data_6YU4
#
_model_server_result.job_id            xcUC-lDMSMBcioil3w-C-g 
_model_server_result.datetime_utc      '2024-11-22 18:18:12' 
_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          6yu4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":709}' 
#
_entry.id    6YU4 
#
_exptl.entry_id    6YU4 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              308.434 
_entity.id                          6 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            'octyl 1-thio-beta-D-glucopyranoside' 
_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          96.08 
_cell.angle_gamma         90 
_cell.entry_id            6YU4 
_cell.length_a            44.15 
_cell.length_b            49.85 
_cell.length_c            109.73 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6YU4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        3 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 2 1' 
#
_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 
_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
? 6 J N N 
? 6 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 O GLY 26 A GLY 24 1_555 B NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? 
metalc ? metalc2 A O ALA 28 A ALA 26 1_555 C NA NA . A NA 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? 
metalc ? metalc3 A O VAL 29 A VAL 27 1_555 B NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? 
metalc ? metalc4 A OD1 ASN 33 A ASN 31 1_555 C NA NA . A NA 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
metalc ? metalc5 A O THR 233 A THR 231 1_555 C NA NA . A NA 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.602 ? 
metalc ? metalc6 A OG1 THR 233 A THR 231 1_555 C NA NA . A NA 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? 
metalc ? metalc7 A OD1 ASP 265 A ASP 263 1_555 C NA NA . A NA 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.553 ? 
metalc ? metalc8 A O ALA 322 A ALA 320 1_555 B NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? 
metalc ? metalc9 A OG SER 325 A SER 323 1_555 B NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.514 ? 
metalc ? metalc10 A OG SER 326 A SER 324 1_555 B NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? 
metalc ? metalc11 B NA NA . A NA 701 1_555 N O HOH . A HOH 814 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? 
metalc ? metalc12 C NA NA . A NA 702 1_555 D OXT PFF . A PFF 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? 
#
_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 499 n n 
C1 S1 SOG sing 500 n n 
C1 O5 SOG sing 501 n n 
C1 H1 SOG sing 502 n n 
C2 C3 SOG sing 503 n n 
C2 O2 SOG sing 504 n n 
C2 H2 SOG sing 505 n n 
C3 C4 SOG sing 506 n n 
C3 O3 SOG sing 507 n n 
C3 H3 SOG sing 508 n n 
C4 C5 SOG sing 509 n n 
C4 O4 SOG sing 510 n n 
C4 H4 SOG sing 511 n n 
C5 C6 SOG sing 512 n n 
C5 O5 SOG sing 513 n n 
C5 H5 SOG sing 514 n n 
C6 O6 SOG sing 515 n n 
C6 H61 SOG sing 516 n n 
C6 H62 SOG sing 517 n n 
C1' C2' SOG sing 518 n n 
C1' S1 SOG sing 519 n n 
C1' "H1'1" SOG sing 520 n n 
C1' "H1'2" SOG sing 521 n n 
C2' C3' SOG sing 522 n n 
C2' "H2'1" SOG sing 523 n n 
C2' "H2'2" SOG sing 524 n n 
C3' C4' SOG sing 525 n n 
C3' "H3'1" SOG sing 526 n n 
C3' "H3'2" SOG sing 527 n n 
C4' C5' SOG sing 528 n n 
C4' "H4'1" SOG sing 529 n n 
C4' "H4'2" SOG sing 530 n n 
C5' C6' SOG sing 531 n n 
C5' "H5'1" SOG sing 532 n n 
C5' "H5'2" SOG sing 533 n n 
C6' C7' SOG sing 534 n n 
C6' "H6'1" SOG sing 535 n n 
C6' "H6'2" SOG sing 536 n n 
C7' C8' SOG sing 537 n n 
C7' "H7'1" SOG sing 538 n n 
C7' "H7'2" SOG sing 539 n n 
C8' "H8'1" SOG sing 540 n n 
C8' "H8'2" SOG sing 541 n n 
C8' "H8'3" SOG sing 542 n n 
O2 HO2 SOG sing 543 n n 
O3 HO3 SOG sing 544 n n 
O4 HO4 SOG sing 545 n n 
O6 HO6 SOG sing 546 n n 
#
_atom_sites.entry_id                     6YU4 
_atom_sites.fract_transf_matrix[1][1]    0.02265 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002412 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.02006 
_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]    0.009165 
_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 1 701 701 NA NA . 
C 2 NA A 1 702 702 NA NA . 
D 3 PFF A 1 703 601 PFF PFF . 
E 4 PCW A 1 704 801 PCW PCW . 
F 5 LMT A 1 705 1453 LMT LMT . 
G 5 LMT A 1 706 1454 LMT LMT . 
H 5 LMT A 1 707 1455 LMT LMT . 
I 5 LMT A 1 708 1456 LMT LMT . 
J 6 SOG A 1 709 1452 SOG SOG . 
K 6 SOG A 1 710 1453 SOG SOG . 
L 5 LMT A 1 711 1 LMT LMT . 
M 5 LMT A 1 712 2 LMT LMT . 
N 7 HOH A 1 801 36 HOH HOH . 
N 7 HOH A 2 802 11 HOH HOH . 
N 7 HOH A 3 803 34 HOH HOH . 
N 7 HOH A 4 804 12 HOH HOH . 
N 7 HOH A 5 805 3 HOH HOH . 
N 7 HOH A 6 806 18 HOH HOH . 
N 7 HOH A 7 807 1 HOH HOH . 
N 7 HOH A 8 808 30 HOH HOH . 
N 7 HOH A 9 809 5 HOH HOH . 
N 7 HOH A 10 810 26 HOH HOH . 
N 7 HOH A 11 811 6 HOH HOH . 
N 7 HOH A 12 812 20 HOH HOH . 
N 7 HOH A 13 813 13 HOH HOH . 
N 7 HOH A 14 814 38 HOH HOH . 
N 7 HOH A 15 815 22 HOH HOH . 
N 7 HOH A 16 816 8 HOH HOH . 
N 7 HOH A 17 817 9 HOH HOH . 
N 7 HOH A 18 818 10 HOH HOH . 
N 7 HOH A 19 819 27 HOH HOH . 
N 7 HOH A 20 820 29 HOH HOH . 
N 7 HOH A 21 821 21 HOH HOH . 
N 7 HOH A 22 822 7 HOH HOH . 
N 7 HOH A 23 823 33 HOH HOH . 
N 7 HOH A 24 824 17 HOH HOH . 
N 7 HOH A 25 825 23 HOH HOH . 
N 7 HOH A 26 826 31 HOH HOH . 
N 7 HOH A 27 827 35 HOH HOH . 
N 7 HOH A 28 828 16 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 C1 SOG . . . J 6 64.112 47.156 141.232 1 56.75 ? C1 SOG 709 A 1 
HETATM 2 C C2 SOG . . . J 6 64.938 47.884 140.184 1 57.48 ? C2 SOG 709 A 1 
HETATM 3 C C3 SOG . . . J 6 65.69 49.04 140.75 1 63.42 ? C3 SOG 709 A 1 
HETATM 4 C C4 SOG . . . J 6 64.884 49.919 141.667 1 65.01 ? C4 SOG 709 A 1 
HETATM 5 C C5 SOG . . . J 6 63.946 49.159 142.613 1 69.54 ? C5 SOG 709 A 1 
HETATM 6 C C6 SOG . . . J 6 62.976 50.128 143.223 1 68.18 ? C6 SOG 709 A 1 
HETATM 7 C C1' SOG . . . J 6 63.168 44.433 141.657 1 47.71 ? C1' SOG 709 A 1 
HETATM 8 C C2' SOG . . . J 6 62.302 43.298 141.114 1 46.47 ? C2' SOG 709 A 1 
HETATM 9 C C3' SOG . . . J 6 62.705 42.962 139.681 1 36.91 ? C3' SOG 709 A 1 
HETATM 10 C C4' SOG . . . J 6 63.202 41.517 139.625 1 28.95 ? C4' SOG 709 A 1 
HETATM 11 C C5' SOG . . . J 6 62.774 40.878 138.305 1 34.03 ? C5' SOG 709 A 1 
HETATM 12 C C6' SOG . . . J 6 63.674 39.687 137.978 1 42.14 ? C6' SOG 709 A 1 
HETATM 13 C C7' SOG . . . J 6 62.877 38.646 137.194 1 39.79 ? C7' SOG 709 A 1 
HETATM 14 C C8' SOG . . . J 6 63.447 38.502 135.784 1 36.89 ? C8' SOG 709 A 1 
HETATM 15 S S1 SOG . . . J 6 63.187 45.832 140.5 1 59.91 ? S1 SOG 709 A 1 
HETATM 16 O O2 SOG . . . J 6 65.886 46.94 139.651 1 60.24 ? O2 SOG 709 A 1 
HETATM 17 O O3 SOG . . . J 6 66.193 49.848 139.643 1 47.18 ? O3 SOG 709 A 1 
HETATM 18 O O4 SOG . . . J 6 65.776 50.715 142.463 1 65.76 ? O4 SOG 709 A 1 
HETATM 19 O O5 SOG . . . J 6 63.185 48.098 141.929 1 72.52 ? O5 SOG 709 A 1 
HETATM 20 O O6 SOG . . . J 6 61.693 49.561 143.257 1 63.52 ? O6 SOG 709 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           29 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           264 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           20 
#