943 ? 
metalc ? metalc3 E O ASN 113 A ASN 113 1_555 H K K . A K 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.691 ? 
metalc ? metalc4 E O THR 116 A THR 116 1_555 H K K . A K 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.749 ? 
metalc ? metalc5 E OD1 ASN 117 A ASN 117 1_555 H K K . A K 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.725 ? 
metalc ? metalc6 F OG SER 99 B SER 99 1_555 J K K . B K 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.685 ? 
metalc ? metalc7 F O SER 111 B SER 111 1_555 J K K . B K 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.88 ? 
metalc ? metalc8 F O ASN 113 B ASN 113 1_555 J K K . B K 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? 
metalc ? metalc9 F O THR 116 B THR 116 1_555 J K K . B K 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.822 ? 
metalc ? metalc10 F OD1 ASN 117 B ASN 117 1_555 J K K . B K 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? 
#
_chem_comp.formula           'C34 H68 N O6 P' 
_chem_comp.formula_weight    617.881 
_chem_comp.id                1PX 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2S,3R,4E)-2-(hexadecanoylamino)-3-hydroxyoctadec-4-en-1-yl dihydrogen phosphate' 
_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
CAY CBA 1PX sing 1 n n 
CAY CAV 1PX sing 2 n n 
CBA CAX 1PX sing 3 n n 
CAS CAV 1PX sing 4 n n 
CAS CAP 1PX sing 5 n n 
CAA CAJ 1PX sing 6 n n 
CAJ CAM 1PX sing 7 n n 
CAK CAB 1PX sing 8 n n 
CAK CAN 1PX sing 9 n n 
CAX CAU 1PX sing 10 n n 
CAM CAP 1PX sing 11 n n 
CAU CAR 1PX sing 12 n n 
CAQ CAN 1PX sing 13 n n 
CAQ CAT 1PX sing 14 n n 
OAC CBM 1PX doub 15 n n 
CAO CAR 1PX sing 16 n n 
CAO CAL 1PX sing 17 n n 
CAW CAT 1PX sing 18 n n 
CAW CAZ 1PX sing 19 n n 
CBD CBC 1PX sing 20 n n 
CBD CBE 1PX sing 21 n n 
CBF CBE 1PX sing 22 n n 
CBF CBG 1PX sing 23 n n 
CBM CBI 1PX sing 24 n n 
CBM NBK 1PX sing 25 n n 
CBC CBB 1PX sing 26 n n 
CBH CBI 1PX sing 27 n n 
CBH CBG 1PX sing 28 n n 
CAI CBN 1PX sing 29 n n 
CAI CAH 1PX doub 30 e n 
CAL CAH 1PX sing 31 n n 
CBB CAZ 1PX sing 32 n n 
CBO NBK 1PX sing 33 n n 
CBO CBN 1PX sing 34 n n 
CBO CBJ 1PX sing 35 n n 
OAE CBN 1PX sing 36 n n 
OBL CBJ 1PX sing 37 n n 
OBL PBP 1PX sing 38 n n 
OAD PBP 1PX doub 39 n n 
OAG PBP 1PX sing 40 n n 
PBP OAF 1PX sing 41 n n 
CAB H1 1PX sing 42 n n 
CAB H2 1PX sing 43 n n 
CAB H3 1PX sing 44 n n 
CAK H4 1PX sing 45 n n 
CAK H5 1PX sing 46 n n 
CAN H6 1PX sing 47 n n 
CAN H7 1PX sing 48 n n 
CAQ H8 1PX sing 49 n n 
CAQ H9 1PX sing 50 n n 
CAT H10 1PX sing 51 n n 
CAT H11 1PX sing 52 n n 
CAW H12 1PX sing 53 n n 
CAW H13 1PX sing 54 n n 
CAZ H14 1PX sing 55 n n 
CAZ H15 1PX sing 56 n n 
CBB H16 1PX sing 57 n n 
CBB H17 1PX sing 58 n n 
CBC H18 1PX sing 59 n n 
CBC H19 1PX sing 60 n n 
CBD H20 1PX sing 61 n n 
CBD H21 1PX sing 62 n n 
CBE H22 1PX sing 63 n n 
CBE H23 1PX sing 64 n n 
CBF H24 1PX sing 65 n n 
CBF H25 1PX sing 66 n n 
CBG H26 1PX sing 67 n n 
CBG H27 1PX sing 68 n n 
CBH H28 1PX sing 69 n n 
CBH H29 1PX sing 70 n n 
CBI H30 1PX sing 71 n n 
CBI H31 1PX sing 72 n n 
NBK H32 1PX sing 73 n n 
CBO H33 1PX sing 74 n n 
CBJ H34 1PX sing 75 n n 
CBJ H35 1PX sing 76 n n 
OAF H36 1PX sing 77 n n 
OAG H37 1PX sing 78 n n 
CBN H38 1PX sing 79 n n 
OAE H39 1PX sing 80 n n 
CAI H40 1PX sing 81 n n 
CAH H41 1PX sing 82 n n 
CAL H42 1PX sing 83 n n 
CAL H43 1PX sing 84 n n 
CAO H44 1PX sing 85 n n 
CAO H45 1PX sing 86 n n 
CAR H46 1PX sing 87 n n 
CAR H47 1PX sing 88 n n 
CAU H48 1PX sing 89 n n 
CAU H49 1PX sing 90 n n 
CAX H50 1PX sing 91 n n 
CAX H51 1PX sing 92 n n 
CBA H52 1PX sing 93 n n 
CBA H53 1PX sing 94 n n 
CAY H54 1PX sing 95 n n 
CAY H55 1PX sing 96 n n 
CAV H56 1PX sing 97 n n 
CAV H57 1PX sing 98 n n 
CAS H58 1PX sing 99 n n 
CAS H59 1PX sing 100 n n 
CAP H60 1PX sing 101 n n 
CAP H61 1PX sing 102 n n 
CAM H62 1PX sing 103 n n 
CAM H63 1PX sing 104 n n 
CAJ H64 1PX sing 105 n n 
CAJ H65 1PX sing 106 n n 
CAA H66 1PX sing 107 n n 
CAA H67 1PX sing 108 n n 
CAA H68 1PX sing 109 n n 
#
_atom_sites.entry_id                     9CTU 
_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
G 4 1PX A 1 301 301 1PX 1PX . 
H 5 K A 1 302 2 K K . 
I 4 1PX B 1 301 301 1PX 1PX . 
J 5 K B 1 302 1 K K . 
#
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 CAN 1PX . . . I 4 106.237 124.235 111.647 1 63.86 ? CAN 1PX 301 B 1 
HETATM 2 C CAQ 1PX . . . I 4 105.629 123.066 112.355 1 64 ? CAQ 1PX 301 B 1 
HETATM 3 C CAT 1PX . . . I 4 105.912 123.312 113.822 1 68.82 ? CAT 1PX 301 B 1 
HETATM 4 C CAW 1PX . . . I 4 105.708 121.998 114.519 1 63.03 ? CAW 1PX 301 B 1 
HETATM 5 C CAZ 1PX . . . I 4 105.836 122.151 116.011 1 62.33 ? CAZ 1PX 301 B 1 
HETATM 6 C CBB 1PX . . . I 4 107.313 122.114 116.375 1 61.14 ? CBB 1PX 301 B 1 
HETATM 7 C CBC 1PX . . . I 4 107.603 122.931 117.622 1 64.12 ? CBC 1PX 301 B 1 
HETATM 8 C CBD 1PX . . . I 4 106.479 122.825 118.653 1 64.46 ? CBD 1PX 301 B 1 
HETATM 9 C CBE 1PX . . . I 4 106.519 123.988 119.628 1 63.27 ? CBE 1PX 301 B 1 
HETATM 10 C CBF 1PX . . . I 4 105.14 124.279 120.183 1 59.69 ? CBF 1PX 301 B 1 
HETATM 11 C CBG 1PX . . . I 4 105.18 125.4 121.207 1 64.15 ? CBG 1PX 301 B 1 
HETATM 12 C CBH 1PX . . . I 4 103.762 125.758 121.624 1 66.64 ? CBH 1PX 301 B 1 
HETATM 13 C CBI 1PX . . . I 4 103.565 125.623 123.112 1 67.75 ? CBI 1PX 301 B 1 
HETATM 14 C CBM 1PX . . . I 4 102.883 126.884 123.596 1 78.42 ? CBM 1PX 301 B 1 
HETATM 15 O OAC 1PX . . . I 4 101.762 127.276 123.267 1 84.82 ? OAC 1PX 301 B 1 
HETATM 16 N NBK 1PX . . . I 4 103.679 127.538 124.458 1 85.01 ? NBK 1PX 301 B 1 
HETATM 17 C CBO 1PX . . . I 4 103.384 128.771 125.139 1 88.25 ? CBO 1PX 301 B 1 
HETATM 18 C CBJ 1PX . . . I 4 104.129 128.376 126.43 1 88.67 ? CBJ 1PX 301 B 1 
HETATM 19 O OBL 1PX . . . I 4 103.133 127.735 127.073 1 93.33 ? OBL 1PX 301 B 1 
HETATM 20 P PBP 1PX . . . I 4 103.407 127.626 128.715 1 93.06 ? PBP 1PX 301 B 1 
HETATM 21 O OAF 1PX . . . I 4 102.468 126.444 129.089 1 75.89 ? OAF 1PX 301 B 1 
HETATM 22 O OAG 1PX . . . I 4 104.865 127.217 128.571 1 73.44 ? OAG 1PX 301 B 1 
HETATM 23 O OAD 1PX . . . I 4 102.925 129.022 128.829 1 96.01 ? OAD 1PX 301 B 1 
HETATM 24 C CBN 1PX . . . I 4 104.194 129.936 124.551 1 92.76 ? CBN 1PX 301 B 1 
HETATM 25 O OAE 1PX . . . I 4 104.243 131.006 125.424 1 96.71 ? OAE 1PX 301 B 1 
HETATM 26 C CAI 1PX . . . I 4 103.698 130.361 123.2 1 93.3 ? CAI 1PX 301 B 1 
HETATM 27 C CAH 1PX . . . I 4 104.331 131.248 122.431 1 93.79 ? CAH 1PX 301 B 1 
HETATM 28 C CAL 1PX . . . I 4 103.864 131.687 121.08 1 94.4 ? CAL 1PX 301 B 1 
HETATM 29 C CAO 1PX . . . I 4 103.111 130.548 120.435 1 92.3 ? CAO 1PX 301 B 1 
HETATM 30 C CAR 1PX . . . I 4 103.909 129.912 119.346 1 87.04 ? CAR 1PX 301 B 1 
HETATM 31 C CAU 1PX . . . I 4 103.04 128.808 118.785 1 86.22 ? CAU 1PX 301 B 1 
HETATM 32 C CAX 1PX . . . I 4 103.697 128.454 117.489 1 86.14 ? CAX 1PX 301 B 1 
HETATM 33 C CBA 1PX . . . I 4 103.466 126.997 117.207 1 85.03 ? CBA 1PX 301 B 1 
HETATM 34 C CAY 1PX . . . I 4 104.22 126.695 115.944 1 83.38 ? CAY 1PX 301 B 1 
HETATM 35 C CAV 1PX . . . I 4 103.691 127.487 114.774 1 79.52 ? CAV 1PX 301 B 1 
HETATM 36 C CAS 1PX . . . I 4 104.112 126.694 113.562 1 73.08 ? CAS 1PX 301 B 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           304 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           36 
#