data_9JCO
#
_model_server_result.job_id            8SrnLTGsshYQtzZcwwACCA 
_model_server_result.datetime_utc      '2025-07-17 19:40:29' 
_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          9jco 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":403}' 
#
_entry.id    9JCO 
#
_exptl.entry_id    9JCO 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              300.266 
_entity.id                          7 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            2-[[(2~{R})-3-acetyloxy-2-oxidanyl-propoxy]-oxidanyl-phosphoryl]oxyethyl-trimethyl-azanium 
_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            9JCO 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9JCO 
_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    pentameric 
_pdbx_struct_assembly.oligomeric_count      5 
_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 
_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
? 7 H N N 
? 7 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 D SG CYS 22 N CYS 22 1_555 D SG CYS 96 N CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf2 D SG CYS 99 N CYS 99 1_555 D SG CYS 107 N CYS 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf3 E SG CYS 9 R CYS 9 1_555 E SG CYS 258 R CYS 258 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf4 E SG CYS 90 R CYS 90 1_555 E SG CYS 168 R CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
#
_chem_comp.formula           'C10 H23 N O7 P 1' 
_chem_comp.formula_weight    300.266 
_chem_comp.id                A1L35 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              2-[[(2~{R})-3-acetyloxy-2-oxidanyl-propoxy]-oxidanyl-phosphoryl]oxyethyl-trimethyl-azanium 
_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
C01 C02 A1L35 sing 1 n n 
C02 O03 A1L35 doub 2 n n 
C02 O04 A1L35 sing 3 n n 
O04 C05 A1L35 sing 4 n n 
C05 C06 A1L35 sing 5 n n 
O19 C06 A1L35 sing 6 n n 
O10 P09 A1L35 doub 7 n n 
C06 C07 A1L35 sing 8 n n 
C07 O08 A1L35 sing 9 n n 
P09 O08 A1L35 sing 10 n n 
P09 O11 A1L35 sing 11 n n 
P09 O12 A1L35 sing 12 n n 
C13 O12 A1L35 sing 13 n n 
C13 C14 A1L35 sing 14 n n 
C18 N15 A1L35 sing 15 n n 
C17 N15 A1L35 sing 16 n n 
N15 C14 A1L35 sing 17 n n 
N15 C16 A1L35 sing 18 n n 
C13 H1 A1L35 sing 19 n n 
C13 H2 A1L35 sing 20 n n 
C17 H3 A1L35 sing 21 n n 
C17 H4 A1L35 sing 22 n n 
C17 H5 A1L35 sing 23 n n 
C01 H6 A1L35 sing 24 n n 
C01 H7 A1L35 sing 25 n n 
C01 H8 A1L35 sing 26 n n 
C05 H9 A1L35 sing 27 n n 
C05 H10 A1L35 sing 28 n n 
C06 H11 A1L35 sing 29 n n 
C07 H12 A1L35 sing 30 n n 
C07 H13 A1L35 sing 31 n n 
C14 H14 A1L35 sing 32 n n 
C14 H15 A1L35 sing 33 n n 
C16 H16 A1L35 sing 34 n n 
C16 H17 A1L35 sing 35 n n 
C16 H18 A1L35 sing 36 n n 
C18 H19 A1L35 sing 37 n n 
C18 H20 A1L35 sing 38 n n 
C18 H21 A1L35 sing 39 n n 
O11 H22 A1L35 sing 40 n n 
O19 H23 A1L35 sing 41 n n 
#
_atom_sites.entry_id                     9JCO 
_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
F 6 CLR R 1 401 1002 CLR CLR . 
G 6 CLR R 1 402 1003 CLR CLR . 
H 7 A1L35 R 1 403 3 A1L35 LIG . 
I 7 A1L35 R 1 404 4 A1L35 LIG . 
J 8 HOH A 1 401 7 HOH HOH . 
K 8 HOH R 1 501 1 HOH HOH . 
K 8 HOH R 2 502 9 HOH HOH . 
K 8 HOH R 3 503 15 HOH HOH . 
K 8 HOH R 4 504 13 HOH HOH . 
#
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 C13 A1L35 . . . H 7 98.652 98.462 82.171 1 20 ? C13 A1L35 403 R 1 
HETATM 2 C C17 A1L35 . . . H 7 97.038 98.081 79.366 1 20 ? C17 A1L35 403 R 1 
HETATM 3 C C01 A1L35 . . . H 7 98.51 98.465 92.722 1 20 ? C01 A1L35 403 R 1 
HETATM 4 C C02 A1L35 . . . H 7 98.224 99.89 92.261 1 20 ? C02 A1L35 403 R 1 
HETATM 5 C C05 A1L35 . . . H 7 98.787 100.189 90.017 1 20 ? C05 A1L35 403 R 1 
HETATM 6 C C06 A1L35 . . . H 7 98.23 99.588 88.69 1 20 ? C06 A1L35 403 R 1 
HETATM 7 C C07 A1L35 . . . H 7 99.171 99.392 87.47 1 20 ? C07 A1L35 403 R 1 
HETATM 8 C C14 A1L35 . . . H 7 98.432 97.289 81.171 1 20 ? C14 A1L35 403 R 1 
HETATM 9 C C16 A1L35 . . . H 7 99.381 98.558 79.341 1 20 ? C16 A1L35 403 R 1 
HETATM 10 C C18 A1L35 . . . H 7 98.631 96.371 78.994 1 20 ? C18 A1L35 403 R 1 
HETATM 11 N N15 A1L35 . . . H 7 98.361 97.598 79.716 1 20 1 N15 A1L35 403 R 1 
HETATM 12 O O03 A1L35 . . . H 7 98.398 100.799 92.998 1 20 ? O03 A1L35 403 R 1 
HETATM 13 O O04 A1L35 . . . H 7 97.763 100.118 90.965 1 20 ? O04 A1L35 403 R 1 
HETATM 14 O O08 A1L35 . . . H 7 98.501 98.864 86.319 1 20 ? O08 A1L35 403 R 1 
HETATM 15 O O10 A1L35 . . . H 7 99.452 100.312 84.412 1 20 ? O10 A1L35 403 R 1 
HETATM 16 O O11 A1L35 . . . H 7 100.561 98.202 84.925 1 20 -1 O11 A1L35 403 R 1 
HETATM 17 O O12 A1L35 . . . H 7 98.397 98.123 83.539 1 20 ? O12 A1L35 403 R 1 
HETATM 18 O O19 A1L35 . . . H 7 97.207 100.443 88.264 1 20 ? O19 A1L35 403 R 1 
HETATM 19 P P09 A1L35 . . . H 7 99.215 98.874 84.799 1 20 ? P09 A1L35 403 R 1 
HETATM 20 H H1 A1L35 . . . H 7 98.007 99.287 81.89 1 20 ? H1 A1L35 403 R 1 
HETATM 21 H H2 A1L35 . . . H 7 99.685 98.786 82.096 1 20 ? H2 A1L35 403 R 1 
HETATM 22 H H3 A1L35 . . . H 7 96.287 97.447 79.827 1 20 ? H3 A1L35 403 R 1 
HETATM 23 H H4 A1L35 . . . H 7 96.916 99.099 79.722 1 20 ? H4 A1L35 403 R 1 
HETATM 24 H H5 A1L35 . . . H 7 96.917 98.058 78.287 1 20 ? H5 A1L35 403 R 1 
HETATM 25 H H6 A1L35 . . . H 7 97.623 98.045 93.187 1 20 ? H6 A1L35 403 R 1 
HETATM 26 H H7 A1L35 . . . H 7 99.324 98.487 93.44 1 20 ? H7 A1L35 403 R 1 
HETATM 27 H H8 A1L35 . . . H 7 98.797 97.857 91.869 1 20 ? H8 A1L35 403 R 1 
HETATM 28 H H9 A1L35 . . . H 7 99.075 101.223 89.862 1 20 ? H9 A1L35 403 R 1 
HETATM 29 H H10 A1L35 . . . H 7 99.644 99.612 90.349 1 20 ? H10 A1L35 403 R 1 
HETATM 30 H H11 A1L35 . . . H 7 97.791 98.629 88.93 1 20 ? H11 A1L35 403 R 1 
HETATM 31 H H12 A1L35 . . . H 7 99.61 100.349 87.213 1 20 ? H12 A1L35 403 R 1 
HETATM 32 H H13 A1L35 . . . H 7 99.964 98.708 87.755 1 20 ? H13 A1L35 403 R 1 
HETATM 33 H H14 A1L35 . . . H 7 99.248 96.589 81.311 1 20 ? H14 A1L35 403 R 1 
HETATM 34 H H15 A1L35 . . . H 7 97.512 96.788 81.45 1 20 ? H15 A1L35 403 R 1 
HETATM 35 H H16 A1L35 . . . H 7 99.067 99.557 79.625 1 20 ? H16 A1L35 403 R 1 
HETATM 36 H H17 A1L35 . . . H 7 100.31 98.308 79.845 1 20 ? H17 A1L35 403 R 1 
HETATM 37 H H18 A1L35 . . . H 7 99.531 98.514 78.267 1 20 ? H18 A1L35 403 R 1 
HETATM 38 H H19 A1L35 . . . H 7 98.42 96.512 77.939 1 20 ? H19 A1L35 403 R 1 
HETATM 39 H H20 A1L35 . . . H 7 98.012 95.575 79.394 1 20 ? H20 A1L35 403 R 1 
HETATM 40 H H21 A1L35 . . . H 7 99.678 96.11 79.117 1 20 ? H21 A1L35 403 R 1 
HETATM 41 H H23 A1L35 . . . H 7 97.584 101.203 87.851 1 20 ? H23 A1L35 403 R 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    13 
_model_server_stats.query_time_ms           307 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           41 
#