data_5H2P # _model_server_result.job_id cg1Uagz4DANlEGZKA0W1kA _model_server_result.datetime_utc '2024-11-26 16:15:43' _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 5h2p # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":309}' # _entry.id 5H2P # _exptl.entry_id 5H2P _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 156.308 _entity.id 9 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description UNDECANE _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 90 _cell.angle_gamma 120 _cell.entry_id 5H2P _cell.length_a 62.5 _cell.length_b 62.5 _cell.length_c 112 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5H2P _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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_455 -y-1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -62.5 0 0 3 'crystal symmetry operation' 3_445 -x+y-1,-x-1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -31.25 -54.126588 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 9 J N N ? 9 Q 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 covale ? covale1 A NZ LYS 216 A LYS 216 1_555 B C15 RET . A RET 301 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.311 ? covale ? covale2 A NZ LYS 216 A LYS 216 1_555 B C15 RET . A RET 301 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.31 ? # _chem_comp.formula 'C11 H24' _chem_comp.formula_weight 156.308 _chem_comp.id UND _chem_comp.mon_nstd_flag . _chem_comp.name UNDECANE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'LIPID FRAGMENT' # 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 UND sing 741 n n C1 H11 UND sing 742 n n C1 H12 UND sing 743 n n C1 H13 UND sing 744 n n C2 C3 UND sing 745 n n C2 H21 UND sing 746 n n C2 H22 UND sing 747 n n C3 C4 UND sing 748 n n C3 H31 UND sing 749 n n C3 H32 UND sing 750 n n C4 C5 UND sing 751 n n C4 H41 UND sing 752 n n C4 H42 UND sing 753 n n C5 C6 UND sing 754 n n C5 H51 UND sing 755 n n C5 H52 UND sing 756 n n C6 C7 UND sing 757 n n C6 H61 UND sing 758 n n C6 H62 UND sing 759 n n C7 C8 UND sing 760 n n C7 H71 UND sing 761 n n C7 H72 UND sing 762 n n C8 C9 UND sing 763 n n C8 H81 UND sing 764 n n C8 H82 UND sing 765 n n C9 C10 UND sing 766 n n C9 H91 UND sing 767 n n C9 H92 UND sing 768 n n C10 C11 UND sing 769 n n C10 H101 UND sing 770 n n C10 H102 UND sing 771 n n C11 H111 UND sing 772 n n C11 H112 UND sing 773 n n C11 H113 UND sing 774 n n # _atom_sites.entry_id 5H2P _atom_sites.fract_transf_matrix[1][1] 0.016 _atom_sites.fract_transf_matrix[1][2] 0.009238 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018475 _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] 0.008929 _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 RET A 1 301 300 RET RET . C 3 L2P A 1 302 600 L2P L2P . D 4 TRD A 1 303 601 TRD TRD . E 5 D10 A 1 304 602 D10 D10 . F 6 HP6 A 1 305 603 HP6 HP6 . G 7 OCT A 1 306 604 OCT OCT . H 7 OCT A 1 307 605 OCT OCT . I 8 MYS A 1 308 606 MYS MYS . J 9 UND A 1 309 607 UND UND . K 3 L2P A 1 310 608 L2P L2P . L 3 L2P A 1 311 609 L2P L2P . M 8 MYS A 1 312 610 MYS MYS . N 10 DD9 A 1 313 611 DD9 DD9 . O 11 C14 A 1 314 612 C14 C14 . P 7 OCT A 1 315 613 OCT OCT . Q 9 UND A 1 316 614 UND UND . R 12 HOH A 1 401 456 HOH HOH . R 12 HOH A 2 402 441 HOH HOH . R 12 HOH A 3 403 425 HOH HOH . R 12 HOH A 4 404 455 HOH HOH . R 12 HOH A 5 405 402 HOH HOH . R 12 HOH A 6 406 406 HOH HOH . R 12 HOH A 7 407 443 HOH HOH . R 12 HOH A 8 408 400 HOH HOH . R 12 HOH A 9 409 408 HOH HOH . R 12 HOH A 10 410 424 HOH HOH . R 12 HOH A 11 411 438 HOH HOH . R 12 HOH A 12 412 451 HOH HOH . R 12 HOH A 13 413 407 HOH HOH . R 12 HOH A 14 414 405 HOH HOH . R 12 HOH A 15 415 401 HOH HOH . R 12 HOH A 16 416 454 HOH HOH . R 12 HOH A 17 417 403 HOH HOH . R 12 HOH A 18 418 442 HOH HOH . R 12 HOH A 19 419 414 HOH HOH . R 12 HOH A 20 420 433 HOH HOH . R 12 HOH A 21 421 404 HOH HOH . R 12 HOH A 22 422 453 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 UND . . . J 9 -18.316 7.182 -7.702 1 81.44 ? C1 UND 309 A 1 HETATM 2 C C2 UND . . . J 9 -17.663 6.03 -8.463 1 83.97 ? C2 UND 309 A 1 HETATM 3 C C3 UND . . . J 9 -18.37 5.848 -9.805 1 72.42 ? C3 UND 309 A 1 HETATM 4 C C4 UND . . . J 9 -17.372 5.369 -10.857 1 65.92 ? C4 UND 309 A 1 HETATM 5 C C5 UND . . . J 9 -17.992 5.497 -12.248 1 64.52 ? C5 UND 309 A 1 HETATM 6 C C6 UND . . . J 9 -16.884 5.695 -13.28 1 75.64 ? C6 UND 309 A 1 HETATM 7 C C7 UND . . . J 9 -17.497 5.802 -14.675 1 79.12 ? C7 UND 309 A 1 HETATM 8 C C8 UND . . . J 9 -16.402 6.108 -15.696 1 77.13 ? C8 UND 309 A 1 HETATM 9 C C9 UND . . . J 9 -16.796 5.598 -17.081 1 84.24 ? C9 UND 309 A 1 HETATM 10 C C10 UND . . . J 9 -15.648 4.782 -17.672 1 79.97 ? C10 UND 309 A 1 HETATM 11 C C11 UND . . . J 9 -16.083 4.183 -19.009 1 68.53 ? C11 UND 309 A 1 HETATM 12 H H11 UND . . . J 9 -17.87 7.3 -6.849 1 97.73 ? H11 UND 309 A 1 HETATM 13 H H12 UND . . . J 9 -18.24 7.997 -8.222 1 97.73 ? H12 UND 309 A 1 HETATM 14 H H13 UND . . . J 9 -19.253 6.981 -7.552 1 97.73 ? H13 UND 309 A 1 HETATM 15 H H21 UND . . . J 9 -17.739 5.214 -7.944 1 100.76 ? H21 UND 309 A 1 HETATM 16 H H22 UND . . . J 9 -16.726 6.232 -8.615 1 100.76 ? H22 UND 309 A 1 HETATM 17 H H31 UND . . . J 9 -18.752 6.695 -10.085 1 86.9 ? H31 UND 309 A 1 HETATM 18 H H32 UND . . . J 9 -19.078 5.191 -9.71 1 86.9 ? H32 UND 309 A 1 HETATM 19 H H41 UND . . . J 9 -16.569 5.911 -10.81 1 79.1 ? H41 UND 309 A 1 HETATM 20 H H42 UND . . . J 9 -17.146 4.441 -10.688 1 79.1 ? H42 UND 309 A 1 HETATM 21 H H51 UND . . . J 9 -18.591 6.259 -12.266 1 77.43 ? H51 UND 309 A 1 HETATM 22 H H52 UND . . . J 9 -18.488 4.69 -12.457 1 77.43 ? H52 UND 309 A 1 HETATM 23 H H61 UND . . . J 9 -16.277 4.939 -13.251 1 90.77 ? H61 UND 309 A 1 HETATM 24 H H62 UND . . . J 9 -16.396 6.509 -13.078 1 90.77 ? H62 UND 309 A 1 HETATM 25 H H71 UND . . . J 9 -17.926 4.963 -14.904 1 94.95 ? H71 UND 309 A 1 HETATM 26 H H72 UND . . . J 9 -18.155 6.514 -14.684 1 94.95 ? H72 UND 309 A 1 HETATM 27 H H81 UND . . . J 9 -15.578 5.677 -15.42 1 92.55 ? H81 UND 309 A 1 HETATM 28 H H82 UND . . . J 9 -16.262 7.067 -15.737 1 92.55 ? H82 UND 309 A 1 HETATM 29 H H91 UND . . . J 9 -16.988 6.352 -17.66 1 101.09 ? H91 UND 309 A 1 HETATM 30 H H92 UND . . . J 9 -17.585 5.039 -17.007 1 101.09 ? H92 UND 309 A 1 HETATM 31 H H101 UND . . . J 9 -14.88 5.358 -17.81 1 95.97 ? H101 UND 309 A 1 HETATM 32 H H102 UND . . . J 9 -15.41 4.068 -17.06 1 95.97 ? H102 UND 309 A 1 HETATM 33 H H111 UND . . . J 9 -16.321 4.897 -19.621 1 82.24 ? H111 UND 309 A 1 HETATM 34 H H112 UND . . . J 9 -16.851 3.606 -18.871 1 82.24 ? H112 UND 309 A 1 HETATM 35 H H113 UND . . . J 9 -15.353 3.665 -19.384 1 82.24 ? H113 UND 309 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 35 #