PFRMAT DP TARGET T0346 AUTHOR BAKER-ROSETTADOM METHOD ROBETTA provides both ab initio and METHOD comparative models of protein domains. It METHOD uses the ROSETTA fragment insertion method METHOD [Simons et al. (1997) J Mol Biol 268:209-225]. METHOD Comparative models are built from structures METHOD detected by PSI-BLAST or 3DJury-A1 METHOD and aligned by the K*SYNC alignment method. METHOD Loop regions are assembled from fragments and METHOD optimized to fit the aligned template structure. METHOD The procedure is fully automated. METHOD METHOD ROSETTADOM provides de novo domain predictions METHOD by using ROSETTA to generate ab initio models METHOD and then finding consistent domain boundaries METHOD using Taylor's method. GINZU predictions are METHOD given for queries that are homologous to METHOD sequences with known structures. METHOD METHOD REFERENCES: METHOD (1) Kim DE, et al. (2005) Proteins 61 Suppl 7:193-200 METHOD ------------- MODEL 1 REMARK GINZU PREDICTION REMARK PARENT 2gw2A_ REMARK PARSRC pdbblast REMARK SCORE 0.98 1 S 1 0.98 2 P 1 0.98 3 Q 1 0.98 4 C 1 0.98 5 H 1 0.98 6 F 1 0.98 7 D 1 0.98 8 I 1 0.98 9 E 1 0.98 10 I 1 0.98 11 N 1 0.98 12 R 1 0.98 13 E 1 0.98 14 P 1 0.98 15 V 1 0.98 16 G 1 0.98 17 R 1 0.98 18 I 1 0.98 19 M 1 0.98 20 F 1 0.98 21 Q 1 0.98 22 L 1 0.98 23 F 1 0.98 24 S 1 0.98 25 D 1 0.98 26 I 1 0.98 27 C 1 0.98 28 P 1 0.98 29 K 1 0.98 30 T 1 0.98 31 C 1 0.98 32 K 1 0.98 33 N 1 0.98 34 F 1 0.98 35 L 1 0.98 36 C 1 0.98 37 L 1 0.98 38 C 1 0.98 39 S 1 0.98 40 G 1 0.98 41 E 1 0.98 42 K 1 0.98 43 G 1 0.98 44 L 1 0.98 45 G 1 0.98 46 K 1 0.98 47 T 1 0.98 48 T 1 0.98 49 G 1 0.98 50 K 1 0.98 51 K 1 0.98 52 L 1 0.98 53 C 1 0.98 54 Y 1 0.98 55 K 1 0.98 56 G 1 0.98 57 S 1 0.98 58 T 1 0.98 59 F 1 0.98 60 H 1 0.98 61 R 1 0.98 62 V 1 0.98 63 V 1 0.98 64 K 1 0.98 65 N 1 0.98 66 F 1 0.98 67 M 1 0.98 68 I 1 0.98 69 Q 1 0.98 70 G 1 0.98 71 G 1 0.98 72 D 1 0.98 73 F 1 0.98 74 S 1 0.98 75 E 1 0.98 76 G 1 0.98 77 N 1 0.98 78 G 1 0.98 79 K 1 0.98 80 G 1 0.98 81 G 1 0.98 82 E 1 0.98 83 S 1 0.98 84 I 1 0.98 85 Y 1 0.98 86 G 1 0.98 87 G 1 0.98 88 Y 1 0.98 89 F 1 0.98 90 K 1 0.98 91 D 1 0.98 92 E 1 0.98 93 N 1 0.98 94 F 1 0.98 95 I 1 0.98 96 L 1 0.98 97 K 1 0.98 98 H 1 0.98 99 D 1 0.98 100 R 1 0.98 101 A 1 0.98 102 F 1 0.98 103 L 1 0.98 104 L 1 0.98 105 S 1 0.98 106 M 1 0.98 107 A 1 0.98 108 N 1 0.98 109 R 1 0.98 110 G 1 0.98 111 K 1 0.98 112 H 1 0.98 113 T 1 0.98 114 N 1 0.98 115 G 1 0.98 116 S 1 0.98 117 Q 1 0.98 118 F 1 0.98 119 F 1 0.98 120 I 1 0.98 121 T 1 0.98 122 T 1 0.98 123 K 1 0.98 124 P 1 0.98 125 A 1 0.98 126 P 1 0.98 127 H 1 0.98 128 L 1 0.98 129 D 1 0.98 130 G 1 0.98 131 V 1 0.98 132 H 1 0.98 133 V 1 0.98 134 V 1 0.98 135 F 1 0.98 136 G 1 0.98 137 L 1 0.98 138 V 1 0.98 139 I 1 0.98 140 S 1 0.98 141 G 1 0.98 142 F 1 0.98 143 E 1 0.98 144 V 1 0.98 145 I 1 0.98 146 E 1 0.98 147 Q 1 0.98 148 I 1 0.98 149 E 1 0.98 150 N 1 0.98 151 L 1 0.98 152 K 1 0.98 153 T 1 0.98 154 D 1 0.98 155 A 1 0.98 156 A 1 0.98 157 S 1 0.98 158 R 1 0.98 159 P 1 0.98 160 Y 1 0.98 161 A 1 0.98 162 D 1 0.98 163 V 1 0.98 164 R 1 0.98 165 V 1 0.98 166 I 1 0.98 167 D 1 0.98 168 C 1 0.98 169 G 1 0.98 170 V 1 0.98 171 L 1 0.98 172 A 1 0.98 END