# List of top-scoring protein chains for YGL135W.t2k-w0.5 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.cse.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 1ml5c 228 4.54e-29 1eg0N 229 4.55e-29 1ad2 i.1.1.1 45820 1s1iA 217 5.24e-29 487dH 224 8.32e-29 1ad2 i.1.1.2 45835 1ad2 228 8.33e-29 1ad2 e.24.1.1 43353 1dwuA 213 9.67e-28 1cjsA e.24.1.1 43355 1i2aA 219 9.94e-27 1mzpA 217 6.19e-23 e.24.1.1 79710 1r2uA 89 6.13e-01 1r8oB 71 8.97e-01 1la0A 161 1.03e+00 a.39.1.5 77864 2ctn 89 1.13e+00 1ncx a.39.1.5 17242 1ap4 89 1.21e+00 1ncx a.39.1.5 17253 1dtlA 161 1.28e+00 1ncx a.39.1.5 17229 1aj4 161 1.38e+00 1ncx a.39.1.5 17244 1ei9A 279 2.13e+00 1ei9A c.69.1.13 34713 1top 162 3.71e+00 1ncx a.39.1.5 17223 2mssA 75 3.86e+00 1ha1 d.58.7.1 39190 1ofdA 1520 4.26e+00 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1b0uA 262 4.86e+00 1b0uA c.37.1.12 32370 5tnc 162 4.91e+00 1ncx a.39.1.5 17246 4tnc 162 5.07e+00 1ncx a.39.1.5 17228 1tcf 159 5.92e+00 1ncx a.39.1.5 17250 1a2xA 159 5.92e+00 1ncx a.39.1.5 17251 1uikA 418 6.86e+00 1h5yA 253 7.29e+00 c.1.2.1 65638 1uijA 416 7.58e+00 1ipjA 416 7.67e+00 b.82.1.2 71258 b.82.1.2 71259 1ipkA 416 7.69e+00 b.82.1.2 71264 b.82.1.2 71265 1a3h 300 8.25e+00 7a3hA c.1.8.3 28819 1h5vA 304 8.34e+00 c.1.8.3 70898 7a3hA 303 8.35e+00 7a3hA c.1.8.3 28817 1qi2A 305 8.36e+00 7a3hA c.1.8.3 28824 1ih0A 71 8.95e+00 a.39.1.5 66140 1ozsA 73 9.09e+00 3ctn 76 9.11e+00 1ncx a.39.1.5 17241 1ea9C 583 9.11e+00 b.1.18.2 70087 b.71.1.1 70088 c.1.8.1 70089 1nhjA 333 9.22e+00 d.14.1.3 85720 d.122.1.2 85721 1b63A 333 9.31e+00 1b63A d.14.1.3 37566 d.122.1.2 41107 1qo7A 394 9.61e+00 1qo7A c.69.1.11 34697 1fi5A 81 9.79e+00 1ncx a.39.1.5 17252 1r5bA 467 9.86e+00 1b62A 349 9.98e+00 1b63A d.14.1.3 37567 d.122.1.2 41108 1bknA 352 1.01e+01 1b63A d.14.1.3 37568 d.122.1.2 41109 1eh9A 558 1.02e+01 1ehaA b.1.18.2 21858 b.71.1.1 27785 c.1.8.1 28772 1ehaA 558 1.02e+01 1ehaA b.1.18.2 21859 b.71.1.1 27786 c.1.8.1 28773 1lf1A 308 1.03e+01 c.1.8.3 73877 1xpjA 126 1.04e+01 1s6iA 188 1.04e+01 1e6vA 553 1.23e+01 1mroA a.89.1.1 18527 d.58.31.2 39445 1vl1A 232 1.48e+01 1rwzA 245 1.49e+01 1iomA 377 1.56e+01 a.103.1.1 83698 1mroA 548 1.57e+01 1mroA a.89.1.1 18525 d.58.31.2 39443 1hbnA 549 1.57e+01 1mroA a.89.1.1 60898 d.58.31.2 60899 1jg1A 235 1.58e+01 c.66.1.7 66661 1pbtA 244 1.67e+01 1i5eA 209 1.92e+01 c.61.1.1 71116 1t3lA 337 2.10e+01 1vlwA 217 2.14e+01 1ponB 36 2.18e+01 1ponB 1uu9A 286 2.21e+01 1h1wA 289 2.27e+01 d.144.1.7 83460 1mvoA 136 2.46e+01 c.23.1.1 79513 1r0sA 258 2.57e+01 1a3k 137 2.88e+01 1a3k b.29.1.3 24218 1uaxA 220 2.93e+01 3ypiA 247 2.99e+01 1amk c.1.1.1 28463 1ny9A 143 2.99e+01 a.181.1.1 86401 1neyA 247 3.12e+01 c.1.1.1 80449 1b3uA 588 3.12e+01 1b3uA a.118.1.2 19135 1i45A 248 3.13e+01 1amk c.1.1.1 61665 1e2yA 188 3.18e+01 1qq2A c.47.1.10 59173 1r18A 227 3.38e+01 1uu3A 310 3.45e+01 1f3yA 165 3.46e+01 d.113.1.1 59635 1r4uA 301 3.48e+01 1poiA 317 3.48e+01 1poiA c.63.1.2 34153 1vyvA 359 3.48e+01 1bqqM 174 3.55e+01 1hfc d.92.1.11 40406 1oi4A 193 3.56e+01 c.23.16.2 87047 1xj5A 334 3.60e+01 1azsC 402 3.61e+01 1cipA a.66.1.1 18203 c.37.1.8 32086 1cs4C 394 3.62e+01 1cipA a.66.1.1 18205 c.37.1.8 32088 1cjtC 402 3.62e+01 1cipA a.66.1.1 18206 c.37.1.8 32089 1jbbA 153 3.63e+01 1u9aA d.20.1.1 62842 1jatA 155 3.65e+01 1u9aA d.20.1.1 62818 7timA 247 3.68e+01 1amk c.1.1.1 28457 1kf6D 119 3.69e+01 f.21.2.2 72400 1culC 380 3.70e+01 1cipA a.66.1.1 18204 c.37.1.8 32087 1e6yA 569 3.73e+01 1mroA a.89.1.1 18529 d.58.31.2 39447 1otwA 255 3.81e+01 1otvA 259 3.87e+01