# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1gdoB 240 1.68e-01 1gdoA d.153.1.1 41805 1gdoA 240 2.10e-01 1gdoA d.153.1.1 41804 1jx6A 342 4.31e-01 c.93.1.1 67406 1fjhA 257 4.61e-01 1fjhB c.2.1.2 29870 1fjhB 257 9.87e-01 1fjhB c.2.1.2 29871 1iuaA 83 9.92e-01 1bl8A 97 1.12e+00 1bl8A f.2.1.11 43652 1qagA 226 1.16e+00 1qagA a.40.1.1 17400 a.40.1.1 17401 1h2aS 317 1.21e+00 2frvA e.19.1.1 43311 1h2rS 267 1.45e+00 2frvA e.19.1.1 43310 1aorA 605 1.74e+00 1b25A a.110.1.1 19042 d.152.1.1 41794 1cxzB 86 1.80e+00 1cxzB a.2.6.1 15705 1k4cC 124 1.83e+00 f.2.1.11 68130 1j95A 125 2.03e+00 1bl8A f.2.1.11 62749 1dmtA 696 2.37e+00 1dmtA d.92.1.4 40296 1kao 167 2.53e+00 1ctqA c.37.1.8 32014 1jli 112 3.48e+00 1jli a.26.1.2 16884 1iq0A 592 3.53e+00 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 1alu 186 3.85e+00 1alu a.26.1.1 16826 1bn6A 294 4.06e+00 1bn6A c.69.1.8 34678 1memA 215 4.40e+00 1cs8A d.3.1.1 37069 1bn7A 294 4.43e+00 1bn6A c.69.1.8 34677 1cqwA 295 4.47e+00 1b6g c.69.1.8 34679 1mpgA 282 4.82e+00 1mpgA a.96.1.3 18747 d.129.1.2 41296 2abk 211 6.01e+00 2abk a.96.1.1 18743 1jm7B 117 6.11e+00 g.44.1.1 66881 1dqsA 393 6.29e+00 1dqsA e.22.1.1 43347 1f3vA 179 7.79e+00 1f3vA d.58.22.1 39382 1csh 435 8.44e+00 1csh a.103.1.1 18880 1ngr 85 9.53e+00 1ngr a.77.1.1 18422 1ezvF 125 9.64e+00 1be3F f.2.1.8 59550 1g8pA 350 1.09e+01 1g8pA c.37.1.13 60376 6cts 433 1.11e+01 1csh a.103.1.1 18891 1jjsA 50 1.12e+01 a.153.1.1 66773 1auz 116 1.13e+01 1auz c.13.2.1 30883 1mli 96 1.17e+01 1mli d.58.4.1 39070 1bk6A 422 1.25e+01 1bk5A a.118.1.1 19133 1ewkA 490 1.27e+01 1ewkA c.93.1.1 35712 1uroA 367 1.29e+01 1uroA c.1.22.1 29675 1krhA 338 1.30e+01 1iioA 84 1.31e+01 a.39.4.1 66150 1hyp 80 1.32e+01 1hyp a.52.1.1 17806 1kvkA 395 1.34e+01 1jplA 171 1.34e+01 a.118.9.2 67027 1ckuA 85 1.40e+01 1ckuA g.35.1.1 44981 1ee4A 423 1.41e+01 1ee4A a.118.1.1 19128 1l1zA 274 1.42e+01 2vsgA 358 1.43e+01 2vsgA h.4.1.1 45780 1flcB 175 1.48e+01 1flcB h.3.1.1 45716 1hrq 85 1.49e+01 g.35.1.1 44984 1wer 334 1.65e+01 1wer a.116.1.2 19108 1bc8C 93 1.74e+01 1awcA a.4.5.21 16168 1ijgA 309 1.90e+01 1fouA e.27.1.1 62493 1mngA 203 2.04e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1bvsB 203 2.05e+01 1hjp a.5.1.1 16281 a.60.2.1 17956 b.40.4.2 25275 1g6hA 257 2.11e+01 1gajA c.37.1.12 60318 1ebuA 358 2.12e+01 1ebuA c.2.1.3 30035 d.81.1.2 39950 1cv2A 296 2.16e+01 1bn6A c.69.1.8 34680 1ois 223 2.22e+01 1a36A e.15.1.1 43267 1b3qA 379 2.30e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1neq 74 2.37e+01 1neq a.35.1.2 17063 1epxA 370 2.41e+01 1fbaA c.1.10.1 29150 1lox 662 2.44e+01 1lox a.119.1.2 19238 b.12.1.1 23638 1eg7A 557 2.57e+01 1eg7A c.37.1.10 32241 1bh5A 183 2.58e+01 1qipA d.32.1.1 38476 1dfaA 454 2.64e+01 1vdeA b.86.1.2 28375 d.95.2.2 40575 d.95.2.2 40576 1qipA 183 2.76e+01 1qipA d.32.1.1 38470 1jwgA 147 2.83e+01 1dg9A 157 2.93e+01 1dg9A c.44.1.1 32637 1nal3 297 3.00e+01 1nal3 1ctt 294 3.03e+01 1ctt c.97.1.1 36022 c.97.1.1 36023 2occF 98 3.05e+01 2occF g.41.5.3 45256 1mjoA 104 3.07e+01 1cmbA a.43.1.2 17466 1ermA 263 3.07e+01 1btl e.3.1.1 42690 1jnrA 643 3.07e+01 a.7.3.1 66966 c.3.1.4 66967 d.168.1.1 66968 1cb8A 678 3.12e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.3.1 24422 1h5wA 309 3.16e+01 e.27.1.1 65635 256bA 106 3.16e+01 256bA a.24.3.1 16539 1fcqA 350 3.21e+01 c.1.8.9 65006 1kz7A 353 3.30e+01 1bksA 268 3.37e+01 2tysA c.1.2.4 28585 1hiwA 133 3.39e+01 1hiwA a.61.1.1 18122 1nal1 297 3.40e+01 1nal3 1phr 157 3.46e+01 1dg9A c.44.1.1 32635 1auk 489 3.50e+01 1auk c.76.1.2 35030 1ezfA 340 3.58e+01 1ezfA a.128.1.2 19440 1i39A 225 3.58e+01 1ekeA c.55.3.1 61585 1fkmA 396 3.60e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1qgtA 149 3.60e+01 1qgtA a.62.1.1 18135 1eyhA 144 3.66e+01 1eduA a.118.9.1 19214 1eduA 149 3.68e+01 1eduA a.118.9.1 19215 1sacA 204 3.70e+01 1sacA b.29.1.5 24237 1clc 639 3.74e+01 1clc a.102.1.2 18835 b.1.1.5 21872 1efdN 266 3.74e+01 1efdN c.92.2.1 35597 1bk5A 422 3.77e+01 1bk5A a.118.1.1 19130 1cmcA 104 3.78e+01 1cmbA a.43.1.2 17462 1ew2A 513 3.86e+01 1b8jA c.76.1.1 59525 1cot 129 3.87e+01 1ycc a.3.1.1 15899 1qnf 484 3.88e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1kyoG 126 3.90e+01 1g2fC 90 3.94e+01 k.12.1.1 60222 1e55A 512 3.96e+01 1e70M c.1.8.4 28934