1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Ramelot, T.A. Zhao, L. Hamilton, K. Maglaqui, M. Xiao, R. Liu, J. Baran, M.C. Swapna, G. Acton, T.B. Rost, B. Montelione, G.T. Kennedy, M.A. Northeast Structural Genomics Consortium (NESG) 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 C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking To be Published 0353 Solution NMR structure of the folded C-terminal fragment of YiaD from Escherichia coli. Northeast Structural Genomics Consortium target ER553. 16055.984 Inner membrane lipoprotein yiaD C-terminal residues 79-219 1 man polymer no no YYMDVQEAKLRDKMRGTGVSVTRSGDNIILNMPNNVTFDSSSATLKPAGANTLTGVAMVLKEYPKTAVNVIGYTDSTGGH DLNMRLSQQRADSVASALITQGVDASRIRTQGLGPANPIASNSTAEGKAQNRRVEITLSPLLEHHHHHH YYMDVQEAKLRDKMRGTGVSVTRSGDNIILNMPNNVTFDSSSATLKPAGANTLTGVAMVLKEYPKTAVNVIGYTDSTGGH DLNMRLSQQRADSVASALITQGVDASRIRTQGLGPANPIASNSTAEGKAQNRRVEITLSPLLEHHHHHH A ER553 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 n n n n n n n n n n n n n n n n Escherichia Escherichia coli K12 Escherichia sample yiaD, b3552, JW5657 83333 Escherichia coli 562 Escherichia coli BL21(DE3) pMGK Plasmid pET21 Residues 59-199 of YiaD, lipoprotein, function unknown. Homolog of OmpA-like C-terminal domain. Northeast Structural Genomics Consortium NESG PSI, Protein Structure Initiative database_2 pdbx_database_status pdbx_nmr_software pdbx_nmr_spectrometer struct_ref_seq_dif repository Initial release Source and taxonomy Version format compliance Data collection Database references Other 1 0 2008-05-13 1 1 2011-07-13 1 2 2020-02-19 _pdbx_database_status.status_code_cs _pdbx_nmr_software.name _pdbx_nmr_spectrometer.model _struct_ref_seq_dif.details Y BMRB Y RCSB 2008-03-14 REL REL REL 1114 36 513 357 208 2 0 0 99 99 structures with the least restraint violations 150 20 3.70 0.19 0.01 2D 1H-15N HSQC 2D 1H-13C HSQC 2D 1H-13C HSQC 3D 1H-15N NOESY 3D 1H-13C NOESY 3D 1H-13C NOESY 3D HNCO 3D HNCA 3D HN(CO)CA 3D HNCACB 3D CBCA(CO)NH 3D C(CO)NH 3D HBHA(CO)NH 3D H(CCO)NH 3D HCCH-TOCSY 3D HCCH-COSY 4D CC NOESY 1.9 mM [U-100% 13C; U-100% 15N] 20 mM 100 mM 5 mM 10 mM 0.02 % 1.3 mM [U-5% 13C; U-100% 15N] 20 mM 100 mM 5 mM 10 mM 0.02 % 1.9 mM [U-100% 13C; U-100% 15N] 20 mM 100 mM 5 mM 10 mM 0.02 % 0.1 6.5 ambient 293 K Xplor-NIH and CNS water refinement simulated annealing 1 closest to the average 1.9 mM [U-100% 13C; U-100% 15N] YiaD protein, 20 mM MES, 100 mM sodium chloride, 5 mM calcium chloride, 10 mM DTT, 0.02 % sodium azide, 90% H2O/10% D2O 90% H2O/10% D2O 1.3 mM [U-5% 13C; U-100% 15N] YiaD protein, 20 mM MES, 100 mM sodium chloride, 5 mM calcium chloride, 10 mM DTT, 0.02 % sodium azide, 90% H2O/10% D2O 90% H2O/10% D2O 1.9 mM [U-100% 13C; U-100% 15N] YiaD protein, 20 mM MES, 100 mM sodium chloride, 5 mM calcium chloride, 10 mM DTT, 0.02 % sodium azide, 100% D2O 100% D2O Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax processing NMRPipe linux9 Varian collection VNMR 6.1C Bruker Biospin collection TopSpin 2.1 Huang, Tejero, Powers and Montelione data analysis AutoStructure 2.1.1 Schwieters, Kuszewski, Tjandra and Clore structure solution X-PLOR NIH 2.15.0 Brunger, Adams, Clore, Gros, Nilges and Read refinement CNS 1.1 Goddard data analysis Sparky 3.113 Bhattacharya and Montelione structure solution PSVS 1.3 Zimmerman, Moseley, Kulikowski and Montelione chemical shift assignment AutoAssign 600 Varian INOVA Varian INOVA 850 Bruker AVANCE III Bruker AvanceIII TYR 1 n 1 TYR 1 A TYR 2 n 2 TYR 2 A MET 3 n 3 MET 3 A ASP 4 n 4 ASP 4 A VAL 5 n 5 VAL 5 A GLN 6 n 6 GLN 6 A GLU 7 n 7 GLU 7 A ALA 8 n 8 ALA 8 A LYS 9 n 9 LYS 9 A LEU 10 n 10 LEU 10 A ARG 11 n 11 ARG 11 A ASP 12 n 12 ASP 12 A LYS 13 n 13 LYS 13 A MET 14 n 14 MET 14 A ARG 15 n 15 ARG 15 A GLY 16 n 16 GLY 16 A THR 17 n 17 THR 17 A GLY 18 n 18 GLY 18 A VAL 19 n 19 VAL 19 A SER 20 n 20 SER 20 A VAL 21 n 21 VAL 21 A THR 22 n 22 THR 22 A ARG 23 n 23 ARG 23 A SER 24 n 24 SER 24 A GLY 25 n 25 GLY 25 A ASP 26 n 26 ASP 26 A ASN 27 n 27 ASN 27 A ILE 28 n 28 ILE 28 A ILE 29 n 29 ILE 29 A LEU 30 n 30 LEU 30 A ASN 31 n 31 ASN 31 A MET 32 n 32 MET 32 A PRO 33 n 33 PRO 33 A ASN 34 n 34 ASN 34 A ASN 35 n 35 ASN 35 A VAL 36 n 36 VAL 36 A THR 37 n 37 THR 37 A PHE 38 n 38 PHE 38 A ASP 39 n 39 ASP 39 A SER 40 n 40 SER 40 A SER 41 n 41 SER 41 A SER 42 n 42 SER 42 A ALA 43 n 43 ALA 43 A THR 44 n 44 THR 44 A LEU 45 n 45 LEU 45 A LYS 46 n 46 LYS 46 A PRO 47 n 47 PRO 47 A ALA 48 n 48 ALA 48 A GLY 49 n 49 GLY 49 A ALA 50 n 50 ALA 50 A ASN 51 n 51 ASN 51 A THR 52 n 52 THR 52 A LEU 53 n 53 LEU 53 A THR 54 n 54 THR 54 A GLY 55 n 55 GLY 55 A VAL 56 n 56 VAL 56 A ALA 57 n 57 ALA 57 A MET 58 n 58 MET 58 A VAL 59 n 59 VAL 59 A LEU 60 n 60 LEU 60 A LYS 61 n 61 LYS 61 A GLU 62 n 62 GLU 62 A TYR 63 n 63 TYR 63 A PRO 64 n 64 PRO 64 A LYS 65 n 65 LYS 65 A THR 66 n 66 THR 66 A ALA 67 n 67 ALA 67 A VAL 68 n 68 VAL 68 A ASN 69 n 69 ASN 69 A VAL 70 n 70 VAL 70 A ILE 71 n 71 ILE 71 A GLY 72 n 72 GLY 72 A TYR 73 n 73 TYR 73 A THR 74 n 74 THR 74 A ASP 75 n 75 ASP 75 A SER 76 n 76 SER 76 A THR 77 n 77 THR 77 A GLY 78 n 78 GLY 78 A GLY 79 n 79 GLY 79 A HIS 80 n 80 HIS 80 A ASP 81 n 81 ASP 81 A LEU 82 n 82 LEU 82 A ASN 83 n 83 ASN 83 A MET 84 n 84 MET 84 A ARG 85 n 85 ARG 85 A LEU 86 n 86 LEU 86 A SER 87 n 87 SER 87 A GLN 88 n 88 GLN 88 A GLN 89 n 89 GLN 89 A ARG 90 n 90 ARG 90 A ALA 91 n 91 ALA 91 A ASP 92 n 92 ASP 92 A SER 93 n 93 SER 93 A VAL 94 n 94 VAL 94 A ALA 95 n 95 ALA 95 A SER 96 n 96 SER 96 A ALA 97 n 97 ALA 97 A LEU 98 n 98 LEU 98 A ILE 99 n 99 ILE 99 A THR 100 n 100 THR 100 A GLN 101 n 101 GLN 101 A GLY 102 n 102 GLY 102 A VAL 103 n 103 VAL 103 A ASP 104 n 104 ASP 104 A ALA 105 n 105 ALA 105 A SER 106 n 106 SER 106 A ARG 107 n 107 ARG 107 A ILE 108 n 108 ILE 108 A ARG 109 n 109 ARG 109 A THR 110 n 110 THR 110 A GLN 111 n 111 GLN 111 A GLY 112 n 112 GLY 112 A LEU 113 n 113 LEU 113 A GLY 114 n 114 GLY 114 A PRO 115 n 115 PRO 115 A ALA 116 n 116 ALA 116 A ASN 117 n 117 ASN 117 A PRO 118 n 118 PRO 118 A ILE 119 n 119 ILE 119 A ALA 120 n 120 ALA 120 A SER 121 n 121 SER 121 A ASN 122 n 122 ASN 122 A SER 123 n 123 SER 123 A THR 124 n 124 THR 124 A ALA 125 n 125 ALA 125 A GLU 126 n 126 GLU 126 A GLY 127 n 127 GLY 127 A LYS 128 n 128 LYS 128 A ALA 129 n 129 ALA 129 A GLN 130 n 130 GLN 130 A ASN 131 n 131 ASN 131 A ARG 132 n 132 ARG 132 A ARG 133 n 133 ARG 133 A VAL 134 n 134 VAL 134 A GLU 135 n 135 GLU 135 A ILE 136 n 136 ILE 136 A THR 137 n 137 THR 137 A LEU 138 n 138 LEU 138 A SER 139 n 139 SER 139 A PRO 140 n 140 PRO 140 A LEU 141 n 141 LEU 141 A LEU 142 n 142 LEU 142 A GLU 143 n 143 GLU 143 A HIS 144 n 144 HIS 144 A HIS 145 n 145 HIS 145 A HIS 146 n 146 HIS 146 A HIS 147 n 147 HIS 147 A HIS 148 n 148 HIS 148 A HIS 149 n 149 HIS 149 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 THR 22 A N THR 22 A O ILE 29 A O ILE 29 A N MET 32 A N MET 32 A O VAL 134 A O VAL 134 A O SER 139 A O SER 139 A N ALA 67 A N ALA 67 A N VAL 70 A N VAL 70 A O ARG 109 A O ARG 109 1 A A HZ3 OE1 LYS GLU 9 62 1.58 3 A A HG H LEU GLU 142 143 1.30 4 A A OD2 HG1 ASP THR 75 77 1.60 5 A A OD1 HG ASP SER 104 106 1.57 5 A A HZ2 OE1 LYS GLU 9 62 1.58 8 A A HH22 OE2 ARG GLU 133 135 1.55 9 A A H O ALA SER 67 139 1.60 13 A A OD2 HG ASP SER 104 106 1.55 14 A A HH21 OE2 ARG GLU 133 135 1.59 14 A A H1 OD1 TYR ASP 1 4 1.59 14 A A OD2 HZ1 ASP LYS 75 128 1.59 16 A A O HG GLY SER 72 87 1.59 17 A A O HG SER SER 41 42 1.58 19 A A H2 OD1 TYR ASP 1 4 1.59 1 A TYR 2 74.78 -44.43 1 A ASP 39 -75.64 -77.30 1 A SER 40 -95.82 -71.81 1 A SER 41 -155.21 -42.79 1 A ALA 43 -66.86 95.46 1 A THR 74 -171.42 148.31 1 A PRO 115 -78.44 34.77 1 A ALA 116 -109.53 -62.51 1 A LEU 141 -55.59 109.47 1 A GLU 143 58.98 95.42 2 A MET 3 74.03 -55.64 2 A MET 14 -88.22 32.03 2 A ARG 15 -56.30 106.29 2 A ASP 26 74.03 -44.44 2 A SER 42 56.06 -173.27 2 A ALA 43 71.01 -49.99 2 A PRO 64 -88.40 33.40 2 A ASP 75 -104.89 -157.36 2 A PRO 115 -76.42 35.91 2 A ASN 117 54.59 71.00 2 A HIS 147 -128.46 -94.60 3 A PHE 38 -113.01 -157.66 3 A PRO 64 -79.83 29.15 3 A THR 74 175.93 119.66 3 A SER 76 -69.90 74.52 3 A PRO 115 -81.07 33.30 3 A SER 121 -56.20 106.90 3 A LEU 141 -83.44 -90.15 3 A LEU 142 57.15 -157.02 3 A GLU 143 62.87 -167.39 3 A HIS 144 70.83 -64.78 4 A MET 3 75.04 -39.17 4 A SER 41 -126.67 -169.34 4 A SER 42 61.87 -163.03 4 A THR 74 -171.68 -166.06 4 A ASP 75 -113.52 -163.96 4 A LEU 113 63.34 86.92 4 A PRO 115 -84.56 41.99 4 A ASN 117 69.12 87.33 4 A HIS 146 -90.06 -70.50 4 A HIS 147 55.89 -97.87 4 A HIS 148 167.01 -52.31 5 A ASP 39 -48.68 -86.17 5 A SER 40 -98.71 -65.58 5 A SER 41 -159.38 18.89 5 A ASN 117 64.22 88.52 5 A HIS 144 -141.96 -70.13 5 A HIS 145 39.46 52.98 5 A HIS 146 60.81 -96.21 5 A HIS 147 177.50 94.19 6 A TYR 2 -147.33 -65.86 6 A ARG 15 -69.77 98.36 6 A ASP 26 -144.87 22.20 6 A ASP 39 -66.30 -89.88 6 A SER 40 -97.89 -71.90 6 A SER 41 -145.96 13.31 6 A GLU 143 65.53 99.42 7 A TYR 2 -161.36 -67.10 7 A ASP 39 -79.96 -161.45 7 A SER 76 56.77 13.69 7 A PRO 115 -86.70 36.66 7 A ARG 132 -66.65 96.21 8 A MET 3 75.81 -44.38 8 A MET 14 -80.75 -85.87 8 A ARG 15 52.83 -89.12 8 A LYS 65 -93.04 38.85 8 A PRO 118 -69.58 96.52 8 A SER 121 -65.40 97.23 8 A HIS 145 -55.24 107.43 9 A TYR 2 -158.94 -72.14 9 A MET 14 -98.33 35.62 9 A ASP 39 -62.84 -71.84 9 A SER 40 -95.95 -73.35 9 A SER 41 -179.37 -1.56 9 A LEU 141 -64.87 99.47 9 A GLU 143 66.38 -176.10 9 A HIS 144 70.31 -34.28 9 A HIS 147 41.55 85.25 9 A HIS 148 -176.91 -66.40 10 A TYR 2 -143.83 -54.04 10 A ASP 39 -64.39 -75.68 10 A SER 40 -96.46 -65.47 10 A SER 41 174.25 -23.78 10 A SER 42 -73.10 46.59 10 A ASN 117 36.47 74.67 10 A GLU 143 -161.16 50.40 10 A HIS 147 174.28 -33.57 11 A ASP 26 72.49 -45.50 11 A THR 37 -128.20 -63.05 11 A ASP 39 -72.98 -76.30 11 A SER 40 -95.04 -63.61 11 A SER 41 -164.82 -26.16 11 A SER 42 -77.55 -169.12 11 A ALA 43 -83.94 31.30 11 A HIS 144 -114.48 60.53 11 A HIS 148 57.31 -98.97 12 A MET 3 74.58 -36.14 12 A SER 42 66.03 -171.01 12 A HIS 80 -47.78 -71.23 12 A ASN 117 62.23 68.42 12 A ALA 120 -129.74 -169.11 12 A LEU 142 -68.95 -179.41 12 A HIS 148 51.49 -88.34 13 A TYR 2 77.97 -49.24 13 A MET 14 -98.75 32.79 13 A ASP 26 71.09 -30.58 13 A SER 42 -122.06 -164.90 13 A ASN 117 68.41 84.81 13 A HIS 144 -142.02 22.02 13 A HIS 145 72.43 -63.11 13 A HIS 147 -131.35 -69.71 13 A HIS 148 60.28 -90.83 14 A ARG 15 -51.37 -83.09 14 A ASP 39 -85.70 -148.88 14 A SER 42 61.05 -161.40 14 A ALA 43 -107.13 65.46 14 A LEU 141 -78.12 45.97 14 A LEU 142 58.62 -171.82 15 A TYR 2 -172.69 -67.12 15 A MET 14 -103.83 47.25 15 A PRO 64 -79.06 25.81 15 A ASN 117 64.05 75.81 15 A HIS 145 -145.52 -87.49 15 A HIS 147 58.47 -97.73 16 A TYR 2 73.00 134.47 16 A MET 3 75.18 -45.96 16 A THR 37 -138.91 -56.76 16 A PHE 38 -107.60 -161.28 16 A ASP 39 -82.73 -159.61 16 A SER 41 -144.84 -34.84 16 A SER 42 -80.19 -102.39 16 A ALA 43 -171.45 21.47 16 A PRO 64 -83.30 31.77 16 A SER 76 -62.19 98.95 16 A ARG 132 -82.05 36.12 16 A HIS 148 65.37 103.47 17 A TYR 2 167.97 123.79 17 A MET 3 74.47 -36.79 17 A SER 42 58.09 -168.63 17 A PRO 64 -78.64 48.87 17 A THR 77 49.19 -89.99 17 A GLU 143 -57.53 98.85 17 A HIS 145 -163.20 -96.82 17 A HIS 146 164.54 -78.50 18 A TYR 2 74.44 -60.24 18 A MET 14 -87.41 30.53 18 A ASP 26 72.09 -53.55 18 A SER 42 -176.61 -172.90 18 A PRO 64 -84.91 41.15 18 A SER 76 -174.67 139.06 19 A TYR 2 -132.82 -75.06 19 A ASP 75 -75.14 -79.79 19 A SER 76 -178.15 29.98 19 A PRO 115 -77.66 32.54 19 A HIS 148 73.12 -15.12 20 A TYR 2 -143.20 -68.54 20 A ARG 15 -91.43 -73.38 20 A ASP 39 -83.99 -149.28 20 A SER 41 -159.49 -20.36 20 A PRO 64 -92.85 38.32 20 A THR 74 -114.94 54.07 20 A ASP 75 41.08 -106.91 20 A SER 76 -158.68 -15.60 20 A HIS 80 -89.27 -81.92 20 A PRO 115 -76.87 34.19 20 A HIS 147 -107.78 -87.38 20 A HIS 148 61.93 -73.37 Inner membrane lipoprotein yiaD residues 59-199 of YiaD, lipoprotein, function unknown. Homolog of OmpA-like C-terminal domain. Solution NMR structure of the folded C-terminal fragment of YiaD from Escherichia coli. Northeast Structural Genomics Consortium target ER553. 1 N N A MET 3 A MET 3 HELX_P A MET 14 A MET 14 1 1 12 A ASN 34 A ASN 34 HELX_P A PHE 38 A PHE 38 1 2 5 A LYS 46 A LYS 46 HELX_P A TYR 63 A TYR 63 1 3 18 A GLY 79 A GLY 79 HELX_P A GLY 102 A GLY 102 1 4 24 A ASP 104 A ASP 104 HELX_P A SER 106 A SER 106 5 5 3 A THR 124 A THR 124 HELX_P A ARG 132 A ARG 132 1 6 9 LIPOPROTEIN abbababab, OmpA, lipoprotein, alpha beta, Inner membrane, Membrane, Palmitate, Transmembrane, Structural Genomics, PSI-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, NESG YIAD_ECOLI UNP 1 79 P37665 YYMDVQEAKLRDKMRGTGVSVTRSGDNIILNMPNNVTFDSSSATLKPAGANTLTGVAMVLKEYPKTAVNVIGYTDSTGGH DLNMRLSQQRADSVASALITQGVDASRIRTQGLGPANPIASNSTAEGKAQNRRVEITLSPL 79 219 2K1S 1 141 P37665 A 1 1 141 1 expression tag LEU 142 2K1S A P37665 UNP 142 1 expression tag GLU 143 2K1S A P37665 UNP 143 1 expression tag HIS 144 2K1S A P37665 UNP 144 1 expression tag HIS 145 2K1S A P37665 UNP 145 1 expression tag HIS 146 2K1S A P37665 UNP 146 1 expression tag HIS 147 2K1S A P37665 UNP 147 1 expression tag HIS 148 2K1S A P37665 UNP 148 1 expression tag HIS 149 2K1S A P37665 UNP 149 5 anti-parallel anti-parallel anti-parallel parallel A SER 20 A SER 20 A SER 24 A SER 24 A ASN 27 A ASN 27 A PRO 33 A PRO 33 A ARG 133 A ARG 133 A PRO 140 A PRO 140 A THR 66 A THR 66 A TYR 73 A TYR 73 A ILE 108 A ILE 108 A GLY 112 A GLY 112