data_5D5D
#
_model_server_result.job_id            W7a_5vax-HK-P1hEpjGO2w 
_model_server_result.datetime_utc      '2024-11-08 12:40:49' 
_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          5d5d 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":509}' 
#
_entry.id    5D5D 
#
_exptl.entry_id    5D5D 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              229.402 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'LAURYL DIMETHYLAMINE-N-OXIDE' 
_entity.pdbx_number_of_molecules    7 
_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            5D5D 
_cell.length_a            46.33 
_cell.length_b            66.35 
_cell.length_c            176.84 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5D5D 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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,K,L,M,N,O,P,Q,R,S,T,U 
_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 E N N 
? 4 F N N 
? 4 G N N 
? 4 H N N 
? 4 I N N 
? 4 J N N 
? 4 K 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
metalc ? metalc1 A OD1 ASP 55 A ASP 55 1_555 D CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.84 ? 
metalc ? metalc2 A OD2 ASP 55 A ASP 55 1_555 D CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? 
metalc ? metalc3 A OD1 ASP 57 A ASP 57 1_555 D CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.484 ? 
metalc ? metalc4 A OD2 ASP 57 A ASP 57 1_555 D CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.506 ? 
metalc ? metalc5 A O ALA 61 A ALA 61 1_555 D CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? 
metalc ? metalc6 A O GLY 63 A GLY 63 1_555 D CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? 
metalc ? metalc7 A O ALA 136 A ALA 136 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? 
metalc ? metalc8 A O THR 139 A THR 139 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.727 ? 
metalc ? metalc9 A O TYR 141 A TYR 141 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.553 ? 
metalc ? metalc10 A O GLU 144 A GLU 144 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.558 ? 
metalc ? metalc11 A OE1 GLU 144 A GLU 144 1_555 B NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.727 ? 
metalc ? metalc12 A O ASN 265 A ASN 265 1_555 C NA NA . A NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.685 ? 
metalc ? metalc13 A OD1 ASN 273 A ASN 273 1_555 C NA NA . A NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.072 ? 
metalc ? metalc14 A OG SER 304 A SER 304 1_555 D CA CA . A CA 503 3_1155 ? ? ? ? ? ? ? ? ? ? ? ? 32.126 ? 
metalc ? metalc15 A OD1 ASN 319 A ASN 319 1_555 C NA NA . A NA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.098 ? 
metalc ? metalc16 A OE1 GLU 322 A GLU 322 1_555 B NA NA . A NA 501 4_595 ? ? ? ? ? ? ? ? ? ? ? ? 2.743 ? 
metalc ? metalc17 A OE2 GLU 322 A GLU 322 1_555 B NA NA . A NA 501 4_595 ? ? ? ? ? ? ? ? ? ? ? ? 3.106 ? 
#
_chem_comp.formula           'C14 H31 N O' 
_chem_comp.formula_weight    229.402 
_chem_comp.id                LDA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'LAURYL DIMETHYLAMINE-N-OXIDE' 
_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
N1 O1 LDA sing 215 n n 
N1 CM1 LDA sing 216 n n 
N1 CM2 LDA sing 217 n n 
N1 C1 LDA sing 218 n n 
CM1 HM11 LDA sing 219 n n 
CM1 HM12 LDA sing 220 n n 
CM1 HM13 LDA sing 221 n n 
CM2 HM21 LDA sing 222 n n 
CM2 HM22 LDA sing 223 n n 
CM2 HM23 LDA sing 224 n n 
C1 C2 LDA sing 225 n n 
C1 H11 LDA sing 226 n n 
C1 H12 LDA sing 227 n n 
C2 C3 LDA sing 228 n n 
C2 H21 LDA sing 229 n n 
C2 H22 LDA sing 230 n n 
C3 C4 LDA sing 231 n n 
C3 H31 LDA sing 232 n n 
C3 H32 LDA sing 233 n n 
C4 C5 LDA sing 234 n n 
C4 H41 LDA sing 235 n n 
C4 H42 LDA sing 236 n n 
C5 C6 LDA sing 237 n n 
C5 H51 LDA sing 238 n n 
C5 H52 LDA sing 239 n n 
C6 C7 LDA sing 240 n n 
C6 H61 LDA sing 241 n n 
C6 H62 LDA sing 242 n n 
C7 C8 LDA sing 243 n n 
C7 H71 LDA sing 244 n n 
C7 H72 LDA sing 245 n n 
C8 C9 LDA sing 246 n n 
C8 H81 LDA sing 247 n n 
C8 H82 LDA sing 248 n n 
C9 C10 LDA sing 249 n n 
C9 H91 LDA sing 250 n n 
C9 H92 LDA sing 251 n n 
C10 C11 LDA sing 252 n n 
C10 H101 LDA sing 253 n n 
C10 H102 LDA sing 254 n n 
C11 C12 LDA sing 255 n n 
C11 H111 LDA sing 256 n n 
C11 H112 LDA sing 257 n n 
C12 H121 LDA sing 258 n n 
C12 H122 LDA sing 259 n n 
C12 H123 LDA sing 260 n n 
#
_atom_sites.entry_id                     5D5D 
_atom_sites.fract_transf_matrix[1][1]    0.021584 
_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]    0.015072 
_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]    0.005655 
_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
B 2 NA A 1 501 4 NA NA . 
C 2 NA A 1 502 5 NA NA . 
D 3 CA A 1 503 1 CA CA . 
E 4 LDA A 1 504 3 LDA LDA . 
F 4 LDA A 1 505 5 LDA LDA . 
G 4 LDA A 1 506 6 LDA LDA . 
H 4 LDA A 1 507 7 LDA LDA . 
I 4 LDA A 1 508 8 LDA LDA . 
J 4 LDA A 1 509 9 LDA LDA . 
K 4 LDA A 1 510 10 LDA LDA . 
L 5 PE5 A 1 511 1 PE5 PE5 . 
M 5 PE5 A 1 512 3 PE5 PE5 . 
N 5 PE5 A 1 513 4 PE5 PE5 . 
O 5 PE5 A 1 514 5 PE5 PE5 . 
P 5 PE5 A 1 515 6 PE5 PE5 . 
Q 6 78M A 1 516 1 78M 78M . 
R 6 78M A 1 517 2 78M 78M . 
S 7 MES A 1 518 2 MES MES . 
T 7 MES A 1 519 3 MES MES . 
U 8 HOH A 1 601 10 HOH HOH . 
U 8 HOH A 2 602 11 HOH HOH . 
U 8 HOH A 3 603 1 HOH HOH . 
U 8 HOH A 4 604 6 HOH HOH . 
U 8 HOH A 5 605 81 HOH HOH . 
U 8 HOH A 6 606 15 HOH HOH . 
U 8 HOH A 7 607 5 HOH HOH . 
U 8 HOH A 8 608 87 HOH HOH . 
U 8 HOH A 9 609 70 HOH HOH . 
U 8 HOH A 10 610 64 HOH HOH . 
U 8 HOH A 11 611 27 HOH HOH . 
U 8 HOH A 12 612 40 HOH HOH . 
U 8 HOH A 13 613 12 HOH HOH . 
U 8 HOH A 14 614 71 HOH HOH . 
U 8 HOH A 15 615 69 HOH HOH . 
U 8 HOH A 16 616 13 HOH HOH . 
U 8 HOH A 17 617 43 HOH HOH . 
U 8 HOH A 18 618 50 HOH HOH . 
U 8 HOH A 19 619 86 HOH HOH . 
U 8 HOH A 20 620 16 HOH HOH . 
U 8 HOH A 21 621 82 HOH HOH . 
U 8 HOH A 22 622 55 HOH HOH . 
U 8 HOH A 23 623 88 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 N N1 LDA . . . J 4 149.384 134.065 29.389 1 69.98 ? N1 LDA 509 A 1 
HETATM 2 O O1 LDA . . . J 4 148.551 133.185 29.5 1 71.43 ? O1 LDA 509 A 1 
HETATM 3 C CM1 LDA . . . J 4 150.131 133.945 28.174 1 69.61 ? CM1 LDA 509 A 1 
HETATM 4 C CM2 LDA . . . J 4 150.332 133.917 30.457 1 71.23 ? CM2 LDA 509 A 1 
HETATM 5 C C1 LDA . . . J 4 148.832 135.402 29.453 1 65.79 ? C1 LDA 509 A 1 
HETATM 6 C C2 LDA . . . J 4 147.377 135.541 28.931 1 61.61 ? C2 LDA 509 A 1 
HETATM 7 C C3 LDA . . . J 4 146.382 136.042 29.999 1 60 ? C3 LDA 509 A 1 
HETATM 8 C C4 LDA . . . J 4 145.726 134.904 30.79 1 58.6 ? C4 LDA 509 A 1 
HETATM 9 C C5 LDA . . . J 4 144.469 135.363 31.594 1 57.64 ? C5 LDA 509 A 1 
HETATM 10 C C6 LDA . . . J 4 144.109 134.337 32.688 1 61.78 ? C6 LDA 509 A 1 
HETATM 11 C C7 LDA . . . J 4 142.875 133.443 32.293 1 65.16 ? C7 LDA 509 A 1 
HETATM 12 C C8 LDA . . . J 4 142.273 132.703 33.462 1 67.99 ? C8 LDA 509 A 1 
HETATM 13 C C9 LDA . . . J 4 140.748 132.808 33.484 1 69.6 ? C9 LDA 509 A 1 
HETATM 14 C C10 LDA . . . J 4 140.119 131.976 34.588 1 69.63 ? C10 LDA 509 A 1 
HETATM 15 C C11 LDA . . . J 4 138.586 131.718 34.307 1 69.43 ? C11 LDA 509 A 1 
HETATM 16 C C12 LDA . . . J 4 137.831 131.109 35.527 1 69.5 ? C12 LDA 509 A 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           306 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           16 
#