# List of top-scoring protein chains for t2k-100-30-dssp_ehl2 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 1gdoA 240 1.19e-01 1gdoA d.153.1.1 41804 1gdoB 240 1.32e-01 1gdoA d.153.1.1 41805 1jx6A 342 4.06e-01 c.93.1.1 67406 1iuaA 83 7.07e-01 1bl8A 97 1.02e+00 1bl8A f.2.1.11 43652 1k4cC 124 1.55e+00 f.2.1.11 68130 1j95A 125 1.65e+00 1bl8A f.2.1.11 62749 1h2rS 267 1.73e+00 2frvA e.19.1.1 43310 1h2aS 317 2.14e+00 2frvA e.19.1.1 43311 1qr7A 350 2.63e+00 1qr7A c.1.10.4 29191 1qagA 226 2.81e+00 1qagA a.40.1.1 17400 a.40.1.1 17401 1cxzB 86 3.11e+00 1cxzB a.2.6.1 15705 1alu 186 3.26e+00 1alu a.26.1.1 16826 1gg1A 350 4.71e+00 1qr7A c.1.10.4 29187 1bn6A 294 5.31e+00 1bn6A c.69.1.8 34678 1jli 112 5.32e+00 1jli a.26.1.2 16884 1cqwA 295 5.42e+00 1b6g c.69.1.8 34679 1bn7A 294 5.43e+00 1bn6A c.69.1.8 34677 1memA 215 5.89e+00 1cs8A d.3.1.1 37069 1csh 435 6.93e+00 1csh a.103.1.1 18880 1aorA 605 7.81e+00 1b25A a.110.1.1 19042 d.152.1.1 41794 1jm7B 117 7.84e+00 g.44.1.1 66881 1fjhA 257 8.69e+00 1fjhB c.2.1.2 29870 2abk 211 1.00e+01 2abk a.96.1.1 18743 1iioA 84 1.04e+01 a.39.4.1 66150 1ngr 85 1.05e+01 1ngr a.77.1.1 18422 6cts 433 1.08e+01 1csh a.103.1.1 18891 1ckuA 85 1.16e+01 1ckuA g.35.1.1 44981 1mli 96 1.19e+01 1mli d.58.4.1 39070 2vsgA 358 1.20e+01 2vsgA h.4.1.1 45780 2occF 98 1.25e+01 2occF g.41.5.3 45256 1fjhB 257 1.31e+01 1fjhB c.2.1.2 29871 1jplA 171 1.33e+01 a.118.9.2 67027 1e55A 512 1.46e+01 1e70M c.1.8.4 28934 1hrq 85 1.51e+01 g.35.1.1 44984 1d0yA 761 1.61e+01 1lvk b.34.3.1 24581 c.37.1.9 32178 1auk 489 1.62e+01 1auk c.76.1.2 35030 1bksA 268 1.69e+01 2tysA c.1.2.4 28585 1rypB 250 1.83e+01 1rypB d.153.1.4 41933 1qnf 484 1.98e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1yveJ 524 2.07e+01 1qmgA a.100.1.2 18790 c.2.1.6 30187 1k47A 337 2.09e+01 1fjgC 239 2.15e+01 1fjfC d.52.3.1 38831 d.53.1.1 38839 1gsa 316 2.18e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1hm6A 346 2.24e+01 1avc a.65.1.1 18147 1jb9A 316 2.31e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1mpgA 282 2.37e+01 1mpgA a.96.1.3 18747 d.129.1.2 41296 1dfaA 454 2.38e+01 1vdeA b.86.1.2 28375 d.95.2.2 40575 d.95.2.2 40576 1wer 334 2.43e+01 1wer a.116.1.2 19108 1eg7A 557 2.50e+01 1eg7A c.37.1.10 32241 1flcB 175 2.74e+01 1flcB h.3.1.1 45716 1qopA 268 2.74e+01 2tysA c.1.2.4 28570 1qmgA 524 2.79e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1htjF 210 2.94e+01 1htjF a.91.1.1 61254 1yveI 524 2.97e+01 1qmgA a.100.1.2 18789 c.2.1.6 30186 1j99A 293 2.98e+01 1ib8A 164 3.01e+01 1b3qA 379 3.09e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1ois 223 3.13e+01 1a36A e.15.1.1 43267 1jjsA 50 3.13e+01 a.153.1.1 66773 1iufA 144 3.20e+01 1lvk 762 3.25e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1iq0A 592 3.28e+01 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 1kvkA 395 3.29e+01 1cv2A 296 3.52e+01 1bn6A c.69.1.8 34680 1kbhB 59 3.61e+01 a.153.1.1 68383 1krhA 338 3.72e+01 1cpcA 162 3.77e+01 1cpcA a.1.1.3 15643 1l1zA 274 3.81e+01 1bc8C 93 3.85e+01 1awcA a.4.5.21 16168 1epxA 370 3.90e+01 1fbaA c.1.10.1 29150 1bk6A 422 3.97e+01 1bk5A a.118.1.1 19133