# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1dnlA 199 1.18e-06 1ci0A b.45.1.1 25753 1g79A 218 1.98e-06 1ci0A b.45.1.1 25752 1nrgA 261 1.74e-05 b.45.1.1 80694 1axj 122 1.15e-04 1axj b.45.1.1 25749 1flmA 122 2.24e-03 1axj b.45.1.1 25747 1ci0A 228 1.39e-02 1ci0A b.45.1.1 25750 1azo 232 1.26e+00 1azo c.52.1.14 33329 1tin 69 5.19e+00 2sniI d.40.1.1 38580 1lq9A 112 5.33e+00 d.58.4.3 78129 1ejhA 190 5.61e+00 1ejhA d.86.1.1 40147 1fy7A 278 6.29e+00 1fy7A d.108.1.1 40817 1f1xA 322 6.67e+00 d.32.1.3 83208 d.32.1.3 83209 1k4vA 289 7.51e+00 c.68.1.9 72066 1gx4A 289 7.52e+00 c.68.1.9 83362 1v0wA 506 8.06e+00 1ko3A 230 8.69e+00 d.157.1.1 -11454 1f0iA 504 9.38e+00 1f0iA d.136.1.2 59566 d.136.1.2 59567 1vdeA 454 9.75e+00 1vdeA b.86.1.2 28378 d.95.2.2 40581 d.95.2.2 40582 1cdwA 179 1.01e+01 1ytbA d.129.1.1 41212 d.129.1.1 41213 1ytbB 180 1.07e+01 1ytbA d.129.1.1 41278 d.129.1.1 41279 1t5yA 190 1.09e+01 1vokA 200 1.11e+01 1ytbA d.129.1.1 41242 d.129.1.1 41243 1j71A 334 1.24e+01 1eagA b.50.1.2 62669 1dyr 206 1.29e+01 1aoeA c.71.1.1 34916 1omwA 689 1.38e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1dm1A 146 1.44e+01 2fal a.1.1.2 15153 1ekrA 161 1.66e+01 1ekrA d.58.21.1 39380 1gal 583 1.68e+01 1gpeA c.3.1.2 30386 d.16.1.1 37950 2lgsA 468 1.68e+01 1lgr d.15.9.1 37838 d.128.1.1 41168 1lgr 468 1.69e+01 1lgr d.15.9.1 37837 d.128.1.1 41167 1d8iA 311 1.71e+01 1d8iA d.63.1.1 39541 1cf3A 583 1.71e+01 1gpeA c.3.1.2 30385 d.16.1.1 37949 1a6r 471 1.72e+01 3gcb d.3.1.1 37033 1gci 269 1.80e+01 1gci c.41.1.1 32503 1qnaA 200 1.84e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1nftA 329 1.91e+01 1nnt c.94.1.2 35881 1d8hA 311 1.97e+01 1d8iA d.63.1.1 39544 1j5wA 298 2.00e+01 d.104.1.1 71589 1tbaB 180 2.02e+01 1ytbA d.129.1.1 41286 d.129.1.1 41287 1v4xA 144 2.02e+01 3gcb 470 2.10e+01 3gcb d.3.1.1 37032 1ha3A 405 2.17e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1f52A 468 2.19e+01 1lgr d.15.9.1 37839 d.128.1.1 41169 1g8oA 310 2.21e+01 1g8oA c.68.1.9 60375 1a26 361 2.22e+01 1a26 a.41.1.1 17412 d.166.1.2 42274 1o7qA 289 2.24e+01 c.68.1.9 -8216 1ea0A 1479 2.35e+01 b.80.4.1 64854 c.1.4.1 64855 d.153.1.1 64856 1kuuA 202 2.39e+01 d.153.2.1 73019 1r6lA 239 2.41e+01 d.14.1.4 -9057 d.101.1.1 -10747 1plq 258 2.41e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1uocA 289 2.47e+01 unknown_sccs -7671 1gcb 454 2.54e+01 3gcb d.3.1.1 37034 1tfaA 329 2.58e+01 1nnt c.94.1.2 35880 1myt 146 2.65e+01 1a6m a.1.1.2 15207 1oa4A 222 2.65e+01 b.29.1.11 86731 1exmA 405 2.70e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1knqA 175 2.78e+01 c.37.1.17 72786 1kllA 130 2.85e+01 d.32.1.2 72720 1iejA 332 2.88e+01 1nnt c.94.1.2 62328 1ibvB 229 2.93e+01 1mrzA 293 2.97e+01 b.43.5.1 -4048 c.26.1.3 -6616 1qrrA 394 2.97e+01 1qrrA c.2.1.2 29824 1mba 147 2.98e+01 2fal a.1.1.2 15149 1gt7A 274 3.05e+01 c.74.1.1 70398 1pyaB 228 3.07e+01 1pyaB 2fal 147 3.12e+01 2fal a.1.1.2 15150 1aipE 405 3.16e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1b6e 128 3.21e+01 1b6e d.169.1.1 42326 1i52A 236 3.22e+01 1i52A c.68.1.13 61767 1jj2E 177 3.31e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1s72E 178 3.31e+01 1plr 258 3.35e+01 1plq d.131.1.2 41390 d.131.1.2 41391 1i24A 404 3.37e+01 c.2.1.2 83663 1ojrA 274 3.37e+01 c.74.1.1 -8441 1bo4B 168 3.58e+01 1bo4A d.108.1.1 40799 1obpA 159 3.63e+01 1obpA b.60.1.1 27092 1cvrA 435 3.64e+01 1cvrA b.1.18.12 21949 c.17.1.2 31006 1l0gA 358 3.70e+01 e.3.1.1 73400 1kvlA 358 3.86e+01 e.3.1.1 73062 1cmxA 236 3.86e+01 1uch d.3.1.6 37130