# List of top-scoring protein chains for t2k-100-30-alpha 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 1hf8A 289 1.32e-15 1hg5A a.118.10.1 19219 1hg5A 289 1.59e-15 1hg5A a.118.10.1 19221 1eduA 149 8.77e-03 1eduA a.118.9.1 19215 1eyhA 144 9.39e-03 1eduA a.118.9.1 19214 1gw5A 621 1.06e-02 1xikA 375 3.73e-02 1xikA a.25.1.2 16784 1ribA 375 4.36e-02 1xikA a.25.1.2 16788 1jqcA 375 6.60e-02 1xikA a.25.1.2 63229 1kkoA 413 1.86e-01 c.1.11.2 68675 d.54.1.1 68676 1i19A 561 2.29e-01 1i19A d.58.32.3 61522 d.145.1.1 61523 1b5l 172 7.60e-01 1b5l a.26.1.3 16900 1ku2A 241 1.51e+00 1ivhA 394 1.70e+00 3mdeA a.29.3.1 16608 e.6.1.1 42869 1gqeA 365 1.93e+00 2viuB 175 2.66e+00 1hgeB h.3.1.1 45676 1jmtA 104 2.72e+00 d.58.7.3 63180 1e9xA 455 2.82e+00 1ea1A a.104.1.1 18969 1hgeB 175 3.02e+00 1hgeB h.3.1.1 45680 1ej3A 191 3.12e+00 1ej3A a.39.1.5 17259 1gumA 222 3.15e+00 1pgtA a.45.1.1 17683 c.47.1.5 32977 1dt6A 473 3.17e+00 1dt6A a.104.1.1 18977 1gk4D 84 3.20e+00 2prgC 88 3.22e+00 2prgC a.137.6.1 19644 1ea1A 455 3.37e+00 1ea1A a.104.1.1 18970 1qq8A 214 3.66e+00 1qq8A a.132.1.1 19508 1jfgA 374 3.79e+00 a.128.1.5 66636 1gk4A 84 3.89e+00 1frvB 536 4.06e+00 1h2rL e.18.1.1 43296 1kiyA 374 4.29e+00 1e2xA 243 4.35e+00 1e2xA a.4.5.6 16113 a.78.1.1 18443 1jfaA 374 4.43e+00 a.128.1.5 66622 1eumA 165 4.69e+00 1eumA a.25.1.1 59507 1eemA 241 5.01e+00 1eemA a.45.1.1 17717 c.47.1.5 33011 1ew6A 137 5.41e+00 1ewaA a.1.1.2 15637 1oatA 439 5.55e+00 2dkb c.67.1.4 34461 1i4yA 114 5.92e+00 2mhr a.24.4.1 61738 1jsdB 176 6.04e+00 h.3.1.1 63259 1gk4C 84 6.08e+00 1cknA 330 6.09e+00 1ckmA b.40.4.6 25360 d.142.2.3 41587 1kxu 333 6.28e+00 1jkw a.74.1.1 18358 a.74.1.1 18359 1ap7 168 6.72e+00 1bd8 a.118.2.1 19170 1ew6B 137 6.79e+00 1ewaA a.1.1.2 15638 155c 135 6.87e+00 1ycc a.3.1.1 15900 3hmgB 175 7.09e+00 1hgeB h.3.1.1 45704 2oatA 439 7.16e+00 2dkb c.67.1.4 34452 1ewaA 137 7.33e+00 1ewaA a.1.1.2 15639 1bw0A 416 7.44e+00 1bw0A c.67.1.1 34385 1gotG 73 7.63e+00 1tbgE a.137.3.1 19629 1g4yB 101 7.88e+00 1g4yB f.2.1.11 60251 1j5wA 298 7.97e+00 1hw1A 239 8.15e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1bzyA 217 8.36e+00 1qk3A c.61.1.1 34071 1itg 166 8.37e+00 1b9dA c.55.3.2 33661 1ckmA 330 8.62e+00 1ckmA b.40.4.6 25358 d.142.2.3 41585 1c8kA 842 8.82e+00 1a8i c.87.1.4 35491 1jkw 323 9.92e+00 1jkw a.74.1.1 18356 a.74.1.1 18357 1h5uA 842 1.08e+01 1a8i c.87.1.4 60655 1f16A 192 1.09e+01 1f16A f.1.4.1 43400 1rfbA 119 1.11e+01 1d9cA a.26.1.3 16905 1bkdS 439 1.15e+01 1bkdS a.117.1.1 19111 1dd9A 338 1.27e+01 1dd9A e.13.1.1 43254 1ezvA 430 1.29e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 1ig0A 319 1.30e+01 1ig0A b.82.6.1 62354 c.100.1.1 62355 2hpaA 342 1.33e+01 1cviA c.60.1.2 33985 1kyoA 430 1.34e+01 1fps 348 1.38e+01 1uby a.128.1.1 19436 1b9xB 68 1.38e+01 1tbgE a.137.3.1 19638 1duvG 333 1.39e+01 1othA c.78.1.1 35228 c.78.1.1 35229 1a8i 842 1.39e+01 1a8i c.87.1.4 35490 1ddeA 338 1.42e+01 1dd9A e.13.1.1 43255 1gc0A 398 1.43e+01 1ycc 108 1.46e+01 1ycc a.3.1.1 15834 1sctB 151 1.47e+01 3sdhA a.1.1.2 15003 1d9cA 121 1.47e+01 1d9cA a.26.1.3 16901 1irw 108 1.49e+01 1ycc a.3.1.1 15855 1sfcA 96 1.53e+01 1sfcA h.1.15.1 45643 1auoA 218 1.56e+01 1auoA c.69.1.14 34716 1gpb 842 1.57e+01 1a8i c.87.1.4 35478 1agnA 373 1.61e+01 2ohxA b.35.1.2 24737 c.2.1.1 29753 1cc1L 498 1.63e+01 1h2rL e.18.1.1 43301 2wsyA 268 1.64e+01 2tysA c.1.2.4 28588 1d1dA 262 1.68e+01 1d1dA a.28.3.1 16958 a.73.1.1 18335 1ortA 335 1.69e+01 1othA c.78.1.1 35204 c.78.1.1 35205 3aig 202 1.70e+01 1atlA d.92.1.9 40321 1jvpP 298 1.71e+01 d.144.1.1 67371 1hcl 298 1.72e+01 1hcl d.144.1.1 41593 1jr3A 373 1.76e+01 a.80.1.1 63245 c.37.1.13 63246 1h99A 224 1.81e+01 a.142.1.1 60814 a.142.1.1 60815 1k4wA 252 1.83e+01 1ji7A 89 1.88e+01 1tbgE 68 1.89e+01 1tbgE a.137.3.1 19630 1cviA 342 1.91e+01 1cviA c.60.1.2 33989 1hsm 79 1.91e+01 1cktA a.21.1.1 16421 1ryc 294 1.95e+01 1ryc a.93.1.1 18601 7a3hA 303 1.95e+01 7a3hA c.1.8.3 28817 1e4fT 419 1.97e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1b9dA 163 1.98e+01 1b9dA c.55.3.2 33649 1kczA 413 2.01e+01 c.1.11.2 68451 d.54.1.1 68452 1fx2A 235 2.04e+01 1fx2A d.58.29.1 39430 1a3h 300 2.06e+01 7a3hA c.1.8.3 28819 2cyp 294 2.10e+01 1ryc a.93.1.1 18600 1eziA 228 2.13e+01 1eyrA c.68.1.3 34512 1qk4A 233 2.17e+01 1qk3A c.61.1.1 34037 3fapB 94 2.17e+01 1nsgB a.24.7.1 16612 1fp3A 402 2.23e+01 1fp3A a.102.1.3 18842 1rss 151 2.24e+01 1rss a.75.1.1 18392 1rlr 761 2.24e+01 1rlr a.98.1.1 18753 c.7.1.2 30679 1ht9A 76 2.30e+01 4icb a.39.1.1 61252 2lhb 149 2.33e+01 2fal a.1.1.2 15597 1lbd 282 2.34e+01 1lbd a.123.1.1 19279 1aurA 218 2.40e+01 1auoA c.69.1.14 34718 1nsgB 94 2.49e+01 1nsgB a.24.7.1 16613 1fsgA 233 2.58e+01 1qk3A c.61.1.1 34029 1qa7A 217 2.61e+01 1havA b.47.1.4 26425 1qcrH 60 2.61e+01 1qcrH f.2.1.8 43678 1anxA 319 2.64e+01 1avc a.65.1.1 18161 1sfcE 96 2.66e+01 1sfcE h.1.15.1 45647 1dseA 292 2.67e+01 1ryc a.93.1.1 59130 1ccg 291 2.68e+01 1ryc a.93.1.1 18627 1mhdA 132 2.75e+01 1mhdA d.164.1.1 42175 1hyvA 166 2.77e+01 1b9dA c.55.3.2 61424 1gai 472 2.82e+01 1ayx a.102.1.1 18819 1kz7A 353 2.86e+01 1c4kA 730 2.91e+01 1ordA c.23.7.1 31273 c.67.1.5 34502 d.125.1.1 41123 1nal3 297 2.94e+01 1nal3 1jdrA 294 2.97e+01 1ryc a.93.1.1 62908 1ds4A 292 2.97e+01 1ryc a.93.1.1 59129 2frvB 536 3.03e+01 1h2rL e.18.1.1 43291 1dofA 403 3.08e+01 1c3cA a.127.1.1 19429 1fdyA 297 3.08e+01 1nal3 c.1.10.1 29071 1cbuA 180 3.09e+01 1c9kB c.37.1.11 32360 1jk0B 345 3.11e+01 a.25.1.2 63143 1eqnA 321 3.11e+01 1dd9A e.13.1.1 43256 1havA 217 3.15e+01 1havA b.47.1.4 26423 1qa7B 217 3.18e+01 1havA b.47.1.4 26426 1ntcA 91 3.22e+01 1ntcA a.105.1.1 19004 1pls 113 3.27e+01 1pls b.55.1.1 26965 1ordA 730 3.28e+01 1ordA c.23.7.1 31274 c.67.1.5 34503 d.125.1.1 41124 1rh2F 165 3.30e+01 1rh2F a.26.1.3 16898 1lylA 504 3.36e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1a8b 318 3.40e+01 1avc a.65.1.1 18171 1gcuA 295 3.47e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 2ran 316 3.47e+01 1avc a.65.1.1 18170 1jli 112 3.48e+01 1jli a.26.1.2 16884 1atlA 202 3.52e+01 1atlA d.92.1.9 40322 1lgyA 269 3.52e+01 3tgl c.69.1.17 34758 1nal1 297 3.53e+01 1nal3 1zymA 258 3.66e+01 1zymA a.60.10.1 18110 c.8.1.2 30705 1a28A 256 3.76e+01 1a28A a.123.1.1 19290 1kdxA 81 3.78e+01 1kdxA a.12.1.1 16375 1kktA 511 3.80e+01 a.102.2.1 68687 1an4A 65 3.81e+01 1an4A a.38.1.1 17136 1sw6A 327 3.81e+01 1sw6A a.118.2.1 19176 1c20A 128 3.96e+01 1c20A a.4.3.1 16079 1f0yA 302 3.99e+01 2hdhA a.100.1.3 18793 c.2.1.6 30197