1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Lingel, A. Simon, B. Izaurralde, E. Sattler, M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking UK Embo Rep. 1469-221X 6 1149 1155 10.1038/sj.embor.7400583 16270100 The structure of the flock house virus B2 protein, a viral suppressor of RNA interference, shows a novel mode of double-stranded RNA recognition. 2005 10.2210/pdb2b9z/pdb pdb_00002b9z 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 SINGLE WAVELENGTH M 1 1.0 8063.382 B2 protein 2 man polymer no no GAMPSKLALIQELPDRIQTAVEAAMGMSYQDAPNNVRRDLDNLHACLNKAKLTVGRMVTSLLEKPSVVAYLEGK GAMPSKLALIQELPDRIQTAVEAAMGMSYQDAPNNVRRDLDNLHACLNKAKLTVGRMVTSLLEKPSVVAYLEGK A,B polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n Alphanodavirus Escherichia Escherichia coli sample B2 12287 Flock house virus 469008 Escherichia coli BL21(DE3) BL21(DE3) Plasmid pETM-11 database_2 pdbx_database_status pdbx_nmr_software pdbx_struct_assembly pdbx_struct_oper_list struct_ref_seq_dif repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations Other 1 0 2005-11-29 1 1 2008-05-01 1 2 2011-07-13 1 3 2022-03-09 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.deposit_site _pdbx_database_status.process_site _pdbx_nmr_software.name _struct_ref_seq_dif.details RCSB Y RCSB 2005-10-13 REL REL Distance restraints were derived from 15N- or 13C-resolved 3D NOESY. HN-N residual dipolar couplings were measured using a spin-state-selective 1H,15N correlation experiment in dilute liquid crystalline medium. Restraints for the backbone angles phi and psi were derived from TALOS. Stereospecific assignments of Leu, Val methyl groups were obtained using a 10% fractionally 13C-labelled sample. structures with the lowest energy 100 10 3D_15N-separated_NOESY 3D_13C-separated_NOESY HNHA 50 mM NaPi, 50 mM NaCl 6.3 1 atm 295 K The experimentally determined distance, dihedral and dipolar coupling restraints were applied in a simulated annealing protocol using ARIA and CNS. Non-crystallographic symmetry (NCS) restraints were used to enforce the dimer symmetry. The final ensemble of NMR structures was refined in a shell of water molecules. molecular dynamics, simulated annealing 1 lowest energy 0.2 - 1 mM 15N, 13C/15N or 2H/13C/15N labelled B2 protein in 50 mM sodium phosphate pH 6.3, 50 mM sodium chloride, 1 mM DTT, 90% H2O / 10% D2O 90% H2O/10% D2O 0.2 - 1 mM 13C/15N labelled B2 protein in 50 mM sodium phosphate pH 6.3, 50 mM sodium chloride, 1 mM DTT, 100% D2O 100% D2O collection XwinNMR 3.5 Delaglio et al. processing NMRPipe Johnson et al. data analysis NMRView 5 Cornilescu et al. data analysis TALOS Linge et al. structure solution ARIA 1.2 Brunger et al. structure solution CNS 1.1 Brunger et al. refinement CNS 1.1 500 Bruker DRX 600 Bruker DRX 900 Bruker DRX GLY -1 n 1 GLY -1 A ALA 0 n 2 ALA 0 A MET 1 n 3 MET 1 A PRO 2 n 4 PRO 2 A SER 3 n 5 SER 3 A LYS 4 n 6 LYS 4 A LEU 5 n 7 LEU 5 A ALA 6 n 8 ALA 6 A LEU 7 n 9 LEU 7 A ILE 8 n 10 ILE 8 A GLN 9 n 11 GLN 9 A GLU 10 n 12 GLU 10 A LEU 11 n 13 LEU 11 A PRO 12 n 14 PRO 12 A ASP 13 n 15 ASP 13 A ARG 14 n 16 ARG 14 A ILE 15 n 17 ILE 15 A GLN 16 n 18 GLN 16 A THR 17 n 19 THR 17 A ALA 18 n 20 ALA 18 A VAL 19 n 21 VAL 19 A GLU 20 n 22 GLU 20 A ALA 21 n 23 ALA 21 A ALA 22 n 24 ALA 22 A MET 23 n 25 MET 23 A GLY 24 n 26 GLY 24 A MET 25 n 27 MET 25 A SER 26 n 28 SER 26 A TYR 27 n 29 TYR 27 A GLN 28 n 30 GLN 28 A ASP 29 n 31 ASP 29 A ALA 30 n 32 ALA 30 A PRO 31 n 33 PRO 31 A ASN 32 n 34 ASN 32 A ASN 33 n 35 ASN 33 A VAL 34 n 36 VAL 34 A ARG 35 n 37 ARG 35 A ARG 36 n 38 ARG 36 A ASP 37 n 39 ASP 37 A LEU 38 n 40 LEU 38 A ASP 39 n 41 ASP 39 A ASN 40 n 42 ASN 40 A LEU 41 n 43 LEU 41 A HIS 42 n 44 HIS 42 A ALA 43 n 45 ALA 43 A CYS 44 n 46 CYS 44 A LEU 45 n 47 LEU 45 A ASN 46 n 48 ASN 46 A LYS 47 n 49 LYS 47 A ALA 48 n 50 ALA 48 A LYS 49 n 51 LYS 49 A LEU 50 n 52 LEU 50 A THR 51 n 53 THR 51 A VAL 52 n 54 VAL 52 A GLY 53 n 55 GLY 53 A ARG 54 n 56 ARG 54 A MET 55 n 57 MET 55 A VAL 56 n 58 VAL 56 A THR 57 n 59 THR 57 A SER 58 n 60 SER 58 A LEU 59 n 61 LEU 59 A LEU 60 n 62 LEU 60 A GLU 61 n 63 GLU 61 A LYS 62 n 64 LYS 62 A PRO 63 n 65 PRO 63 A SER 64 n 66 SER 64 A VAL 65 n 67 VAL 65 A VAL 66 n 68 VAL 66 A ALA 67 n 69 ALA 67 A TYR 68 n 70 TYR 68 A LEU 69 n 71 LEU 69 A GLU 70 n 72 GLU 70 A GLY 71 n 73 GLY 71 A LYS 72 n 74 LYS 72 A GLY -1 n 1 GLY -1 B ALA 0 n 2 ALA 0 B MET 1 n 3 MET 1 B PRO 2 n 4 PRO 2 B SER 3 n 5 SER 3 B LYS 4 n 6 LYS 4 B LEU 5 n 7 LEU 5 B ALA 6 n 8 ALA 6 B LEU 7 n 9 LEU 7 B ILE 8 n 10 ILE 8 B GLN 9 n 11 GLN 9 B GLU 10 n 12 GLU 10 B LEU 11 n 13 LEU 11 B PRO 12 n 14 PRO 12 B ASP 13 n 15 ASP 13 B ARG 14 n 16 ARG 14 B ILE 15 n 17 ILE 15 B GLN 16 n 18 GLN 16 B THR 17 n 19 THR 17 B ALA 18 n 20 ALA 18 B VAL 19 n 21 VAL 19 B GLU 20 n 22 GLU 20 B ALA 21 n 23 ALA 21 B ALA 22 n 24 ALA 22 B MET 23 n 25 MET 23 B GLY 24 n 26 GLY 24 B MET 25 n 27 MET 25 B SER 26 n 28 SER 26 B TYR 27 n 29 TYR 27 B GLN 28 n 30 GLN 28 B ASP 29 n 31 ASP 29 B ALA 30 n 32 ALA 30 B PRO 31 n 33 PRO 31 B ASN 32 n 34 ASN 32 B ASN 33 n 35 ASN 33 B VAL 34 n 36 VAL 34 B ARG 35 n 37 ARG 35 B ARG 36 n 38 ARG 36 B ASP 37 n 39 ASP 37 B LEU 38 n 40 LEU 38 B ASP 39 n 41 ASP 39 B ASN 40 n 42 ASN 40 B LEU 41 n 43 LEU 41 B HIS 42 n 44 HIS 42 B ALA 43 n 45 ALA 43 B CYS 44 n 46 CYS 44 B LEU 45 n 47 LEU 45 B ASN 46 n 48 ASN 46 B LYS 47 n 49 LYS 47 B ALA 48 n 50 ALA 48 B LYS 49 n 51 LYS 49 B LEU 50 n 52 LEU 50 B THR 51 n 53 THR 51 B VAL 52 n 54 VAL 52 B GLY 53 n 55 GLY 53 B ARG 54 n 56 ARG 54 B MET 55 n 57 MET 55 B VAL 56 n 58 VAL 56 B THR 57 n 59 THR 57 B SER 58 n 60 SER 58 B LEU 59 n 61 LEU 59 B LEU 60 n 62 LEU 60 B GLU 61 n 63 GLU 61 B LYS 62 n 64 LYS 62 B PRO 63 n 65 PRO 63 B SER 64 n 66 SER 64 B VAL 65 n 67 VAL 65 B VAL 66 n 68 VAL 66 B ALA 67 n 69 ALA 67 B TYR 68 n 70 TYR 68 B LEU 69 n 71 LEU 69 B GLU 70 n 72 GLU 70 B GLY 71 n 73 GLY 71 B LYS 72 n 74 LYS 72 B author_defined_assembly 2 dimeric 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 6 B B HH21 OD2 ARG ASP 36 39 1.60 7 A B OD2 HZ1 ASP LYS 37 62 1.59 8 A A HG23 HD3 VAL LYS 19 49 1.33 9 A B HZ1 O LYS SER 4 26 1.59 9 A B OD1 HZ3 ASP LYS 37 62 1.60 10 A A HG21 HD3 VAL LYS 19 49 1.34 10 A A OE1 HZ2 GLU LYS 70 72 1.57 10 B B OE1 HZ2 GLU LYS 70 72 1.57 2 A MET 1 54.27 101.46 2 B MET 1 48.48 90.15 3 A SER 26 -67.06 -75.51 3 A TYR 27 56.42 -1.99 3 A PRO 31 -46.80 161.99 3 B TYR 27 49.97 8.89 3 B PRO 31 -45.54 152.36 4 A ALA 0 59.62 75.25 4 B ALA 0 60.71 68.55 4 B GLU 61 -97.44 32.71 5 A GLU 61 -97.94 36.57 5 B PRO 31 -46.64 155.30 6 A TYR 27 55.16 6.99 6 A PRO 31 -46.37 157.30 6 B ALA 0 58.74 76.91 6 B TYR 27 55.98 3.06 6 B PRO 31 -46.22 162.18 7 A PRO 31 -45.95 150.35 8 B ASP 29 -85.93 46.96 10 A TYR 27 55.04 6.14 10 A PRO 31 -46.41 153.49 10 B TYR 27 53.72 9.44 Solution structure of FHV B2, a viral suppressor of RNAi 1 N N 1 N N A SER 3 A SER 5 HELX_P A GLY 24 A GLY 26 1 1 22 A SER 26 A SER 28 HELX_P A ALA 30 A ALA 32 5 2 5 A PRO 31 A PRO 33 HELX_P A GLU 61 A GLU 63 1 3 31 A LYS 62 A LYS 64 HELX_P A GLY 71 A GLY 73 1 4 10 B SER 3 B SER 5 HELX_P B GLY 24 B GLY 26 1 5 22 B PRO 31 B PRO 33 HELX_P B GLU 61 B GLU 63 1 6 31 B LYS 62 B LYS 64 HELX_P B GLY 71 B GLY 73 1 7 10 VIRAL PROTEIN Symmetric antiparallel homodimer, all alpha-helical, Viral protein B2_FHV UNP 1 1 P68831 MPSKLALIQELPDRIQTAVEAAMGMSYQDAPNNVRRDLDNLHACLNKAKLTVSRMVTSLLEKPSVVAYLEGK 1 72 2B9Z 1 72 P68831 A 1 3 74 1 72 2B9Z 1 72 P68831 B 1 3 74 1 cloning artifact GLY -1 2B9Z A P68831 UNP 1 1 cloning artifact ALA 0 2B9Z A P68831 UNP 2 1 SER SEE REMARK 999 GLY 53 2B9Z A P68831 UNP 53 55 2 cloning artifact GLY -1 2B9Z B P68831 UNP 1 2 cloning artifact ALA 0 2B9Z B P68831 UNP 2 2 SER SEE REMARK 999 GLY 53 2B9Z B P68831 UNP 53 55 1 P 1