data_7PKI # _model_server_result.job_id VhIshCXU-aZrvO3eLfB0Bg _model_server_result.datetime_utc '2024-10-11 23:21:10' _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 7pki # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":708}' # _entry.id 7PKI # _exptl.entry_id 7PKI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 122.143 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL _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 7PKI _cell.length_a 341.535 _cell.length_b 341.535 _cell.length_c 68.153 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7PKI _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall 'P 65 2 (x,y,z+1/12)' _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 6 _struct_asym.id K _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C NAG 1 B 1 NAG A 1075 NAG 3 n C NAG 2 B 2 NAG A 1076 NAG # 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 115 A CYS 133 1_555 A SG CYS 123 A CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 326 A CYS 344 1_555 A SG CYS 343 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 A SG CYS 512 A CYS 530 1_555 A SG CYS 524 A CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 B SG CYS 5 E CYS 332 1_555 B SG CYS 30 E CYS 357 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 B SG CYS 48 E CYS 375 1_555 B SG CYS 101 E CYS 428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf6 B SG CYS 60 E CYS 387 1_555 B SG CYS 194 E CYS 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf7 B SG CYS 149 E CYS 476 1_555 B SG CYS 157 E CYS 484 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 35 A ASN 53 1_555 D C1 NAG . A NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale2 A ND2 ASN 72 A ASN 90 1_555 C C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale3 A ND2 ASN 304 A ASN 322 1_555 G C1 NAG . A NAG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale4 A ND2 ASN 414 A ASN 432 1_555 E C1 NAG . A NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale5 A ND2 ASN 528 A ASN 546 1_555 F C1 NAG . A NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale6 B ND2 ASN 12 E ASN 339 1_555 O C1 NAG . E NAG 1701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale7 B ND2 ASN 39 E ASN 366 1_555 P C1 NAG . E NAG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.359 ? covale ? covale8 C O4 NAG . B NAG 1 1_555 C C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.47 ? # _chem_comp.formula 'C4 H12 N O3 1' _chem_comp.formula_weight 122.143 _chem_comp.id TRS _chem_comp.mon_nstd_flag . _chem_comp.name 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'TRIS BUFFER' # 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 C C1 TRS sing 397 n n C C2 TRS sing 398 n n C C3 TRS sing 399 n n C N TRS sing 400 n n C1 O1 TRS sing 401 n n C1 H11 TRS sing 402 n n C1 H12 TRS sing 403 n n C2 O2 TRS sing 404 n n C2 H21 TRS sing 405 n n C2 H22 TRS sing 406 n n C3 O3 TRS sing 407 n n C3 H31 TRS sing 408 n n C3 H32 TRS sing 409 n n N HN1 TRS sing 410 n n N HN2 TRS sing 411 n n N HN3 TRS sing 412 n n O1 HO1 TRS sing 413 n n O2 HO2 TRS sing 414 n n O3 HO3 TRS sing 415 n n # _atom_sites.entry_id 7PKI _atom_sites.fract_transf_matrix[1][1] 0.002928 _atom_sites.fract_transf_matrix[1][2] 0.00169 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.003381 _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] 0.014673 _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 D 4 NAG A 1 701 1071 NAG NAG . E 4 NAG A 1 702 1072 NAG NAG . F 4 NAG A 1 703 1073 NAG NAG . G 4 NAG A 1 704 1074 NAG NAG . H 5 SO4 A 1 705 1 SO4 SO4 . I 5 SO4 A 1 706 2 SO4 SO4 . J 5 SO4 A 1 707 3 SO4 SO4 . K 6 TRS A 1 708 1 TRS TRS . L 7 PEG A 1 709 2 PEG PEG . M 7 PEG A 1 710 6 PEG PEG . N 8 ZN A 1 711 1 ZN ZN . O 4 NAG E 1 1701 1701 NAG NAG . P 4 NAG E 1 1702 1702 NAG NAG . Q 5 SO4 E 1 1703 4 SO4 SO4 . R 9 CL E 1 1704 1 CL CL . S 9 CL E 1 1705 2 CL CL . T 7 PEG E 1 1706 1 PEG PEG . U 7 PEG E 1 1707 3 PEG PEG . V 7 PEG E 1 1708 4 PEG PEG . W 10 GOL E 1 1709 1 GOL GOL . X 11 HOH A 1 801 7 HOH HOH . X 11 HOH A 2 802 5 HOH HOH . X 11 HOH A 3 803 1 HOH HOH . X 11 HOH A 4 804 2 HOH HOH . X 11 HOH A 5 805 3 HOH HOH . Y 11 HOH E 1 1801 4 HOH HOH . Y 11 HOH E 2 1802 6 HOH HOH . Y 11 HOH E 3 1803 8 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 C TRS . . . K 6 113.073 98.652 -13.432 1 115.7 ? C TRS 708 A 1 HETATM 2 C C1 TRS . . . K 6 112.067 98.183 -14.475 1 89.25 ? C1 TRS 708 A 1 HETATM 3 C C2 TRS . . . K 6 112.7 98.106 -12.057 1 101.63 ? C2 TRS 708 A 1 HETATM 4 C C3 TRS . . . K 6 113.123 100.177 -13.408 1 95.12 ? C3 TRS 708 A 1 HETATM 5 N N TRS . . . K 6 114.396 98.141 -13.799 1 114.74 ? N TRS 708 A 1 HETATM 6 O O1 TRS . . . K 6 110.817 98.783 -14.221 1 93.6 ? O1 TRS 708 A 1 HETATM 7 O O2 TRS . . . K 6 112.703 96.695 -12.091 1 73.26 ? O2 TRS 708 A 1 HETATM 8 O O3 TRS . . . K 6 113.398 100.662 -14.704 1 67.48 ? O3 TRS 708 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 19 _model_server_stats.element_count 8 #