1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Dong, G. Hoffman, D.W. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 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 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 C9 H11 N O2 165.189 y PHENYLALANINE 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 C11 H12 N2 O2 204.225 y TRYPTOPHAN 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 J. EMJODG 0897 0261-4189 21 1845 1854 10.1093/emboj/21.7.1845 11927568 Structure of small protein B: the protein component of the tmRNA-SmpB system for ribosome rescue. 2002 10.2210/pdb1k8h/pdb pdb_00001k8h 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 15523.292 Small protein B 1 man polymer SSRA-BINDING PROTEIN no no GKSDKIIPIAENKEAKAKYDILETYEAGIVLKGSEVKSLREKGTVSFKDSFVRIENGEAWLYNLYIAPYKHATIENHDPL RKRKLLLHKREIMRLYGKVQEKGYTIIPLKLYWKNNKVKVLIALAKGKKLYDR GKSDKIIPIAENKEAKAKYDILETYEAGIVLKGSEVKSLREKGTVSFKDSFVRIENGEAWLYNLYIAPYKHATIENHDPL RKRKLLLHKREIMRLYGKVQEKGYTIIPLKLYWKNNKVKVLIALAKGKKLYDR A 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 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 Aquifex Escherichia sample 63363 Aquifex aeolicus 562 Escherichia coli database_2 pdbx_struct_assembly pdbx_struct_oper_list repository Initial release Version format compliance Version format compliance Database references Derived calculations 1 0 2002-03-20 1 1 2008-04-27 1 2 2011-07-13 1 3 2022-02-23 _database_2.pdbx_DOI _database_2.pdbx_database_accession RCSB Y RCSB 2001-10-24 REL REL This structure was solved using standard 2D and 3D heteronuclear NMR techniques. structures with the lowest energy 200 10 2D_NOESY 3D_13C-separated_NOESY 3D_15N-separated_NOESY 100 mM 6.0 ambient 303 K simulated annealing 1 closest to the average 1 mM SmpB 90% H2O/10% D2O Brunger refinement CNS 1.0 500 Varian INOVA GLY 1 n 1 GLY 1 A LYS 2 n 2 LYS 2 A SER 3 n 3 SER 3 A ASP 4 n 4 ASP 4 A LYS 5 n 5 LYS 5 A ILE 6 n 6 ILE 6 A ILE 7 n 7 ILE 7 A PRO 8 n 8 PRO 8 A ILE 9 n 9 ILE 9 A ALA 10 n 10 ALA 10 A GLU 11 n 11 GLU 11 A ASN 12 n 12 ASN 12 A LYS 13 n 13 LYS 13 A GLU 14 n 14 GLU 14 A ALA 15 n 15 ALA 15 A LYS 16 n 16 LYS 16 A ALA 17 n 17 ALA 17 A LYS 18 n 18 LYS 18 A TYR 19 n 19 TYR 19 A ASP 20 n 20 ASP 20 A ILE 21 n 21 ILE 21 A LEU 22 n 22 LEU 22 A GLU 23 n 23 GLU 23 A THR 24 n 24 THR 24 A TYR 25 n 25 TYR 25 A GLU 26 n 26 GLU 26 A ALA 27 n 27 ALA 27 A GLY 28 n 28 GLY 28 A ILE 29 n 29 ILE 29 A VAL 30 n 30 VAL 30 A LEU 31 n 31 LEU 31 A LYS 32 n 32 LYS 32 A GLY 33 n 33 GLY 33 A SER 34 n 34 SER 34 A GLU 35 n 35 GLU 35 A VAL 36 n 36 VAL 36 A LYS 37 n 37 LYS 37 A SER 38 n 38 SER 38 A LEU 39 n 39 LEU 39 A ARG 40 n 40 ARG 40 A GLU 41 n 41 GLU 41 A LYS 42 n 42 LYS 42 A GLY 43 n 43 GLY 43 A THR 44 n 44 THR 44 A VAL 45 n 45 VAL 45 A SER 46 n 46 SER 46 A PHE 47 n 47 PHE 47 A LYS 48 n 48 LYS 48 A ASP 49 n 49 ASP 49 A SER 50 n 50 SER 50 A PHE 51 n 51 PHE 51 A VAL 52 n 52 VAL 52 A ARG 53 n 53 ARG 53 A ILE 54 n 54 ILE 54 A GLU 55 n 55 GLU 55 A ASN 56 n 56 ASN 56 A GLY 57 n 57 GLY 57 A GLU 58 n 58 GLU 58 A ALA 59 n 59 ALA 59 A TRP 60 n 60 TRP 60 A LEU 61 n 61 LEU 61 A TYR 62 n 62 TYR 62 A ASN 63 n 63 ASN 63 A LEU 64 n 64 LEU 64 A TYR 65 n 65 TYR 65 A ILE 66 n 66 ILE 66 A ALA 67 n 67 ALA 67 A PRO 68 n 68 PRO 68 A TYR 69 n 69 TYR 69 A LYS 70 n 70 LYS 70 A HIS 71 n 71 HIS 71 A ALA 72 n 72 ALA 72 A THR 73 n 73 THR 73 A ILE 74 n 74 ILE 74 A GLU 75 n 75 GLU 75 A ASN 76 n 76 ASN 76 A HIS 77 n 77 HIS 77 A ASP 78 n 78 ASP 78 A PRO 79 n 79 PRO 79 A LEU 80 n 80 LEU 80 A ARG 81 n 81 ARG 81 A LYS 82 n 82 LYS 82 A ARG 83 n 83 ARG 83 A LYS 84 n 84 LYS 84 A LEU 85 n 85 LEU 85 A LEU 86 n 86 LEU 86 A LEU 87 n 87 LEU 87 A HIS 88 n 88 HIS 88 A LYS 89 n 89 LYS 89 A ARG 90 n 90 ARG 90 A GLU 91 n 91 GLU 91 A ILE 92 n 92 ILE 92 A MET 93 n 93 MET 93 A ARG 94 n 94 ARG 94 A LEU 95 n 95 LEU 95 A TYR 96 n 96 TYR 96 A GLY 97 n 97 GLY 97 A LYS 98 n 98 LYS 98 A VAL 99 n 99 VAL 99 A GLN 100 n 100 GLN 100 A GLU 101 n 101 GLU 101 A LYS 102 n 102 LYS 102 A GLY 103 n 103 GLY 103 A TYR 104 n 104 TYR 104 A THR 105 n 105 THR 105 A ILE 106 n 106 ILE 106 A ILE 107 n 107 ILE 107 A PRO 108 n 108 PRO 108 A LEU 109 n 109 LEU 109 A LYS 110 n 110 LYS 110 A LEU 111 n 111 LEU 111 A TYR 112 n 112 TYR 112 A TRP 113 n 113 TRP 113 A LYS 114 n 114 LYS 114 A ASN 115 n 115 ASN 115 A ASN 116 n 116 ASN 116 A LYS 117 n 117 LYS 117 A VAL 118 n 118 VAL 118 A LYS 119 n 119 LYS 119 A VAL 120 n 120 VAL 120 A LEU 121 n 121 LEU 121 A ILE 122 n 122 ILE 122 A ALA 123 n 123 ALA 123 A LEU 124 n 124 LEU 124 A ALA 125 n 125 ALA 125 A LYS 126 n 126 LYS 126 A GLY 127 n 127 GLY 127 A LYS 128 n 128 LYS 128 A LYS 129 n 129 LYS 129 A LEU 130 n 130 LEU 130 A TYR 131 n 131 TYR 131 A ASP 132 n 132 ASP 132 A ARG 133 n 133 ARG 133 A author_defined_assembly 1 monomeric 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 A N ALA 27 A N ALA 27 A O VAL 120 A O VAL 120 A O LYS 119 A O LYS 119 A N TYR 112 A N TYR 112 A N PHE 51 A N PHE 51 A O TYR 62 A O TYR 62 A N LEU 61 A N LEU 61 A O ARG 83 A O ARG 83 1 A LYS 2 -98.93 -60.06 1 A SER 3 -75.48 -169.56 1 A ASP 4 60.58 179.64 1 A LYS 5 -148.53 27.63 1 A ALA 10 54.06 168.09 1 A LYS 13 174.49 -34.23 1 A LEU 22 -109.95 -68.77 1 A LYS 32 -57.07 -166.36 1 A LYS 42 -57.44 -82.15 1 A PHE 47 -120.87 -68.91 1 A ASN 56 54.58 -96.07 1 A TYR 65 -148.07 46.81 1 A PRO 68 -47.93 160.58 1 A ILE 74 -98.82 33.34 1 A LEU 80 -130.54 -51.02 1 A ARG 81 54.29 79.75 1 A LEU 86 -49.27 174.19 1 A LEU 87 -172.68 -156.26 1 A HIS 88 -105.33 -160.65 1 A LEU 109 -123.75 -99.70 1 A ASN 115 73.45 -57.46 1 A ASN 116 -177.22 -7.44 1 A LYS 128 61.78 155.79 1 A LYS 129 -175.73 -175.48 1 A LEU 130 63.79 -79.37 2 A ASP 4 57.11 104.74 2 A ALA 10 55.23 164.68 2 A GLU 11 179.53 102.11 2 A LYS 13 -162.69 33.73 2 A LYS 18 -156.63 77.12 2 A TYR 19 175.96 122.60 2 A LEU 22 -130.07 -69.33 2 A LYS 32 -164.39 69.31 2 A SER 34 82.86 -41.45 2 A LYS 42 -165.24 78.47 2 A VAL 45 51.63 161.56 2 A PHE 47 -170.67 121.92 2 A LYS 48 60.11 -179.64 2 A ASP 49 80.12 -13.05 2 A ASN 56 55.68 -102.83 2 A LYS 70 -172.52 99.67 2 A GLU 75 63.11 127.17 2 A HIS 77 68.81 -67.66 2 A LEU 87 -138.47 -130.24 2 A HIS 88 -125.40 -84.17 2 A LYS 89 174.09 -72.68 2 A VAL 99 -49.90 -70.24 2 A LEU 109 -123.04 -98.89 2 A ASN 115 72.32 -56.27 2 A ASN 116 -177.58 -11.78 2 A LYS 128 177.81 -49.37 2 A LYS 129 -178.10 79.92 3 A LYS 2 60.39 163.15 3 A ASP 4 -148.45 41.26 3 A ALA 10 55.75 160.28 3 A GLU 11 -178.28 133.63 3 A ASN 12 -177.28 135.93 3 A LYS 18 -134.80 -78.19 3 A TYR 19 -41.18 104.21 3 A LEU 22 -102.77 -82.94 3 A LEU 31 60.93 172.72 3 A LYS 32 -143.74 16.50 3 A LYS 42 -176.55 76.87 3 A THR 44 -162.61 119.15 3 A PHE 47 -164.58 -169.01 3 A ASN 56 59.86 -88.63 3 A TYR 69 -163.32 31.06 3 A GLU 75 61.57 178.24 3 A ASP 78 62.26 116.36 3 A PRO 79 -65.44 63.29 3 A LEU 80 -149.95 -73.36 3 A ARG 81 50.23 -177.59 3 A LEU 86 -68.45 -178.11 3 A LEU 87 -166.41 -156.73 3 A HIS 88 -96.78 -83.71 3 A LYS 89 173.13 -62.73 3 A LEU 109 -125.38 -100.77 3 A ASN 115 73.09 -55.56 3 A ASN 116 -178.09 -9.34 3 A LYS 129 -146.38 -58.74 3 A LEU 130 63.02 123.48 3 A ASP 132 60.96 157.89 4 A ALA 10 51.37 175.13 4 A LYS 13 175.81 -37.46 4 A LEU 22 -132.02 -78.60 4 A LEU 31 -174.82 -176.66 4 A LYS 32 -176.88 136.44 4 A SER 34 177.43 -31.01 4 A LYS 42 -51.80 -79.49 4 A SER 46 73.50 -164.36 4 A PHE 47 67.69 107.02 4 A LYS 48 62.32 151.22 4 A ASN 56 -41.33 92.29 4 A TYR 69 -128.58 -50.46 4 A HIS 71 -98.80 33.33 4 A ASN 76 59.85 -177.35 4 A LEU 80 -132.10 -50.44 4 A ARG 81 60.92 -179.81 4 A LEU 109 -109.88 -99.10 4 A ASN 115 73.61 -54.24 4 A ASN 116 -179.87 -9.14 4 A LYS 128 61.67 152.56 4 A LYS 129 43.57 -165.76 4 A TYR 131 -154.58 -46.43 5 A SER 3 61.19 155.82 5 A ALA 10 61.44 -82.05 5 A GLU 11 47.05 96.11 5 A LYS 13 -147.20 36.84 5 A TYR 19 174.87 119.22 5 A LEU 22 -135.79 -69.35 5 A LYS 42 -177.53 79.04 5 A PHE 47 -178.77 79.38 5 A ASP 49 -176.92 80.52 5 A ASN 56 53.15 -91.29 5 A LEU 64 -168.28 48.36 5 A PRO 68 -58.14 -160.50 5 A HIS 71 63.29 98.64 5 A ALA 72 -144.34 -77.31 5 A THR 73 -178.07 -39.98 5 A GLU 75 58.79 167.33 5 A HIS 77 54.96 175.20 5 A PRO 79 -55.64 -70.24 5 A HIS 88 -64.59 -170.08 5 A LEU 109 -123.07 -97.91 5 A ASN 115 73.24 -54.28 5 A ASN 116 -178.98 -10.63 5 A LYS 128 62.69 -169.54 5 A ASP 132 59.86 101.75 6 A ALA 10 68.41 -84.59 6 A GLU 11 55.49 107.80 6 A ASN 12 -171.89 110.44 6 A LEU 22 -133.47 -45.96 6 A SER 34 174.55 -41.31 6 A LYS 42 175.90 77.85 6 A SER 46 179.60 146.32 6 A PHE 47 -158.66 44.12 6 A ASP 49 -147.41 15.18 6 A ASN 56 54.64 -91.10 6 A TYR 65 -170.32 92.46 6 A PRO 68 -52.94 173.20 6 A ILE 74 -151.88 72.24 6 A ASP 78 -160.41 -65.76 6 A ARG 81 -108.27 -166.70 6 A LEU 87 -179.65 -149.91 6 A VAL 99 -52.11 -70.60 6 A LEU 109 -113.04 -90.89 6 A ASN 115 72.59 -58.84 6 A ASN 116 -177.03 -5.49 7 A LYS 5 -162.87 89.98 7 A ALA 10 55.08 157.93 7 A GLU 11 178.82 108.56 7 A LYS 13 -156.80 28.73 7 A LYS 18 -124.08 -72.22 7 A TYR 19 -56.37 104.93 7 A LEU 22 -128.52 -70.38 7 A LYS 42 -67.29 -81.51 7 A THR 44 -106.81 -157.15 7 A VAL 45 59.04 142.88 7 A SER 46 59.33 83.52 7 A PHE 47 -135.87 -58.22 7 A LYS 48 -160.06 29.33 7 A ASP 49 -155.01 26.48 7 A ASN 56 -34.98 93.03 7 A TYR 65 -90.75 50.26 7 A ILE 66 -101.44 -165.51 7 A ALA 67 76.93 89.99 7 A TYR 69 62.21 134.04 7 A LYS 70 -176.51 58.74 7 A HIS 71 59.70 168.07 7 A ALA 72 63.46 132.16 7 A THR 73 60.48 102.80 7 A ASN 76 63.78 -80.69 7 A HIS 77 56.03 71.10 7 A PRO 79 -81.58 49.99 7 A LEU 80 177.22 128.48 7 A LEU 87 -141.41 -154.72 7 A HIS 88 -103.56 -90.29 7 A LYS 89 -168.09 -70.00 7 A LEU 109 -99.82 -89.83 7 A ASN 115 73.02 -53.98 7 A ASN 116 179.86 -9.65 7 A LYS 128 61.77 175.65 7 A TYR 131 60.36 163.08 8 A ALA 10 54.99 157.25 8 A GLU 11 -178.27 127.77 8 A ASN 12 179.32 134.85 8 A LYS 18 -117.11 -80.19 8 A TYR 19 -48.15 107.64 8 A LEU 22 -129.23 -69.56 8 A LYS 32 -149.71 -57.76 8 A LYS 42 -176.58 73.96 8 A SER 46 -73.67 -77.57 8 A ASP 49 175.48 81.69 8 A ASN 56 57.36 -95.27 8 A TYR 69 -177.76 108.47 8 A HIS 71 -155.57 25.83 8 A ALA 72 52.59 -177.16 8 A THR 73 57.42 81.70 8 A ASN 76 61.05 65.46 8 A LEU 87 -179.09 146.14 8 A HIS 88 -63.11 -176.01 8 A VAL 99 -53.52 -70.53 8 A LEU 109 -122.64 -97.26 8 A ASN 115 72.78 -56.97 8 A ASN 116 -177.43 -11.24 8 A TYR 131 -168.91 -60.44 9 A SER 3 60.65 107.54 9 A ALA 10 52.65 159.04 9 A GLU 11 179.71 141.14 9 A LYS 13 -157.33 17.54 9 A LEU 22 -138.23 -63.53 9 A LEU 31 -49.80 178.18 9 A LYS 42 -173.16 80.54 9 A PHE 47 58.89 -170.26 9 A ASP 49 -175.15 38.13 9 A ASN 56 -37.47 95.64 9 A TYR 65 178.82 69.98 9 A TYR 69 62.55 148.55 9 A LYS 70 -95.53 -70.24 9 A HIS 71 -69.30 -176.45 9 A THR 73 -150.54 -153.99 9 A ILE 74 -91.73 31.60 9 A GLU 75 57.89 97.94 9 A ASN 76 -164.12 31.76 9 A HIS 88 -93.32 -74.46 9 A LYS 89 167.79 -76.36 9 A VAL 99 -49.79 -70.88 9 A LEU 109 -120.65 -93.64 9 A ASN 115 73.39 -55.76 9 A ASN 116 -178.56 -8.25 9 A LYS 128 61.53 155.03 9 A TYR 131 -131.30 -46.65 10 A LYS 2 60.65 104.99 10 A ASP 4 -125.28 -76.50 10 A LYS 5 -163.03 30.64 10 A ALA 10 69.86 156.16 10 A LYS 13 -177.12 38.23 10 A LYS 18 -125.99 -69.11 10 A TYR 19 -42.65 105.53 10 A LEU 22 -130.11 -65.94 10 A LEU 31 -54.92 -176.70 10 A LYS 32 -142.96 -81.78 10 A LYS 42 -165.16 82.61 10 A THR 44 -90.37 -147.00 10 A VAL 45 45.68 95.34 10 A PHE 47 -72.78 -164.88 10 A LYS 48 -115.16 62.28 10 A ASN 56 -33.19 94.02 10 A PRO 68 -70.36 -167.87 10 A HIS 71 -137.95 -48.64 10 A ASP 78 -158.14 64.61 10 A VAL 99 -49.71 -70.33 10 A LEU 109 -117.56 -101.51 10 A ASN 115 73.03 -54.52 10 A ASN 116 -179.65 -12.26 10 A LYS 128 60.72 103.33 10 A LYS 129 -59.13 96.00 10 A ASP 132 59.84 73.44 NMR Structure of Small Protein B (SmpB) from Aquifex aeolicus 1 N N A LYS 13 A LYS 13 HELX_P A TYR 19 A TYR 19 1 1 7 A GLY 33 A GLY 33 HELX_P A GLY 43 A GLY 43 1 2 11 A LYS 89 A LYS 89 HELX_P A GLY 103 A GLY 103 1 3 15 RNA BINDING PROTEIN SmpB, SsrA associated protein, RNA BINDING PROTEIN SSRP_AQUAE UNP 1 2 O66640 GKSDKIIPIAENKEAKAKYDILETYEAGIVLKGSEVKSLREKGTVSFKDSFVRIENGEAWLYNLYIAPYKHATIENHDPL RKRKLLLHKREIMRLYGKVQEKGYTIIPLKLYWKNNKVKVLIALAKGKKLYDR 2 134 1K8H 1 133 O66640 A 1 1 133 3 3 anti-parallel anti-parallel anti-parallel anti-parallel A ILE 21 A ILE 21 A ILE 29 A ILE 29 A LYS 117 A LYS 117 A ALA 125 A ALA 125 A THR 105 A THR 105 A LYS 114 A LYS 114 A SER 50 A SER 50 A GLU 55 A GLU 55 A GLU 58 A GLU 58 A ASN 63 A ASN 63 A ARG 83 A ARG 83 A LEU 85 A LEU 85