data_6TP3
#
_model_server_result.job_id            Vfxscf7HrKWoVNOT6dYdoQ 
_model_server_result.datetime_utc      '2024-11-21 13:39:36' 
_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          6tp3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"Q","auth_seq_id":404}' 
#
_entry.id    6TP3 
#
_exptl.entry_id    6TP3 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              308.434 
_entity.id                          5 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            'octyl 1-thio-beta-D-glucopyranoside' 
_entity.pdbx_number_of_molecules    14 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          109.55 
_cell.angle_gamma         90 
_cell.entry_id            6TP3 
_cell.length_a            61.223 
_cell.length_b            146.423 
_cell.length_c            73.6 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6TP3 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,E,F,G,H,I,J,K,L,M 1 1 
B,N,O,P,Q,R,S,T,U,V,W 2 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
? 5 G N N 
? 5 H N N 
? 5 I N N 
? 5 J N N 
? 5 K N N 
? 5 L N N 
? 5 M N N 
? 5 Q N N 
? 5 R N N 
? 5 S N N 
? 5 T N N 
? 5 U N N 
? 5 V N N 
? 5 W 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 95 A CYS 119 1_555 A SG CYS 178 A CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
disulf ? disulf2 B SG CYS 95 B CYS 119 1_555 B SG CYS 178 B CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
#
_chem_comp.formula           'C14 H28 O5 S' 
_chem_comp.formula_weight    308.434 
_chem_comp.id                SOG 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'octyl 1-thio-beta-D-glucopyranoside' 
_chem_comp.type              d-saccharide 
_chem_comp.pdbx_synonyms     '2-HYDROXYMETHYL-6-OCTYLSULFANYL-TETRAHYDRO-PYRAN-3,4,5-TRIOL;1-S-OCTYL-BETA-D-THIOGLUCOSIDE;octyl 1-thio-beta-D-glucoside;octyl 1-thio-D-glucoside;octyl 1-thio-glucoside' 
#
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
C1 C2 SOG sing 478 n n 
C1 S1 SOG sing 479 n n 
C1 O5 SOG sing 480 n n 
C1 H1 SOG sing 481 n n 
C2 C3 SOG sing 482 n n 
C2 O2 SOG sing 483 n n 
C2 H2 SOG sing 484 n n 
C3 C4 SOG sing 485 n n 
C3 O3 SOG sing 486 n n 
C3 H3 SOG sing 487 n n 
C4 C5 SOG sing 488 n n 
C4 O4 SOG sing 489 n n 
C4 H4 SOG sing 490 n n 
C5 C6 SOG sing 491 n n 
C5 O5 SOG sing 492 n n 
C5 H5 SOG sing 493 n n 
C6 O6 SOG sing 494 n n 
C6 H61 SOG sing 495 n n 
C6 H62 SOG sing 496 n n 
C1' C2' SOG sing 497 n n 
C1' S1 SOG sing 498 n n 
C1' "H1'1" SOG sing 499 n n 
C1' "H1'2" SOG sing 500 n n 
C2' C3' SOG sing 501 n n 
C2' "H2'1" SOG sing 502 n n 
C2' "H2'2" SOG sing 503 n n 
C3' C4' SOG sing 504 n n 
C3' "H3'1" SOG sing 505 n n 
C3' "H3'2" SOG sing 506 n n 
C4' C5' SOG sing 507 n n 
C4' "H4'1" SOG sing 508 n n 
C4' "H4'2" SOG sing 509 n n 
C5' C6' SOG sing 510 n n 
C5' "H5'1" SOG sing 511 n n 
C5' "H5'2" SOG sing 512 n n 
C6' C7' SOG sing 513 n n 
C6' "H6'1" SOG sing 514 n n 
C6' "H6'2" SOG sing 515 n n 
C7' C8' SOG sing 516 n n 
C7' "H7'1" SOG sing 517 n n 
C7' "H7'2" SOG sing 518 n n 
C8' "H8'1" SOG sing 519 n n 
C8' "H8'2" SOG sing 520 n n 
C8' "H8'3" SOG sing 521 n n 
O2 HO2 SOG sing 522 n n 
O3 HO3 SOG sing 523 n n 
O4 HO4 SOG sing 524 n n 
O6 HO6 SOG sing 525 n n 
#
_atom_sites.entry_id                     6TP3 
_atom_sites.fract_transf_matrix[1][1]    0.016334 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.0058 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00683 
_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]    0.014418 
_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
C 2 NS2 A 1 401 401 NS2 UNL . 
D 3 SO4 A 1 402 1 SO4 SO4 . 
E 3 SO4 A 1 403 2 SO4 SO4 . 
F 4 PGW A 1 404 2 PGW PGW . 
G 5 SOG A 1 405 1 SOG SOG . 
H 5 SOG A 1 406 3 SOG SOG . 
I 5 SOG A 1 407 4 SOG SOG . 
J 5 SOG A 1 408 8 SOG SOG . 
K 5 SOG A 1 409 15 SOG SOG . 
L 5 SOG A 1 410 16 SOG SOG . 
M 5 SOG A 1 411 17 SOG SOG . 
N 2 NS2 B 1 401 401 NS2 UNL . 
O 3 SO4 B 1 402 3 SO4 SO4 . 
P 4 PGW B 1 403 1 PGW PGW . 
Q 5 SOG B 1 404 6 SOG SOG . 
R 5 SOG B 1 405 7 SOG SOG . 
S 5 SOG B 1 406 10 SOG SOG . 
T 5 SOG B 1 407 11 SOG SOG . 
U 5 SOG B 1 408 12 SOG SOG . 
V 5 SOG B 1 409 13 SOG SOG . 
W 5 SOG B 1 410 14 SOG SOG . 
#
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 SOG . . . Q 5 -44.508 40.736 -10.091 1 155.4 ? C1 SOG 404 B 1 
HETATM 2 C C2 SOG . . . Q 5 -45.784 40.346 -9.305 1 154.76 ? C2 SOG 404 B 1 
HETATM 3 C C3 SOG . . . Q 5 -45.956 38.836 -9.136 1 153.71 ? C3 SOG 404 B 1 
HETATM 4 C C4 SOG . . . Q 5 -44.697 38.117 -8.634 1 152.91 ? C4 SOG 404 B 1 
HETATM 5 C C5 SOG . . . Q 5 -43.347 38.78 -8.973 1 152.2 ? C5 SOG 404 B 1 
HETATM 6 C C6 SOG . . . Q 5 -42.332 37.736 -9.446 1 150.85 ? C6 SOG 404 B 1 
HETATM 7 C C1' SOG . . . Q 5 -44.401 42.475 -12.294 1 150.85 ? C1' SOG 404 B 1 
HETATM 8 C C2' SOG . . . Q 5 -45.375 42.949 -13.375 1 147.26 ? C2' SOG 404 B 1 
HETATM 9 C C3' SOG . . . Q 5 -44.71 43.618 -14.57 1 144.01 ? C3' SOG 404 B 1 
HETATM 10 C C4' SOG . . . Q 5 -45.071 42.897 -15.864 1 141.86 ? C4' SOG 404 B 1 
HETATM 11 C C5' SOG . . . Q 5 -44.732 43.777 -17.063 1 140.67 ? C5' SOG 404 B 1 
HETATM 12 C C6' SOG . . . Q 5 -44.168 42.971 -18.23 1 140.68 ? C6' SOG 404 B 1 
HETATM 13 C C7' SOG . . . Q 5 -42.639 42.988 -18.256 1 141.07 ? C7' SOG 404 B 1 
HETATM 14 C C8' SOG . . . Q 5 -42.08 43.366 -19.614 1 140.93 ? C8' SOG 404 B 1 
HETATM 15 S S1 SOG . . . Q 5 -44.866 40.838 -11.826 1 155.39 ? S1 SOG 404 B 1 
HETATM 16 O O2 SOG . . . Q 5 -45.871 40.995 -8.018 1 154.39 ? O2 SOG 404 B 1 
HETATM 17 O O3 SOG . . . Q 5 -46.464 38.248 -10.345 1 153.46 ? O3 SOG 404 B 1 
HETATM 18 O O4 SOG . . . Q 5 -44.814 37.959 -7.216 1 152.86 ? O4 SOG 404 B 1 
HETATM 19 O O5 SOG . . . Q 5 -43.389 39.828 -9.96 1 153.84 ? O5 SOG 404 B 1 
HETATM 20 O O6 SOG . . . Q 5 -41.228 38.342 -10.135 1 149.11 ? O6 SOG 404 B 1 
#
_model_server_stats.io_time_ms              93 
_model_server_stats.parse_time_ms           50 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           1133 
_model_server_stats.encode_time_ms          15 
_model_server_stats.element_count           20 
#