1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Uteng, M. Hauge, H.H. Markwick, P.R. Fimland, G. Mantzilas, D. Nissen-Meyer, J. Muhle-Goll, C. 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 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 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 H15 N2 O2 1 147.195 y LYSINE 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 US Biochemistry BICHAW 0033 0006-2960 42 11417 10.1021/BI034572I 14516192 Three-Dimensional Structure in Lipid Micelles of the Pediocin-Like Antimicrobial Peptide Sakacin P and a Sakacin P Variant that is Structurally Stabilized by an Inserted C-Terminal Disulfide Bridge 2003 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 SAKACIN P VARIANT THAT IS STRUCTURALLY STABILIZED BY AN INSERTED C-TERMINAL DISULFIDE BRIDGE. 4534.000 BACTERIOCIN SAKACIN P YES 1 man polymer SAKACIN 674 no no KYYGNGVHCGKHSCTVDWGTAIGCIGNNAAANWATGGNAGWNKC KYYGNGVHCGKHSCTVDWGTAIGCIGNNAAANWATGGNAGWNKC 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 LB790 sample 1599 LACTOBACILLUS SAKE LB790/PGF10 1599 LACTOBACILLUS SAKE LB790 LB790/PGF10 PMG36E PGF10 repository Initial release Version format compliance Version format compliance 1 0 2003-09-22 1 1 2011-05-08 1 2 2011-07-13 THREE-DIMENSIONAL STRUCTURE IN LIPID MICELLES OF THE PEDIOCIN-LIKE ANTIMICROBIAL PEPTIDE SAKACIN P. THREE-DIMENSIONAL STRUCTURE IN LIPID MICELLES OF THE PEDIOCIN-LIKE ANTIMICROBIAL PEPTIDE SAKACIN P. PDBE Y PDBE 2003-05-28 REL ENGINEERED MUTATION IN CHAIN A: CYS 42 TO ASN 42 SAKACIN P VARIANT THAT IS STRUCTURALLY STABILIZED BY AN INSERTED C-TERMINAL DISULFIDE BRIDGE. THE SEQUENCE IS DESCRIBED IN J. BACTERIOL. 182, 2643-2648 THE STRUCTURES WERE DETERMINED USING A COMBINATION OF 1H NMR SPECTROSCOPIC METHODS FOLLOWED BY DISTANCE GEOMETRY/SIMULATED ANNEALING CALCULATIONS. LEAST RESTRAIN VIOLATION AND OVERALL ENERGY 50 10 NOESY TOCSY 2.8 pH 298 K AMBER 6, SAN FRANCISCO, UNIVERSITY OF CALIFORNIA, 1999. MOLECULAR DYNAMICS/ SIMULATED ANNEALING 1 250 MM DPC/10% D2O/ 0.1% TFA/1MM PEPTIDE CASE, D.A., PEARLMAN, D.A., CALDWELL, III, J.C., ET AL. refinement AMBER 6 structure solution ARIA structure solution AMBER 500 Bruker DRX LYS 1 n 1 LYS 1 A TYR 2 n 2 TYR 2 A TYR 3 n 3 TYR 3 A GLY 4 n 4 GLY 4 A ASN 5 n 5 ASN 5 A GLY 6 n 6 GLY 6 A VAL 7 n 7 VAL 7 A HIS 8 n 8 HIS 8 A CYS 9 n 9 CYS 9 A GLY 10 n 10 GLY 10 A LYS 11 n 11 LYS 11 A HIS 12 n 12 HIS 12 A SER 13 n 13 SER 13 A CYS 14 n 14 CYS 14 A THR 15 n 15 THR 15 A VAL 16 n 16 VAL 16 A ASP 17 n 17 ASP 17 A TRP 18 n 18 TRP 18 A GLY 19 n 19 GLY 19 A THR 20 n 20 THR 20 A ALA 21 n 21 ALA 21 A ILE 22 n 22 ILE 22 A GLY 23 n 23 GLY 23 A CYS 24 n 24 CYS 24 A ILE 25 n 25 ILE 25 A GLY 26 n 26 GLY 26 A ASN 27 n 27 ASN 27 A ASN 28 n 28 ASN 28 A ALA 29 n 29 ALA 29 A ALA 30 n 30 ALA 30 A ALA 31 n 31 ALA 31 A ASN 32 n 32 ASN 32 A TRP 33 n 33 TRP 33 A ALA 34 n 34 ALA 34 A THR 35 n 35 THR 35 A GLY 36 n 36 GLY 36 A GLY 37 n 37 GLY 37 A ASN 38 n 38 ASN 38 A ALA 39 n 39 ALA 39 A GLY 40 n 40 GLY 40 A TRP 41 n 41 TRP 41 A ASN 42 n 42 ASN 42 A LYS 43 n 43 LYS 43 A CYS 44 n 44 CYS 44 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 1 A A VAL ASP 16 17 138.76 1 A A ASN LYS 42 43 -92.42 2 A A THR GLY 35 36 147.79 2 A A ASN LYS 42 43 139.93 3 A A VAL ASP 16 17 119.72 3 A A ASN TRP 32 33 -137.71 3 A A THR GLY 35 36 143.80 3 A A ASN LYS 42 43 141.24 5 A A ASN LYS 42 43 -114.84 6 A A CYS THR 14 15 -148.78 6 A A VAL ASP 16 17 143.77 6 A A ASN TRP 32 33 -129.59 7 A A VAL ASP 16 17 141.02 7 A A GLY GLY 36 37 142.57 7 A A ASN LYS 42 43 -141.74 7 A A LYS CYS 43 44 125.05 8 A A VAL ASP 16 17 118.74 8 A A ASN TRP 32 33 -147.90 8 A A THR GLY 35 36 148.21 8 A A GLY GLY 36 37 146.91 9 A A THR GLY 35 36 147.12 9 A A ASN LYS 42 43 -104.84 10 A A CYS THR 14 15 -138.72 10 A A THR VAL 15 16 -149.10 10 A A LYS CYS 43 44 -124.87 2 A HIS 8 0.091 SIDE CHAIN 1 8.35 1.10 114.20 122.55 A A A CA CB SG CYS CYS CYS 9 9 9 N 2 7.46 1.20 111.50 118.96 A A A CB CA C CYS CYS CYS 9 9 9 N 5 15.86 2.50 121.70 137.56 A A A C N CA THR VAL VAL 15 16 16 Y 9 15.35 2.50 121.70 137.05 A A A C N CA GLY ASN ASN 37 38 38 Y 10 15.41 2.50 121.70 137.11 A A A C N CA HIS SER SER 12 13 13 Y 10 10.37 1.50 110.90 121.27 A A A CA CB CG1 VAL VAL VAL 16 16 16 N 1 A VAL 7 51.39 150.04 1 A CYS 9 -153.93 -128.63 1 A SER 13 172.62 -44.97 1 A CYS 14 -74.42 -74.01 1 A THR 15 52.89 -127.44 1 A VAL 16 48.82 95.51 1 A ALA 29 -56.79 -72.97 1 A TRP 33 -178.63 -126.04 1 A THR 35 -158.23 57.95 1 A ASN 38 -153.62 7.30 1 A ALA 39 52.63 19.98 1 A ASN 42 -164.52 3.72 2 A CYS 9 144.20 -175.23 2 A LYS 11 -56.53 -5.24 2 A TRP 18 -68.88 23.45 2 A CYS 24 -52.96 -73.45 2 A TRP 33 175.59 -135.24 2 A THR 35 139.51 86.84 2 A ASN 42 -53.25 -2.24 3 A CYS 14 61.41 81.82 3 A VAL 16 -14.31 112.11 3 A TRP 33 172.92 -122.30 3 A ALA 34 -145.13 -34.15 3 A ALA 39 -76.88 20.30 3 A ASN 42 -57.14 2.25 4 A VAL 7 49.60 -95.96 4 A HIS 8 97.07 99.11 4 A LYS 11 61.46 -26.33 4 A SER 13 172.47 -169.67 4 A THR 15 -142.86 -133.81 4 A VAL 16 -146.19 -1.19 4 A ASP 17 102.34 -18.23 4 A TRP 18 -154.04 7.92 4 A CYS 24 -55.74 -74.08 4 A TRP 33 146.04 -101.61 4 A ALA 34 -154.84 43.49 4 A THR 35 56.09 79.86 4 A ASN 42 147.49 8.26 4 A LYS 43 1.28 82.38 5 A TYR 3 -34.77 114.60 5 A ASN 5 -141.07 -6.79 5 A HIS 8 -156.89 89.11 5 A HIS 12 -116.13 -124.69 5 A CYS 14 -128.32 -66.39 5 A THR 15 54.04 -174.78 5 A ALA 29 -55.61 -72.67 5 A TRP 33 -153.35 -55.46 5 A ASN 38 -144.05 -48.62 5 A ALA 39 58.90 -26.36 5 A ASN 42 -162.77 0.18 5 A LYS 43 -27.81 138.95 6 A TYR 2 85.46 95.06 6 A TYR 3 -135.21 -69.06 6 A VAL 7 -20.84 136.20 6 A HIS 12 -102.35 -82.91 6 A CYS 14 54.28 92.68 6 A THR 15 -121.64 -55.78 6 A TRP 18 -53.47 -6.28 6 A TRP 33 157.86 -118.05 6 A THR 35 118.84 100.49 6 A ASN 42 149.66 25.34 6 A LYS 43 -24.34 108.21 7 A ASN 5 -118.29 -77.95 7 A HIS 8 33.57 77.64 7 A CYS 9 -102.35 -86.20 7 A CYS 14 -66.12 -87.00 7 A THR 15 61.01 -60.25 7 A TRP 33 147.26 -106.33 7 A ALA 34 -165.00 -33.99 7 A ASN 42 -152.51 12.29 7 A LYS 43 46.77 173.13 8 A ASN 5 -63.39 10.57 8 A LYS 11 -72.01 40.97 8 A HIS 12 -131.32 -118.20 8 A CYS 14 62.95 86.71 8 A CYS 24 -56.48 -70.20 8 A TRP 33 170.80 -113.43 8 A ALA 34 -154.19 -39.04 8 A ASN 42 153.13 20.28 8 A LYS 43 -15.05 94.50 9 A ASN 5 59.84 -22.91 9 A HIS 12 -116.33 -87.70 9 A CYS 14 65.66 158.97 9 A TRP 18 101.18 -54.33 9 A TRP 33 175.51 -123.83 9 A ASN 38 127.63 -32.30 9 A ALA 39 -159.11 -4.55 9 A ASN 42 170.57 21.70 9 A LYS 43 -32.99 103.13 10 A VAL 7 -46.50 157.75 10 A SER 13 -84.30 -71.46 10 A ASP 17 132.36 -47.23 10 A TRP 33 141.12 -105.38 10 A THR 35 102.56 66.20 10 A ASN 42 -152.20 7.08 10 A LYS 43 62.95 -27.31 BACTERIOCIN SAKACIN P Sakacin P variant that is structurally stabilized by an inserted C-terminal disulfide bridge. 1 N N A TRP 18 A TRP 18 HELX_P A TRP 33 A TRP 33 1 1 16 disulf 2.009 A CYS 9 A SG CYS 9 1_555 A CYS 14 A SG CYS 14 1_555 disulf 2.048 A CYS 24 A SG CYS 24 1_555 A CYS 44 A SG CYS 44 1_555 ANTIBIOTIC ANTIBIOTIC, PEDIOCIN-LIKE BACTERIOCINS, ANTIMICROBIAL PEPTIDES, SAKACIN ANTIBIOTIC, BACTERIOCIN A CYS 9 A CYS 9 2 A GLY 10 A GLY 10 10.04 A THR 15 A THR 15 5 A VAL 16 A VAL 16 4.27 A ASN 32 A ASN 32 5 A TRP 33 A TRP 33 2.79 A HIS 12 A HIS 12 10 A SER 13 A SER 13 5.93 SAKP_LACSK UNP 1 P35618 1OHM PDB 1 1OHM 19 61 1OHM 1 43 P35618 A 1 1 43 44 44 1OHM 44 44 1OHM A 2 44 44 1 ASN engineered mutation CYS 24 1OHM A P35618 UNP 42 24 1 insertion CYS 44 1OHM A 1OHM PDB 44 1 P 1