data_3GJD
#
_model_server_result.job_id            YWYzOB5ekXt-ACcBI1aCkg 
_model_server_result.datetime_utc      '2024-10-25 20:26:54' 
_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          3gjd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":701}' 
#
_entry.id    3GJD 
#
_exptl.entry_id    3GJD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              292.369 
_entity.id                          5 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            'octyl beta-D-glucopyranoside' 
_entity.pdbx_number_of_molecules    6 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          95.63 
_cell.angle_gamma         90 
_cell.entry_id            3GJD 
_cell.length_a            87.51 
_cell.length_b            86.57 
_cell.length_c            81.29 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3GJD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 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 
PISA dimeric 2 software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H,I,J,K,L 1 1 
A,B,C,D,E,F,G,H,I,J,K,L 2 1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_656 -x+1,y,-z+1 -1 0 0 0 1 0 0 0 -1 79.535127 0 80.897871 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 5 F N N 
? 5 G N N 
? 5 H N N 
? 5 I N N 
? 5 J N N 
? 5 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 20 A GLY 20 1_555 B NA NA . A NA 516 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? 
metalc ? metalc2 A O ALA 22 A ALA 22 1_555 C NA NA . A NA 517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? 
metalc ? metalc3 A O VAL 23 A VAL 23 1_555 B NA NA . A NA 516 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? 
metalc ? metalc4 A OD1 ASN 27 A ASN 27 1_555 C NA NA . A NA 517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? 
metalc ? metalc5 A O THR 254 A THR 254 1_555 C NA NA . A NA 517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? 
metalc ? metalc6 A OG1 THR 254 A THR 254 1_555 C NA NA . A NA 517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.632 ? 
metalc ? metalc7 A OD1 ASN 286 A ASN 286 1_555 C NA NA . A NA 517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.623 ? 
metalc ? metalc8 A O ALA 351 A ALA 351 1_555 B NA NA . A NA 516 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? 
metalc ? metalc9 A OG1 THR 354 A THR 354 1_555 B NA NA . A NA 516 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? 
metalc ? metalc10 A N SER 355 A SER 355 1_555 B NA NA . A NA 516 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.985 ? 
metalc ? metalc11 A OG SER 355 A SER 355 1_555 B NA NA . A NA 516 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.656 ? 
metalc ? metalc12 C NA NA . A NA 517 1_555 E OXT LEU . A LEU 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.646 ? 
#
_chem_comp.formula           'C14 H28 O6' 
_chem_comp.formula_weight    292.369 
_chem_comp.id                BOG 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              'octyl beta-D-glucopyranoside' 
_chem_comp.type              d-saccharide 
_chem_comp.pdbx_synonyms     'Beta-Octylglucoside;octyl beta-D-glucoside;octyl D-glucoside;octyl 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 O1 BOG sing 70 n n 
C1 C2 BOG sing 71 n n 
C1 O5 BOG sing 72 n n 
C1 H1 BOG sing 73 n n 
O1 C1' BOG sing 74 n n 
C2 O2 BOG sing 75 n n 
C2 C3 BOG sing 76 n n 
C2 H2 BOG sing 77 n n 
O2 HO2 BOG sing 78 n n 
C3 O3 BOG sing 79 n n 
C3 C4 BOG sing 80 n n 
C3 H3 BOG sing 81 n n 
O3 HO3 BOG sing 82 n n 
C4 O4 BOG sing 83 n n 
C4 C5 BOG sing 84 n n 
C4 H4 BOG sing 85 n n 
O4 HO4 BOG sing 86 n n 
C5 O5 BOG sing 87 n n 
C5 C6 BOG sing 88 n n 
C5 H5 BOG sing 89 n n 
C6 O6 BOG sing 90 n n 
C6 H61 BOG sing 91 n n 
C6 H62 BOG sing 92 n n 
O6 HO6 BOG sing 93 n n 
C1' C2' BOG sing 94 n n 
C1' "H1'1" BOG sing 95 n n 
C1' "H1'2" BOG sing 96 n n 
C2' C3' BOG sing 97 n n 
C2' "H2'1" BOG sing 98 n n 
C2' "H2'2" BOG sing 99 n n 
C3' C4' BOG sing 100 n n 
C3' "H3'1" BOG sing 101 n n 
C3' "H3'2" BOG sing 102 n n 
C4' C5' BOG sing 103 n n 
C4' "H4'1" BOG sing 104 n n 
C4' "H4'2" BOG sing 105 n n 
C5' C6' BOG sing 106 n n 
C5' "H5'1" BOG sing 107 n n 
C5' "H5'2" BOG sing 108 n n 
C6' C7' BOG sing 109 n n 
C6' "H6'1" BOG sing 110 n n 
C6' "H6'2" BOG sing 111 n n 
C7' C8' BOG sing 112 n n 
C7' "H7'1" BOG sing 113 n n 
C7' "H7'2" BOG sing 114 n n 
C8' "H8'1" BOG sing 115 n n 
C8' "H8'2" BOG sing 116 n n 
C8' "H8'3" BOG sing 117 n n 
#
_pdbx_chem_comp_identifier.comp_id            BOG 
_pdbx_chem_comp_identifier.identifier         b-octylglucoside 
_pdbx_chem_comp_identifier.type               'IUPAC CARBOHYDRATE SYMBOL' 
_pdbx_chem_comp_identifier.program            PDB-CARE 
_pdbx_chem_comp_identifier.program_version    1 
#
_atom_sites.entry_id                     3GJD 
_atom_sites.fract_transf_matrix[1][1]    0.011427 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001127 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011551 
_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]    0.012361 
_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 1 516 1 NA NA . 
C 2 NA A 1 517 2 NA NA . 
D 3 CL A 1 518 3 CL CL . 
E 4 LEU A 1 519 4 LEU LEU . 
F 5 BOG A 1 701 701 BOG BOG . 
G 5 BOG A 1 702 702 BOG BOG . 
H 5 BOG A 1 703 703 BOG BOG . 
I 5 BOG A 1 704 704 BOG BOG . 
J 5 BOG A 1 705 705 BOG BOG . 
K 5 BOG A 1 706 706 BOG C8 . 
L 6 HOH A 1 520 1 HOH HOH . 
L 6 HOH A 2 521 2 HOH HOH . 
L 6 HOH A 3 522 3 HOH HOH . 
L 6 HOH A 4 523 4 HOH HOH . 
L 6 HOH A 5 524 5 HOH HOH . 
L 6 HOH A 6 525 6 HOH HOH . 
L 6 HOH A 7 526 7 HOH HOH . 
L 6 HOH A 8 527 8 HOH HOH . 
L 6 HOH A 9 528 9 HOH HOH . 
L 6 HOH A 10 529 10 HOH HOH . 
L 6 HOH A 11 530 11 HOH HOH . 
L 6 HOH A 12 531 12 HOH HOH . 
L 6 HOH A 13 532 13 HOH HOH . 
L 6 HOH A 14 533 14 HOH HOH . 
L 6 HOH A 15 534 15 HOH HOH . 
L 6 HOH A 16 535 16 HOH HOH . 
L 6 HOH A 17 536 17 HOH HOH . 
L 6 HOH A 18 537 18 HOH HOH . 
L 6 HOH A 19 538 19 HOH HOH . 
L 6 HOH A 20 539 20 HOH HOH . 
L 6 HOH A 21 540 21 HOH HOH . 
L 6 HOH A 22 541 22 HOH HOH . 
L 6 HOH A 23 542 23 HOH HOH . 
L 6 HOH A 24 543 24 HOH HOH . 
L 6 HOH A 25 544 25 HOH HOH . 
L 6 HOH A 26 545 26 HOH HOH . 
L 6 HOH A 27 546 27 HOH HOH . 
L 6 HOH A 28 547 28 HOH HOH . 
L 6 HOH A 29 548 29 HOH HOH . 
L 6 HOH A 30 549 30 HOH HOH . 
L 6 HOH A 31 550 31 HOH HOH . 
L 6 HOH A 32 551 32 HOH HOH . 
L 6 HOH A 33 552 33 HOH HOH . 
L 6 HOH A 34 553 34 HOH HOH . 
L 6 HOH A 35 554 35 HOH HOH . 
L 6 HOH A 36 555 36 HOH HOH . 
L 6 HOH A 37 556 37 HOH HOH . 
L 6 HOH A 38 557 38 HOH HOH . 
L 6 HOH A 39 558 39 HOH HOH . 
L 6 HOH A 40 559 40 HOH HOH . 
L 6 HOH A 41 560 41 HOH HOH . 
L 6 HOH A 42 561 42 HOH HOH . 
L 6 HOH A 43 562 43 HOH HOH . 
L 6 HOH A 44 563 44 HOH HOH . 
L 6 HOH A 45 564 45 HOH HOH . 
L 6 HOH A 46 565 46 HOH HOH . 
L 6 HOH A 47 566 47 HOH HOH . 
L 6 HOH A 48 567 48 HOH HOH . 
L 6 HOH A 49 568 49 HOH HOH . 
L 6 HOH A 50 569 50 HOH HOH . 
L 6 HOH A 51 570 51 HOH HOH . 
L 6 HOH A 52 571 52 HOH HOH . 
L 6 HOH A 53 572 53 HOH HOH . 
L 6 HOH A 54 573 54 HOH HOH . 
L 6 HOH A 55 574 55 HOH HOH . 
L 6 HOH A 56 575 56 HOH HOH . 
L 6 HOH A 57 576 57 HOH HOH . 
L 6 HOH A 58 577 58 HOH HOH . 
L 6 HOH A 59 578 59 HOH HOH . 
L 6 HOH A 60 579 60 HOH HOH . 
L 6 HOH A 61 580 61 HOH HOH . 
L 6 HOH A 62 581 62 HOH HOH . 
L 6 HOH A 63 582 63 HOH HOH . 
L 6 HOH A 64 583 64 HOH HOH . 
L 6 HOH A 65 584 65 HOH HOH . 
L 6 HOH A 66 585 66 HOH HOH . 
L 6 HOH A 67 586 67 HOH HOH . 
L 6 HOH A 68 587 68 HOH HOH . 
L 6 HOH A 69 588 69 HOH HOH . 
L 6 HOH A 70 589 70 HOH HOH . 
L 6 HOH A 71 590 71 HOH HOH . 
L 6 HOH A 72 591 72 HOH HOH . 
L 6 HOH A 73 592 73 HOH HOH . 
L 6 HOH A 74 593 74 HOH HOH . 
L 6 HOH A 75 594 75 HOH HOH . 
L 6 HOH A 76 595 76 HOH HOH . 
L 6 HOH A 77 596 77 HOH HOH . 
L 6 HOH A 78 597 78 HOH HOH . 
L 6 HOH A 79 598 79 HOH HOH . 
L 6 HOH A 80 599 80 HOH HOH . 
L 6 HOH A 81 600 81 HOH HOH . 
L 6 HOH A 82 601 82 HOH HOH . 
L 6 HOH A 83 602 83 HOH HOH . 
L 6 HOH A 84 603 84 HOH HOH . 
L 6 HOH A 85 604 85 HOH HOH . 
L 6 HOH A 86 605 86 HOH HOH . 
L 6 HOH A 87 606 87 HOH HOH . 
L 6 HOH A 88 607 88 HOH HOH . 
L 6 HOH A 89 608 89 HOH HOH . 
L 6 HOH A 90 609 90 HOH HOH . 
L 6 HOH A 91 610 91 HOH HOH . 
L 6 HOH A 92 611 92 HOH HOH . 
L 6 HOH A 93 612 93 HOH HOH . 
L 6 HOH A 94 613 94 HOH HOH . 
L 6 HOH A 95 614 95 HOH HOH . 
L 6 HOH A 96 615 96 HOH HOH . 
L 6 HOH A 97 616 97 HOH HOH . 
L 6 HOH A 98 617 98 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 BOG . . . F 5 -0.566 41.571 12.617 1 70.26 ? C1 BOG 701 A 1 
HETATM 2 O O1 BOG . . . F 5 -0.175 40.303 13.078 1 72.16 ? O1 BOG 701 A 1 
HETATM 3 C C2 BOG . . . F 5 -2.079 41.609 12.318 1 76.15 ? C2 BOG 701 A 1 
HETATM 4 O O2 BOG . . . F 5 -2.299 40.859 11.152 1 82.23 ? O2 BOG 701 A 1 
HETATM 5 C C3 BOG . . . F 5 -2.638 43.037 12.089 1 62.88 ? C3 BOG 701 A 1 
HETATM 6 O O3 BOG . . . F 5 -3.982 43.05 12.501 1 62.94 ? O3 BOG 701 A 1 
HETATM 7 C C4 BOG . . . F 5 -1.896 44.166 12.85 1 60.65 ? C4 BOG 701 A 1 
HETATM 8 O O4 BOG . . . F 5 -1.985 45.346 12.092 1 62.49 ? O4 BOG 701 A 1 
HETATM 9 C C5 BOG . . . F 5 -0.395 43.887 13.09 1 63.44 ? C5 BOG 701 A 1 
HETATM 10 O O5 BOG . . . F 5 -0.155 42.561 13.568 1 62.94 ? O5 BOG 701 A 1 
HETATM 11 C C6 BOG . . . F 5 0.208 44.918 14.068 1 56.19 ? C6 BOG 701 A 1 
HETATM 12 O O6 BOG . . . F 5 -0.319 44.722 15.354 1 45.29 ? O6 BOG 701 A 1 
HETATM 13 C C1' BOG . . . F 5 1.197 39.999 13.079 1 70.32 ? C1' BOG 701 A 1 
HETATM 14 C C2' BOG . . . F 5 1.408 38.509 13.374 1 66.92 ? C2' BOG 701 A 1 
HETATM 15 C C3' BOG . . . F 5 1.978 38.331 14.787 1 67.11 ? C3' BOG 701 A 1 
HETATM 16 C C4' BOG . . . F 5 2.419 36.869 14.943 1 68.06 ? C4' BOG 701 A 1 
HETATM 17 C C5' BOG . . . F 5 3.164 36.678 16.273 1 72.08 ? C5' BOG 701 A 1 
HETATM 18 C C6' BOG . . . F 5 2.293 35.85 17.228 1 76.8 ? C6' BOG 701 A 1 
HETATM 19 C C7' BOG . . . F 5 3.128 35.422 18.446 1 75.11 ? C7' BOG 701 A 1 
HETATM 20 C C8' BOG . . . F 5 2.202 34.732 19.454 1 79.96 ? C8' BOG 701 A 1 
#
_model_server_stats.io_time_ms              69 
_model_server_stats.parse_time_ms           153 
_model_server_stats.create_model_time_ms    18 
_model_server_stats.query_time_ms           286 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           20 
#