data_5OKD # _model_server_result.job_id y5qEj1fm9m9HaMED-VTXBA _model_server_result.datetime_utc '2025-02-17 07:35:10' _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 5okd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":405}' # _entry.id 5OKD # _exptl.entry_id 5OKD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 510.615 _entity.id 16 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description DODECYL-BETA-D-MALTOSIDE _entity.pdbx_number_of_molecules 1 _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 120 _cell.entry_id 5OKD _cell.length_a 209.871 _cell.length_b 209.871 _cell.length_c 342.097 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5OKD _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details decameric _pdbx_struct_assembly.oligomeric_count 10 _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,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA _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 # _struct_asym.details ? _struct_asym.entity_id 16 _struct_asym.id Q _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 E SG CYS 144 E CYS 144 1_555 E SG CYS 160 E CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 H SG CYS 37 H CYS 24 1_555 H SG CYS 81 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf3 H SG CYS 53 H CYS 40 1_555 H SG CYS 67 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc1 C NE2 HIS 83 C HIS 83 1_555 N FE HEM . C HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.261 ? metalc ? metalc2 C NE2 HIS 97 C HIS 97 1_555 O FE HEM . C HEM 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc3 C NE2 HIS 182 C HIS 182 1_555 N FE HEM . C HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc4 C NE2 HIS 196 C HIS 196 1_555 O FE HEM . C HEM 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc5 D NE2 HIS 125 D HIS 41 1_555 V FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.216 ? metalc ? metalc6 D SD MET 244 D MET 160 1_555 V FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? # _chem_comp.formula 'C24 H46 O11' _chem_comp.formula_weight 510.615 _chem_comp.id LMT _chem_comp.mon_nstd_flag . _chem_comp.name DODECYL-BETA-D-MALTOSIDE _chem_comp.type d-saccharide _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 C1B C2B LMT sing 729 n n C1B O1B LMT sing 730 n n C1B O5B LMT sing 731 n n C1B H1B LMT sing 732 n n C2B C3B LMT sing 733 n n C2B O2B LMT sing 734 n n C2B H2B LMT sing 735 n n C3B C4B LMT sing 736 n n C3B O3B LMT sing 737 n n C3B H3B LMT sing 738 n n C4B C5B LMT sing 739 n n C4B O4' LMT sing 740 n n C4B H4B LMT sing 741 n n C5B C6B LMT sing 742 n n C5B O5B LMT sing 743 n n C5B H5B LMT sing 744 n n C6B O6B LMT sing 745 n n C6B "H6'2" LMT sing 746 n n C6B "H6'1" LMT sing 747 n n O1B C4' LMT sing 748 n n O2B H2O1 LMT sing 749 n n O3B H3O1 LMT sing 750 n n O4' H4O1 LMT sing 751 n n O6B H6B LMT sing 752 n n C1' C2' LMT sing 753 n n C1' O1' LMT sing 754 n n C1' O5' LMT sing 755 n n C1' H1' LMT sing 756 n n C2' C3' LMT sing 757 n n C2' O2' LMT sing 758 n n C2' H2' LMT sing 759 n n C3' C4' LMT sing 760 n n C3' O3' LMT sing 761 n n C3' H3' LMT sing 762 n n C4' C5' LMT sing 763 n n C4' H4' LMT sing 764 n n C5' C6' LMT sing 765 n n C5' O5' LMT sing 766 n n C5' H5' LMT sing 767 n n C6' O6' LMT sing 768 n n C6' H6D LMT sing 769 n n C6' H6E LMT sing 770 n n O1' C1 LMT sing 771 n n O2' H2O2 LMT sing 772 n n O3' H3O2 LMT sing 773 n n O6' H6' LMT sing 774 n n C1 C2 LMT sing 775 n n C1 H12 LMT sing 776 n n C1 H11 LMT sing 777 n n C2 C3 LMT sing 778 n n C2 H22 LMT sing 779 n n C2 H21 LMT sing 780 n n C3 C4 LMT sing 781 n n C3 H32 LMT sing 782 n n C3 H31 LMT sing 783 n n C4 C5 LMT sing 784 n n C4 H42 LMT sing 785 n n C4 H41 LMT sing 786 n n C5 C6 LMT sing 787 n n C5 H52 LMT sing 788 n n C5 H51 LMT sing 789 n n C6 C7 LMT sing 790 n n C6 H62 LMT sing 791 n n C6 H61 LMT sing 792 n n C7 C8 LMT sing 793 n n C7 H72 LMT sing 794 n n C7 H71 LMT sing 795 n n C8 C9 LMT sing 796 n n C8 H82 LMT sing 797 n n C8 H81 LMT sing 798 n n C9 C10 LMT sing 799 n n C9 H92 LMT sing 800 n n C9 H91 LMT sing 801 n n C10 C11 LMT sing 802 n n C10 H102 LMT sing 803 n n C10 H101 LMT sing 804 n n C11 C12 LMT sing 805 n n C11 H112 LMT sing 806 n n C11 H111 LMT sing 807 n n C12 H123 LMT sing 808 n n C12 H122 LMT sing 809 n n C12 H121 LMT sing 810 n n # _atom_sites.entry_id 5OKD _atom_sites.fract_transf_matrix[1][1] 0.004765 _atom_sites.fract_transf_matrix[1][2] 0.002751 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005502 _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] 0.002923 _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 K 11 PG4 A 1 501 503 PG4 PG4 . L 12 6PE A 1 502 1 6PE 6PE . M 13 CDL C 1 401 502 CDL CDL . N 14 HEM C 1 402 501 HEM HEM . O 14 HEM C 1 403 502 HEM HEM . P 15 9XE C 1 404 503 9XE SCK . Q 16 LMT C 1 405 506 LMT LMT . R 11 PG4 C 1 406 507 PG4 PG4 . S 11 PG4 C 1 407 508 PG4 PG4 . T 13 CDL C 1 408 501 CDL CDL . U 17 PEE C 1 409 1 PEE PEE . V 18 HEC D 1 501 501 HEC HEC . W 19 PO4 D 1 502 503 PO4 PO4 . X 13 CDL D 1 503 504 CDL CDL . Y 20 FES E 1 201 200 FES FES . Z 21 PX4 E 1 202 202 PX4 PX4 . AA 19 PO4 E 1 203 504 PO4 PO4 . BA 17 PEE E 1 204 2 PEE PEE . CA 13 CDL E 1 205 1 CDL CDL . DA 19 PO4 F 1 501 501 PO4 PO4 . EA 19 PO4 G 1 101 502 PO4 PO4 . FA 19 PO4 G 1 102 503 PO4 PO4 . GA 19 PO4 G 1 103 1 PO4 PO4 . HA 22 HOH A 1 601 111 HOH HOH . HA 22 HOH A 2 602 44 HOH HOH . HA 22 HOH A 3 603 51 HOH HOH . HA 22 HOH A 4 604 46 HOH HOH . HA 22 HOH A 5 605 64 HOH HOH . HA 22 HOH A 6 606 63 HOH HOH . HA 22 HOH A 7 607 54 HOH HOH . HA 22 HOH A 8 608 53 HOH HOH . HA 22 HOH A 9 609 36 HOH HOH . HA 22 HOH A 10 610 8 HOH HOH . HA 22 HOH A 11 611 17 HOH HOH . HA 22 HOH A 12 612 92 HOH HOH . HA 22 HOH A 13 613 56 HOH HOH . HA 22 HOH A 14 614 82 HOH HOH . HA 22 HOH A 15 615 87 HOH HOH . IA 22 HOH B 1 501 57 HOH HOH . IA 22 HOH B 2 502 5 HOH HOH . IA 22 HOH B 3 503 25 HOH HOH . IA 22 HOH B 4 504 27 HOH HOH . IA 22 HOH B 5 505 26 HOH HOH . IA 22 HOH B 6 506 91 HOH HOH . IA 22 HOH B 7 507 105 HOH HOH . IA 22 HOH B 8 508 30 HOH HOH . IA 22 HOH B 9 509 94 HOH HOH . IA 22 HOH B 10 510 47 HOH HOH . IA 22 HOH B 11 511 110 HOH HOH . IA 22 HOH B 12 512 100 HOH HOH . JA 22 HOH C 1 501 11 HOH HOH . JA 22 HOH C 2 502 10 HOH HOH . JA 22 HOH C 3 503 43 HOH HOH . JA 22 HOH C 4 504 55 HOH HOH . JA 22 HOH C 5 505 12 HOH HOH . JA 22 HOH C 6 506 41 HOH HOH . JA 22 HOH C 7 507 22 HOH HOH . JA 22 HOH C 8 508 67 HOH HOH . JA 22 HOH C 9 509 23 HOH HOH . JA 22 HOH C 10 510 33 HOH HOH . JA 22 HOH C 11 511 108 HOH HOH . JA 22 HOH C 12 512 31 HOH HOH . JA 22 HOH C 13 513 37 HOH HOH . JA 22 HOH C 14 514 101 HOH HOH . JA 22 HOH C 15 515 83 HOH HOH . JA 22 HOH C 16 516 104 HOH HOH . JA 22 HOH C 17 517 72 HOH HOH . JA 22 HOH C 18 518 71 HOH HOH . JA 22 HOH C 19 519 70 HOH HOH . JA 22 HOH C 20 520 95 HOH HOH . JA 22 HOH C 21 521 81 HOH HOH . JA 22 HOH C 22 522 103 HOH HOH . JA 22 HOH C 23 523 77 HOH HOH . JA 22 HOH C 24 524 79 HOH HOH . JA 22 HOH C 25 525 84 HOH HOH . JA 22 HOH C 26 526 106 HOH HOH . JA 22 HOH C 27 527 109 HOH HOH . KA 22 HOH D 1 601 49 HOH HOH . KA 22 HOH D 2 602 86 HOH HOH . KA 22 HOH D 3 603 90 HOH HOH . KA 22 HOH D 4 604 48 HOH HOH . KA 22 HOH D 5 605 96 HOH HOH . LA 22 HOH E 1 301 85 HOH HOH . LA 22 HOH E 2 302 99 HOH HOH . LA 22 HOH E 3 303 59 HOH HOH . LA 22 HOH E 4 304 9 HOH HOH . LA 22 HOH E 5 305 60 HOH HOH . LA 22 HOH E 6 306 21 HOH HOH . MA 22 HOH F 1 601 39 HOH HOH . MA 22 HOH F 2 602 58 HOH HOH . MA 22 HOH F 3 603 66 HOH HOH . MA 22 HOH F 4 604 88 HOH HOH . MA 22 HOH F 5 605 45 HOH HOH . MA 22 HOH F 6 606 28 HOH HOH . MA 22 HOH F 7 607 107 HOH HOH . MA 22 HOH F 8 608 73 HOH HOH . NA 22 HOH G 1 201 40 HOH HOH . NA 22 HOH G 2 202 50 HOH HOH . NA 22 HOH G 3 203 98 HOH HOH . NA 22 HOH G 4 204 52 HOH HOH . NA 22 HOH G 5 205 102 HOH HOH . OA 22 HOH H 1 101 65 HOH HOH . PA 22 HOH J 1 101 24 HOH HOH . PA 22 HOH J 2 102 18 HOH HOH . PA 22 HOH J 3 103 89 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 C1B LMT . . . Q 16 -40.566 -74.22 68.846 1 168.62 ? C1B LMT 405 C 1 HETATM 2 C C2B LMT . . . Q 16 -40.562 -75.543 68.058 1 167.46 ? C2B LMT 405 C 1 HETATM 3 C C3B LMT . . . Q 16 -41.881 -75.831 67.349 1 163.47 ? C3B LMT 405 C 1 HETATM 4 C C4B LMT . . . Q 16 -43.039 -75.697 68.328 1 162.75 ? C4B LMT 405 C 1 HETATM 5 C C5B LMT . . . Q 16 -43.076 -74.263 68.831 1 161.15 ? C5B LMT 405 C 1 HETATM 6 C C6B LMT . . . Q 16 -44.204 -74.055 69.836 1 158.46 ? C6B LMT 405 C 1 HETATM 7 O O1B LMT . . . Q 16 -40.126 -73.117 68.027 1 166.52 ? O1B LMT 405 C 1 HETATM 8 O O2B LMT . . . Q 16 -39.506 -75.551 67.086 1 168.34 ? O2B LMT 405 C 1 HETATM 9 O O3B LMT . . . Q 16 -41.835 -77.144 66.782 1 163.06 ? O3B LMT 405 C 1 HETATM 10 O O4' LMT . . . Q 16 -44.278 -76.025 67.693 1 162.18 ? O4' LMT 405 C 1 HETATM 11 O O5B LMT . . . Q 16 -41.839 -73.927 69.474 1 167.34 ? O5B LMT 405 C 1 HETATM 12 O O6B LMT . . . Q 16 -45.472 -74.22 69.203 1 151.98 ? O6B LMT 405 C 1 HETATM 13 C C1' LMT . . . Q 16 -38.949 -69.223 69.335 1 168.38 ? C1' LMT 405 C 1 HETATM 14 C C2' LMT . . . Q 16 -38.208 -70.453 69.881 1 170.05 ? C2' LMT 405 C 1 HETATM 15 C C3' LMT . . . Q 16 -38.372 -71.636 68.927 1 168.28 ? C3' LMT 405 C 1 HETATM 16 C C4' LMT . . . Q 16 -39.865 -71.908 68.763 1 166.57 ? C4' LMT 405 C 1 HETATM 17 C C5' LMT . . . Q 16 -40.493 -70.684 68.094 1 163.54 ? C5' LMT 405 C 1 HETATM 18 C C6' LMT . . . Q 16 -41.979 -70.896 67.769 1 158.98 ? C6' LMT 405 C 1 HETATM 19 O O1' LMT . . . Q 16 -38.977 -68.188 70.338 1 169.72 ? O1' LMT 405 C 1 HETATM 20 O O2' LMT . . . Q 16 -36.816 -70.174 70.079 1 170.74 ? O2' LMT 405 C 1 HETATM 21 O O3' LMT . . . Q 16 -37.686 -72.785 69.433 1 171.53 ? O3' LMT 405 C 1 HETATM 22 O O5' LMT . . . Q 16 -40.307 -69.546 68.96 1 166.61 ? O5' LMT 405 C 1 HETATM 23 O O6' LMT . . . Q 16 -42.748 -71.16 68.945 1 159.81 ? O6' LMT 405 C 1 HETATM 24 C C1 LMT . . . Q 16 -38.184 -67.005 70.138 1 168.25 ? C1 LMT 405 C 1 HETATM 25 C C2 LMT . . . Q 16 -36.943 -67.042 71.037 1 170.73 ? C2 LMT 405 C 1 HETATM 26 C C3 LMT . . . Q 16 -36.289 -65.672 71.21 1 170.5 ? C3 LMT 405 C 1 HETATM 27 C C4 LMT . . . Q 16 -35.266 -65.39 70.111 1 168.63 ? C4 LMT 405 C 1 HETATM 28 C C5 LMT . . . Q 16 -35.138 -63.895 69.824 1 167.66 ? C5 LMT 405 C 1 HETATM 29 C C6 LMT . . . Q 16 -36.273 -63.343 68.95 1 162.47 ? C6 LMT 405 C 1 HETATM 30 C C7 LMT . . . Q 16 -37.026 -62.179 69.605 1 162.25 ? C7 LMT 405 C 1 HETATM 31 C C8 LMT . . . Q 16 -36.267 -60.852 69.53 1 162.24 ? C8 LMT 405 C 1 HETATM 32 C C9 LMT . . . Q 16 -36.766 -59.829 70.559 1 161.74 ? C9 LMT 405 C 1 HETATM 33 C C10 LMT . . . Q 16 -35.888 -59.71 71.812 1 164.35 ? C10 LMT 405 C 1 HETATM 34 C C11 LMT . . . Q 16 -35.6 -58.254 72.165 1 164.98 ? C11 LMT 405 C 1 HETATM 35 C C12 LMT . . . Q 16 -34.998 -58.126 73.546 1 168.88 ? C12 LMT 405 C 1 # _model_server_stats.io_time_ms 70 _model_server_stats.parse_time_ms 40 _model_server_stats.create_model_time_ms 223 _model_server_stats.query_time_ms 889 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 35 #