# List of top-scoring protein chains for T0321.t04-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 1wy6A 172 1.49e+00 2au1A 292 2.34e+00 2avwA 311 2.36e+00 1y08A 323 2.38e+00 1twiA 434 3.85e+00 b.49.2.3,c.1.6.1 107399,107400 1tufA 434 3.86e+00 b.49.2.3,c.1.6.1 107335,107336 1tcwA 99 3.89e+00 1fmb b.50.1.1 26760 2sam 99 3.93e+00 1fmb b.50.1.1 26755 1neiA 60 3.99e+00 d.253.1.1 91843 1sip 99 4.08e+00 1fmb b.50.1.1 26757 1az5 99 4.14e+00 1hvc b.50.1.1 26747 1pryA 227 4.37e+00 c.66.1.3 95063 1hjxA 362 6.98e+00 c.1.8.5,d.26.3.1 83512,83513 1cf2O 337 7.51e+00 1b7gO c.2.1.3,d.81.1.1 29994,39909 2fjbA 643 8.39e+00 1tx2A 297 8.41e+00 c.1.21.1 107420 1jnrA 643 8.45e+00 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1s7zA 117 8.68e+00 a.159.3.1 98715 1ad1A 266 9.77e+00 1aj2 c.1.21.1 29668 1h1aA 191 1.18e+01 b.29.1.11 83450 1xnkA 196 1.20e+01 1tp5A 119 1.22e+01 1dgnA 89 1.28e+01 1dgnA a.77.1.3 18436 3cms 323 1.30e+01 1smrA b.50.1.2 26865 1ziuA 370 1.41e+01 1v30A 124 1.53e+01 2bmbA 545 1.66e+01 1djlA 207 2.17e+01 1d4oA c.31.1.4 31746 1eyeA 280 2.25e+01 1aj2 c.1.21.1 29672 4cms 323 2.29e+01 1smrA b.50.1.2 26866 1s16A 390 2.35e+01 d.14.1.3,d.122.1.2 98331,98332 1jjoC 261 2.36e+01 1i2mB 402 2.40e+01 1a12A b.69.5.1 61569 1u8vA 490 2.42e+01 1g8aA 227 2.43e+01 c.66.1.3 90506 4upjA 99 2.50e+01 1fmb b.50.1.1 26719 1a12A 413 2.52e+01 1a12A b.69.5.1 27663 1be9A 119 2.73e+01 1pdr b.36.1.1 24774 1jr9A 202 2.75e+01 a.2.11.1,d.44.1.1 71822,71823 1mdaL 121 2.78e+01 2bbkL g.21.1.1 44885 2ckgA 225 2.86e+01 1vbuA 328 2.87e+01 1qlaA 656 2.92e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1idaA 99 2.93e+01 1fmb b.50.1.1 26715 1d1tA 373 3.03e+01 2ohxA b.35.1.2,c.2.1.1 24719,29735 1d1sA 373 3.03e+01 2ohxA b.35.1.2,c.2.1.1 24727,29743 2c2xA 281 3.24e+01 1r7jA 95 3.41e+01 a.4.5.49 104836 2axwA 134 3.44e+01 1wngA 265 3.61e+01 1mioA 533 3.63e+01 1qguA c.92.2.3 35601 1wthD 391 3.70e+01 2fz4A 237 3.72e+01 1a7lA 389 3.81e+01 4mbp c.94.1.1 35787 1wvqA 167 3.93e+01 2govA 195 3.97e+01 1yobA 179 4.05e+01 1xuqA 212 4.16e+01 1bswA 197 4.17e+01 1atlA d.92.1.9 40329 1budA 197 4.22e+01 1atlA d.92.1.9 40328 1to6A 371 4.25e+01 c.141.1.1 107170 1zsyA 357 4.35e+01 2bs3A 656 4.37e+01 1e7pG 655 4.37e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 59359,59360,59361 1r6zA 509 4.41e+01 b.34.14.1,c.94.1.1 97169,97170 1r6eA 168 4.72e+01 a.168.1.1 104821 1qtnB 95 4.74e+01 1pauB 1flcB 175 4.74e+01 1flcB h.3.1.1 45716 1r9kA 172 4.79e+01 a.168.1.1 104869 2visC 282 4.90e+01 1hgeA b.19.1.2 23807 1qduB 88 4.94e+01 1pauB 1f9eB 89 4.96e+01 1pauB 1lybB 241 5.01e+01 1smrA 1x4qA 92 5.05e+01 1ubx 367 5.09e+01 1uby a.128.1.1 19439 1g3oA 106 5.17e+01 1a6l d.58.1.2 38959 1zyeA 220 5.30e+01 1jf2A 195 5.77e+01 1ej3A a.39.1.5 62930 1ep1B 261 5.80e+01 1ep2B b.43.4.2,c.25.1.3 25665,31555 1ep3B 262 5.82e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1pp7U 131 5.98e+01 a.4.5.44 94973 1pp8F 132 6.02e+01 a.4.5.44 94974 1mgtA 174 6.13e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1q90B 215 6.34e+01 f.21.1.2 96241 2viuA 328 6.44e+01 1hgeA b.19.1.2 23797 1an7A 136 6.73e+01 1seiA d.140.1.1 41465 1ei6A 406 6.74e+01 c.76.1.4 90443 1fjgH 138 6.78e+01 1seiA d.140.1.1 41468 2vitC 282 6.88e+01 1hgeA b.19.1.2 23808 1u2eA 289 7.01e+01 2c27A 315 7.03e+01 1c4oA 664 7.03e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1d2mA 665 7.04e+01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1p0hA 318 7.05e+01 d.108.1.1 93866 1xvyA 309 7.12e+01 1ie9A 259 7.18e+01 1db1A a.123.1.1 62318 1n5nA 180 7.25e+01 d.167.1.1 85336 1txiA 263 7.26e+01 1nmuA 382 7.35e+01 c.94.1.1 80665 1nwwA 149 7.44e+01 d.17.4.8 86306 1nu3A 149 7.45e+01 d.17.4.8 86170 1lryA 167 7.49e+01 d.167.1.1 74231 1uby 367 7.49e+01 1uby a.128.1.1 19435 1t0kA 381 7.54e+01 c.94.1.1 106214 1y4cA 494 7.59e+01 1bxdA 161 7.71e+01 1bxdA d.122.1.3 41111 1ix1A 171 7.72e+01 d.167.1.1 90712 1adwA 123 7.81e+01 1bqk b.6.1.1 22893 1hplA 449 7.90e+01 1gpl b.12.1.2,c.69.1.19 23639,34787 2hmgA 328 7.90e+01 1hgeA b.19.1.2 23828 1k7cA 233 7.94e+01 c.23.10.4 68267 1mzrA 296 7.97e+01 c.1.7.1 91500 1gv3A 248 7.99e+01 a.2.11.1,d.44.1.1 70585,70586 1r1hA 696 8.03e+01 d.92.1.4 104756 1rlgA 119 8.05e+01 d.79.3.1 104981 1mzaA 240 8.08e+01 b.47.1.2 79692 1x8iA 227 8.12e+01 1x8hA 228 8.12e+01 1oo3A 111 8.21e+01 d.93.1.1 87184 1wpmA 309 8.24e+01 1ggoA 873 8.35e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29305,30703,41573 1r0kA 388 8.39e+01 a.69.3.1,c.2.1.3,d.81.1.3 104723,104724,104725 1svxB 395 8.48e+01 c.94.1.1 106059 1x8gA 227 8.52e+01 1fvaA 217 8.55e+01 1fvaA d.58.28.1 39409 2aj6A 159 8.56e+01 1dik 874 8.58e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1kblA 873 8.67e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1txjA 171 8.68e+01 b.88.1.2 107424 1jdeA 873 8.68e+01 c.1.12.2,c.8.1.1,d.142.1.5 66546,66547,66548 2dikA 873 8.74e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29306,30704,41574 1mpb 370 8.82e+01 4mbp c.94.1.1 35780 1el4A 195 8.82e+01 1ej3A a.39.1.5 59453 1qv1A 195 8.84e+01 a.39.1.5 96347 2f8pA 195 8.84e+01 1fvgA 199 8.87e+01 1fvaA d.58.28.1 39408 2virC 282 8.91e+01 1hgeA b.19.1.2 23812 1sl7A 195 8.94e+01