# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1t1dA 100 2.28e-05 1t1dA d.42.1.2 38637 1a68 95 1.24e-04 1t1dA d.42.1.2 38639 1dsxA 87 1.44e-04 1t1dA d.42.1.2 38644 1ncx 162 5.50e-03 1ncx a.39.1.5 17222 1top 162 1.24e-02 1ncx a.39.1.5 17223 1nn7A 105 1.85e-02 d.42.1.2 85894 1k94A 165 4.60e-02 a.39.1.8 68333 1bl8A 97 7.67e-02 1bl8A f.14.1.1 43652 1zac 90 9.36e-02 1ncx a.39.1.5 17236 1jvmA 125 2.42e-01 f.14.1.1 67351 1f4qA 165 2.59e-01 1alvA a.39.1.8 17360 1j95A 125 2.62e-01 1bl8A f.14.1.1 62749 1k4cC 124 2.77e-01 f.14.1.1 68130 1r3jC 124 2.95e-01 3kvt 115 3.45e-01 1t1dA d.42.1.2 38642 1cojA 212 8.84e-01 1avmA a.2.11.1 15737 d.44.1.1 38734 1oyeA 1049 9.20e-01 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1j7rA 86 1.12e+00 1j7rA a.39.1.5 62701 1hqsA 423 1.33e+00 1iso c.77.1.1 61154 1iwgA 1053 1.40e+00 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1ggwA 140 1.41e+00 1ggwA a.39.1.5 60490 1byyA 53 1.58e+00 j.12.1.1 46147 1mgn 154 2.04e+00 1a6m a.1.1.2 15097 1okrA 123 2.52e+00 1h0cA 392 2.84e+00 c.67.1.3 83424 1jeqB 565 3.01e+00 1jeqB e.31.1.2 62922 9wgaA 171 3.58e+00 9wgaA g.3.1.1 44000 g.3.1.1 44001 g.3.1.1 44002 g.3.1.1 44003 1eswA 500 3.66e+00 1cwyA c.1.8.1 59500 1cwyA 500 3.97e+00 1cwyA c.1.8.1 28789 1auiA 521 3.97e+00 1auiA d.159.1.3 42085 1mbd 153 4.11e+00 1a6m a.1.1.2 15033 1bzpA 153 4.45e+00 1a6m a.1.1.2 15020 1j7nB 776 4.98e+00 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1wgtA 186 5.57e+00 9wgaA g.3.1.1 44008 g.3.1.1 44009 g.3.1.1 44010 g.3.1.1 44011 1alvA 173 5.95e+00 1alvA a.39.1.8 17370 2mysB 166 5.98e+00 1wdcB a.39.1.5 17308 1a6m 151 6.00e+00 1a6m a.1.1.2 15018 1ik9A 213 6.35e+00 b.59.1.1 66176 h.1.11.1 66177 2spo 154 6.53e+00 1a6m a.1.1.2 15053 1hqvA 191 7.64e+00 1hqvA a.39.1.8 61160 1j7nA 776 8.73e+00 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1fo4A 1332 9.55e+00 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1br1B 150 1.00e+01 1wdcC a.39.1.5 17309 1ddzA 496 1.02e+01 1ddzA c.53.2.1 33372 c.53.2.1 33373 1e3oC 160 1.02e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1myf 153 1.04e+01 1a6m a.1.1.2 15147 1irl 133 1.09e+01 3inkC a.26.1.2 16883 1hev 43 1.31e+01 1hev g.3.1.1 44060 1kpkA 473 1.31e+01 f.20.1.1 68776 1cqwA 295 1.33e+01 1b6g c.69.1.8 34679 1q9bA 43 1.35e+01 1tag 324 1.45e+01 1cipA a.66.1.1 18197 c.37.1.8 32080 1dceA 567 1.54e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1bn6A 294 1.66e+01 1bn6A c.69.1.8 34678 1p0hA 318 1.67e+01 2aaa 484 1.74e+01 7taa b.71.1.1 27777 c.1.8.1 28764 1fvzA 271 1.78e+01 1fvzA d.129.3.4 60050 1lrzA 426 1.85e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1f61A 429 1.89e+01 1dquA c.1.12.7 29319 1jeyB 565 1.91e+01 1jeqB e.31.1.2 62925 1qtrA 317 1.92e+01 1qtrA c.69.1.7 34660 1cii 602 1.95e+01 1cii f.1.1.1 43381 h.4.3.1 45787 1f6fA 199 1.98e+01 1f6fA a.26.1.1 16839 1f8rA 498 2.01e+01 1f8rA c.3.1.2 30410 d.16.1.5 37974 1e6fA 143 2.03e+01 1e6fA b.64.1.1 59304 1fcyA 236 2.12e+01 2lbd a.123.1.1 19282 1o1fC 147 2.30e+01 i.15.1.1 80997 1kfuS 184 2.31e+01 a.39.1.8 68574 1oglA 283 2.37e+01 1gp0A 143 2.38e+01 b.64.1.1 70300 1ddf 127 2.39e+01 1ddf a.77.1.2 18423 1mml 265 2.43e+01 1mml e.8.1.2 43015 1m2kA 249 2.49e+01 c.31.1.5 84754 1i4nA 251 2.50e+01 c.1.2.4 71114 1bn7A 294 2.52e+01 1bn6A c.69.1.8 34677 1o0wA 252 2.55e+01 a.149.1.1 80751 d.50.1.1 80752 1nx8A 273 2.74e+01 b.82.2.8 86374 1agnA 373 2.77e+01 2ohxA b.35.1.2 24737 c.2.1.1 29753 1q1hA 110 2.92e+01 1avsA 90 3.00e+01 1cll a.39.1.5 17226 4lbd 267 3.01e+01 2lbd a.123.1.1 19289 1dxrL 273 3.10e+01 6prcL f.26.1.1 43431 1qj5A 429 3.17e+01 1dtyA c.67.1.4 34493 1fu1B 203 3.21e+01 1fu1B b.59.1.1 27077 h.1.11.1 45631 1lj2A 110 3.36e+01 h.1.13.2 73926 3erk 364 3.48e+01 1hcl d.144.1.7 41654 6prcL 273 3.52e+01 6prcL f.26.1.1 43434 1tadA 324 3.75e+01 1cipA a.66.1.1 18194 c.37.1.8 32077 1k7hA 476 3.75e+01 c.76.1.1 72101 1cll 148 3.78e+01 1cll a.39.1.5 17263 1ulmA 82 3.78e+01 1ggzA 148 3.85e+01 a.39.1.5 70176 1cv2A 296 3.96e+01 1bn6A c.69.1.8 34680 1iz7A 295 3.97e+01 c.69.1.8 76982