# List of top-scoring protein chains for t2k.100-30-stride-ebghtl hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.soe.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 2uxuA 210 7.10e-02 1j54A 186 1.71e-01 c.55.3.5 77077 2guiA 194 1.73e-01 c.55.3.5 135737 1j53A 186 1.76e-01 c.55.3.5 77076 1iurA 88 2.11e-01 a.2.3.1 90704 2dbbA 151 3.29e-01 1s9aA 257 7.31e-01 b.3.6.1 105379 3bhwA 209 1.59e+00 1i1gA 141 1.80e+00 a.4.5.32 65982 d.58.4.2 65983 2q4fA 149 1.97e+00 a.24.10.2 139847 1omwA 689 2.28e+00 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 2z8aA 146 2.35e+00 2ia0A 171 2.42e+00 2boqA 331 2.50e+00 1fxxA 482 2.55e+00 1fxxA c.55.3.5 33726 1ri7A 171 2.62e+00 a.4.5.32 97504 d.58.4.2 97505 1yviA 149 2.63e+00 a.24.10.2 124099 1kqfC 217 2.90e+00 f.21.1.1 72874 2i6eA 301 2.91e+00 1j6rA 214 2.91e+00 d.173.1.2 71598 1nrjA 158 3.32e+00 d.110.4.4 86124 1tv8A 340 3.32e+00 c.1.28.3 107352 1mtzA 293 3.44e+00 c.69.1.7 79467 2cblA 305 3.71e+00 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1b8xA 280 3.90e+00 1b8xA a.45.1.1 17739 c.47.1.5 33033 2cfxA 144 4.23e+00 a.4.5.32 130395 d.58.4.2 130396 1ls6A 295 4.32e+00 c.37.1.5 91115 2qxfA 482 4.53e+00 1r7lA 110 4.53e+00 d.277.1.1 104837 1lxyA 409 4.54e+00 d.126.1.4 91154 1s9rA 410 4.93e+00 d.126.1.4 98758 2pn6A 150 5.18e+00 1b80A 351 5.37e+00 1arv a.93.1.1 18579 2qz8A 149 5.39e+00 1b47A 304 5.43e+00 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 2p5vA 162 5.49e+00 2e7xA 150 5.68e+00 1f4tA 368 5.82e+00 1f4tA a.104.1.1 18973 2cyyA 151 5.89e+00 a.4.5.32 131028 d.58.4.2 131029 1b85A 351 5.92e+00 1arv a.93.1.1 18581 1dugA 234 6.38e+00 1b8xA a.45.1.1 17718 c.47.1.5 33012 1kq8A 100 6.42e+00 a.4.5.14 68797 1np7A 489 6.46e+00 a.99.1.1 80677 c.28.1.1 80678 2fb2A 340 6.56e+00 1ehkA 562 6.73e+00 1ehkA f.24.1.1 43624 3bhyA 283 7.26e+00 2cg4A 152 7.70e+00 a.4.5.32 130417 d.58.4.2 130418 2ivmA 150 7.97e+00 2f2uA 402 8.14e+00 1ktjA 129 8.24e+00 b.1.18.7 72974 1keyA 235 8.35e+00 a.118.16.1 72389 1xqwA 293 8.46e+00 2booA 247 8.56e+00 1llpA 343 9.34e+00 a.93.1.1 18578 2i9wA 184 9.51e+00 1yovA 537 9.85e+00 c.111.1.2 123785 3sdhA 146 9.86e+00 3sdhA a.1.1.2 14984 1u5tB 169 1.07e+01 a.4.5.54 107686 a.4.5.54 107687 2dtcA 126 1.08e+01 3buxB 329 1.08e+01 2ejwA 332 1.16e+01 1xmeA 568 1.18e+01 f.24.1.1 122143 2v3aA 384 1.18e+01 1cuk 203 1.19e+01 1hjp 1cukA 203 1.19e+01 a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 2i7nA 360 1.23e+01 1zbsA 291 1.29e+01 c.55.1.5 124870 c.55.1.5 124871 1mzgA 146 1.31e+01 d.224.1.1 79696 2f7tA 227 1.31e+01 2hwvA 121 1.34e+01 2hi4A 495 1.37e+01 1m9zA 111 1.38e+01 g.7.1.3 78881 1ahjA 207 1.38e+01 2ahjA d.149.1.1 41774 2os0A 188 1.38e+01 2cqnA 77 1.44e+01 a.159.2.1 130726 1s69A 124 1.45e+01 a.1.1.1 105305 2osoA 163 1.48e+01 2qdyA 207 1.49e+01 2ahjA 206 1.50e+01 2ahjA d.149.1.1 41772 1ktzB 122 1.55e+01 g.7.1.3 68868 1jksA 294 1.55e+01 d.144.1.7 71710 2cz1A 206 1.59e+01 d.149.1.1 131033 1ndbA 596 1.63e+01 c.43.1.3 80411 c.43.1.3 80412 2bg9E 370 1.71e+01 1z5zA 271 1.81e+01 c.37.1.19 124499 2ew5A 181 1.82e+01 1o4sA 389 1.86e+01 c.67.1.1 86620 1v3yA 192 1.90e+01 d.167.1.1 113508 1f39A 101 1.92e+01 1umuA b.87.1.1 28386 1z63A 500 1.95e+01 c.37.1.19 124502 c.37.1.19 124503 2zg5A 397 1.99e+01 2glzA 153 2.05e+01 d.81.3.1 135348 1lvaA 258 2.05e+01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1wsuA 124 2.05e+01 a.4.5.35 121245 a.4.5.35 121246 1yvhA 329 2.07e+01 a.39.1.7 124096 a.48.1.1 124097 d.93.1.1 124098 1h97A 147 2.10e+01 1h97A a.1.1.2 60812 2rccA 346 2.12e+01 1yd0A 96 2.15e+01 2pn8A 211 2.17e+01 1dm1A 146 2.19e+01 2fal a.1.1.2 15153 1wvtA 172 2.19e+01 2i51A 195 2.21e+01 1e5kA 201 2.24e+01 1fr9A c.68.1.8 34578 2a2aA 321 2.26e+01 1zkrA 153 2.28e+01 a.101.1.1 125209 a.101.1.1 125210 2ejnA 153 2.28e+01 a.101.1.1 132279 a.101.1.1 132280 2ywiA 196 2.32e+01 1uzcA 71 2.39e+01 a.159.2.1 100222 2i7pA 362 2.43e+01 1qpaA 345 2.43e+01 1arv a.93.1.1 18585 1ihuA 589 2.43e+01 c.37.1.10 62394 c.37.1.10 62395 2govA 195 2.54e+01 d.60.1.4 135447 1dmtA 696 2.56e+01 1dmtA d.92.1.4 40296 2gtsA 86 2.60e+01 1lnwA 147 2.66e+01 a.4.5.28 78104 3bwgA 239 2.69e+01 2izrA 330 2.78e+01 1iq9A 61 2.86e+01 g.7.1.1 90669 1kfrA 147 2.88e+01 a.1.1.2 72424 1mbaA 146 2.91e+01 a.1.1.2 15149 1mba 147 2.92e+01 2fal 1i1sA 96 2.96e+01 1bjaA a.4.5.9 16124 1wn0A 145 3.00e+01 a.24.10.2 121070 2p8eA 307 3.00e+01 1sctB 151 3.04e+01 3sdhA a.1.1.2 15003 1wdxA 69 3.11e+01 2oo2A 86 3.13e+01 2dhoA 235 3.14e+01 2igtA 332 3.17e+01 c.66.1.51 137401 1tg0A 68 3.24e+01 2b7uA 257 3.33e+01 2hnfA 133 3.43e+01 3ccyA 203 3.44e+01 2icjA 233 3.52e+01 1g87A 614 3.55e+01 a.102.1.2 83275 b.2.2.2 83276 1vddA 228 3.55e+01 e.49.1.1 108519 1s5aA 150 3.62e+01 d.17.4.10 98525 1vm6A 228 3.69e+01 c.2.1.3 118631 d.81.1.3 108877 1qjbA 245 3.70e+01 1qjaA a.118.7.1 19202 1no1A 126 3.71e+01 a.179.1.1 85913 1qvbA 481 3.74e+01 1qvbA c.1.8.4 28983 3sil 379 3.74e+01 3sil 3silA 379 3.74e+01 b.68.1.1 27542 1zyeA 220 3.78e+01 c.47.1.10 125817 1ede 310 3.79e+01 1b6g 1puoA 170 3.83e+01 a.101.1.1 95134 a.101.1.1 95135 1qxhA 167 3.83e+01 c.47.1.10 96528 1lmeA 176 3.87e+01 d.167.1.1 84629 2d1vA 108 3.88e+01 2ejxA 139 3.96e+01 1eemA 241 3.97e+01 1eemA a.45.1.1 17717 c.47.1.5 33011