# 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 1osdA 72 7.43e-01 1ge9A 184 9.24e-01 1dd5A d.67.3.1 60463 1pa4A 116 1.17e+00 d.52.7.1 -9780 2hqi 72 1.27e+00 1aw0 d.58.17.1 39340 1ef8A 261 1.61e+00 1ef8A c.14.1.3 30921 1afi 72 2.03e+00 1aw0 d.58.17.1 39339 1iupA 282 2.32e+00 c.69.1.10 76815 1h8mA 140 3.48e+00 1h8mA d.110.4.1 60782 1cof 143 4.30e+00 1cof d.109.1.2 40860 1howA 373 4.89e+00 1hcl d.144.1.7 41679 1cnuA 137 6.13e+00 1cof d.109.1.2 40862 1a7tA 232 6.49e+00 1a7tA d.157.1.1 42041 1v58A 241 6.76e+00 1yprA 125 8.39e+00 3nul d.110.1.1 40888 1plzA 189 8.50e+00 b.82.1.7 88160 1qysA 106 8.66e+00 unknown_sccs -13432 1qxrA 189 9.09e+00 b.82.1.7 -4834 1jn5A 140 1.02e+01 d.17.4.2 66921 1rro 108 1.03e+01 1a75A a.39.1.4 17195 1i1qB 192 1.04e+01 1qdlB c.23.16.1 61544 1q8yA 373 1.19e+01 d.144.1.7 -11319 1uc2A 481 1.28e+01 unknown_sccs -11725 1cpzA 68 1.30e+01 1aw0 d.58.17.1 39351 1josA 128 1.31e+01 d.52.7.1 84191 1lci 550 1.34e+01 1lci e.23.1.1 43349 1fp3A 402 1.36e+01 1fp3A a.102.1.3 18842 1cfyA 143 1.54e+01 1cof d.109.1.2 40858 1hd2A 161 1.70e+01 c.47.1.10 60962 1o6jA 150 1.70e+01 c.47.1.10 81089 1dtwB 342 1.72e+01 1qs0B c.36.1.7 31828 c.48.1.2 33102 1o0pA 104 1.74e+01 d.58.7.1 86535 1i5gA 144 1.83e+01 1ewxA c.47.1.10 61784 1r26A 125 1.88e+01 c.47.1.1 -7389 1qc9A 276 1.92e+01 1ckqA c.52.1.1 33235 1i58A 189 1.92e+01 1b3qA d.122.1.3 61773 1v0wA 506 1.94e+01 1ceo 343 2.05e+01 1ceo c.1.8.3 28808 1mo9A 523 2.05e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1tib 269 2.08e+01 3tgl c.69.1.17 34738 1um0A 365 2.17e+01 1gt6A 269 2.20e+01 c.69.1.17 76342 1ek8A 185 2.21e+01 1ek8A d.67.3.1 59444 1knb 196 2.24e+01 1qhvA b.21.1.1 23841 1qlaB 239 2.28e+01 1qlaB a.1.2.1 15679 d.15.4.2 37707 1iqzA 81 2.29e+01 d.58.1.4 66281 1lzlA 323 2.30e+01 c.69.1.2 78306 1f47B 144 2.32e+01 1f46A d.129.4.1 59645 1qpsA 261 2.34e+01 1ckqA c.52.1.1 33234 1v1rB 342 2.37e+01 1gudA 288 2.38e+01 c.93.1.1 83326 1olsB 342 2.47e+01 c.36.1.7 -6919 c.48.1.2 -7529 1fljA 260 2.47e+01 2cba b.74.1.1 27954 1bn5 478 2.51e+01 1bn5 a.4.5.25 16224 d.127.1.1 41161 1oz9A 150 2.54e+01 unknown_sccs -10588 1f46A 140 2.59e+01 1f46A d.129.4.1 59643 1ctn 540 2.60e+01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1iloA 77 2.61e+01 c.47.1.1 66205 1kid 203 2.64e+01 1derA c.8.5.1 30771 1r3nA 462 2.71e+01 c.56.5.4 -7872 d.58.19.1 -10096 1j3kA 280 2.74e+01 c.71.1.1 84070 1i19A 561 2.74e+01 1i19A d.58.32.3 61522 d.145.1.1 61523 1b6a 478 2.75e+01 1bn5 a.4.5.25 16223 d.127.1.1 41160 1bed 181 2.77e+01 1fvkA unknown_sccs -7444 1b3qA 379 2.82e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1f7wA 144 2.82e+01 1f46A d.129.4.1 59679 1r3eA 309 2.95e+01 b.122.1.1 -5118 unknown_sccs -10146 1k38A 254 2.99e+01 e.3.1.1 84303 1lu4A 136 3.09e+01 c.47.1.10 -7509 1k3sA 113 3.12e+01 d.198.1.1 68120 1kl1A 419 3.14e+01 c.67.1.4 72663 1kkjA 419 3.14e+01 c.67.1.4 72647 1b8aA 438 3.20e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1n82A 331 3.20e+01 c.1.8.3 -5306 1f0iA 504 3.29e+01 1f0iA d.136.1.2 59566 d.136.1.2 59567 1quqA 129 3.32e+01 1quqA b.40.4.3 25303 1l3iA 192 3.41e+01 c.66.1.22 77676 2gbp 309 3.42e+01 1gca c.93.1.1 35657 1dhr 241 3.43e+01 1dhr c.2.1.2 29832 1thx 115 3.45e+01 1thx c.47.1.1 32732 1j08A 226 3.45e+01 c.47.1.2 83855 c.47.1.2 83856 1kmqA 184 3.62e+01 c.37.1.8 84412 1dd5A 185 3.63e+01 1dd5A d.67.3.1 39564 1cec 343 3.65e+01 1ceo c.1.8.3 28809 2scuB 388 3.76e+01 2scuB c.23.4.1 31141 d.142.1.4 41562 1gehA 444 3.84e+01 c.1.14.1 65181 d.58.9.1 65182 1j0aA 325 3.91e+01 c.79.1.1 83871 1i1gA 141 3.93e+01 a.4.5.32 65982 d.58.4.2 65983 1jcxA 267 3.98e+01 c.1.10.4 66510 1gnlA 544 3.98e+01 e.26.1.1 70287