# List of top-scoring protein chains for t2k-100-30-bys 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 1b47A 304 1.86e+00 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 1ca1 370 2.13e+00 1ca1 a.124.1.1 19340 b.12.1.3 23648 1d3uB 201 2.75e+00 1aisB a.74.1.2 18386 a.74.1.2 18387 1oivA 191 3.47e+00 c.37.1.8 -7074 1ehkC 33 3.60e+00 1ehkC f.23.9.1 43626 1tkaA 678 4.38e+00 1trkA c.36.1.6 31816 c.36.1.10 31815 c.48.1.1 33096 1hkhA 279 4.39e+00 c.69.1.12 -8342 1lvwA 295 4.49e+00 c.68.1.6 84723 1s9aA 257 4.55e+00 1fzkA 274 4.69e+00 1agdA b.1.1.2 60149 d.19.1.1 60150 1afwA 393 5.15e+00 1afwA c.95.1.1 35900 c.95.1.1 35901 1pxtB 390 6.33e+00 1afwA c.95.1.1 35906 c.95.1.1 35907 1g8iA 190 6.66e+00 1rec a.39.1.5 60363 1g7pA 274 6.67e+00 b.1.1.2 70153 d.19.1.1 70154 1q8iA 783 6.73e+00 c.55.3.5 -7635 e.8.1.1 -11885 1gpuA 680 6.81e+00 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1aj8A 371 6.84e+00 1aj8A a.103.1.1 18900 1fzoA 274 6.89e+00 1agdA b.1.1.2 60155 d.19.1.1 60156 1agdA 276 6.96e+00 1agdA b.1.1.2 20741 d.19.1.1 38260 1b22A 114 7.02e+00 1b22A a.60.4.1 17969 1kpuA 274 7.03e+00 b.1.1.2 84456 d.19.1.1 84457 1lk2A 274 7.03e+00 b.1.1.2 -2610 d.19.1.1 -9365 1e3dB 542 7.29e+00 1h2rL e.18.1.1 59189 1aisB 200 7.65e+00 1aisB a.74.1.2 18384 a.74.1.2 18385 1b7bA 310 8.00e+00 1b7bA c.73.1.1 34963 2lhb 149 8.34e+00 2fal a.1.1.2 15597 2cblA 305 8.39e+00 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1nozA 388 8.51e+00 1clqA c.55.3.5 33715 1k5nA 276 8.53e+00 b.1.1.2 77266 d.19.1.1 77267 1jggA 60 8.66e+00 2hddA a.4.1.1 62950 1trkA 680 9.01e+00 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1aje 194 9.70e+00 1ctqA c.37.1.8 32071 1pq1A 196 1.04e+01 f.1.4.1 -12055 1d2mA 665 1.04e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1vh4A 435 1.07e+01 unknown_sccs -4794 1pufA 77 1.12e+01 a.4.1.1 -191 1ffyA 917 1.20e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1qu2A 917 1.20e+01 1qu2A a.27.1.1 16925 b.51.1.1 26890 c.26.1.1 31592 1mh1 186 1.23e+01 1eesA c.37.1.8 32002 1ax4A 467 1.27e+01 1ax4A c.67.1.2 34391 1i4fA 275 1.29e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1gseA 221 1.31e+01 1pgtA a.45.1.1 17667 c.47.1.5 32961 1ocrC 261 1.35e+01 1ocrC f.25.1.1 43540 1ibvB 229 1.36e+01 1ucpA 91 1.39e+01 unknown_sccs -1193 1dtoA 221 1.43e+01 1dtoA b.91.1.1 28405 1sk4A 163 1.45e+01 1j03A 102 1.50e+01 unknown_sccs -10954 1gs5A 258 1.50e+01 c.73.1.2 70395 1ac5 483 1.52e+01 1ac5 c.69.1.5 34653 1dguA 183 1.60e+01 1dguA a.39.1.5 17333 1keyA 235 1.62e+01 a.118.16.1 72389 1p65A 73 1.65e+01 unknown_sccs -10331 1k3yA 221 1.66e+01 a.45.1.1 77245 c.47.1.5 77246 2occJ 59 1.66e+01 2occJ f.23.4.1 43524 1pprM 312 1.68e+01 1pprM a.131.1.1 19502 a.131.1.1 19503 1e5eA 404 1.72e+01 1ibjA c.67.1.3 59265 1ea0A 1479 1.74e+01 b.80.4.1 64854 c.1.4.1 64855 d.153.1.1 64856 1hsbA 270 1.74e+01 1agdA b.1.1.2 20736 d.19.1.1 38257 1kqfB 294 1.74e+01 d.58.1.5 75900 f.23.22.1 75901 1hlb 158 1.75e+01 1hlb a.1.1.2 15625 1ly1A 181 1.78e+01 c.37.1.1 74334 1k3lA 221 1.94e+01 a.45.1.1 77229 c.47.1.5 77230 1duzA 275 1.95e+01 1agdA b.1.1.2 20670 d.19.1.1 38224 1omrA 201 2.02e+01 a.39.1.5 -854 1lci 550 2.03e+01 1lci e.23.1.1 43349 1sv7A 109 2.06e+01 1t0gA 109 2.08e+01 unknown_sccs -10955 1rec 201 2.17e+01 1rec a.39.1.5 17326 1b25A 619 2.18e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1qnf 484 2.22e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1qrjB 199 2.24e+01 1qrjB a.28.3.1 16952 1mmoD 512 2.24e+01 1mhyD a.25.1.2 16770 1muyA 225 2.25e+01 1mun a.96.1.2 18745 1g4yR 148 2.28e+01 1cll a.39.1.5 60252 2occC 261 2.28e+01 1ocrC f.25.1.1 43520 1ee8A 266 2.40e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1mtyD 512 2.43e+01 1mhyD a.25.1.2 16742 1f3aA 222 2.44e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1mun 225 2.47e+01 1mun a.96.1.2 18744 1bgf 124 2.48e+01 1bgf a.90.1.1 18537 1v54C 261 2.52e+01 f.25.1.1 -12239 1dk8A 147 2.56e+01 1agrE a.91.1.1 18548 1lvfA 110 2.56e+01 a.47.2.1 74280 1qn2A 100 2.61e+01 1ycc a.3.1.1 15882 1o89A 345 2.61e+01 b.35.1.2 -3703 c.2.1.1 -5727 1o6yA 299 2.61e+01 d.144.1.7 81106 1b79A 119 2.63e+01 1b79A a.81.1.1 18451 1i1sA 96 2.78e+01 1bjaA a.4.5.9 16124 1lvhA 221 2.79e+01 c.108.1.6 74282 1bvp1 349 2.81e+01 1bvp1 1g5yA 238 2.82e+01 1lbd a.123.1.1 60294 1qr6A 584 2.84e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1ltqA 301 2.85e+01 c.108.1.9 78208 c.37.1.1 78209 1ji1A 637 2.86e+01 b.1.18.2 71666 b.71.1.1 71667 c.1.8.1 71668 1tph1 247 2.89e+01 1amk 1bw9A 356 2.91e+01 1bw9A c.2.1.7 30274 c.58.1.1 33922 1pyaB 228 2.92e+01 1pyaB 1bupA 386 2.93e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1gpb 842 2.94e+01 1a8i c.87.1.4 35478 1dd3A 128 2.95e+01 1dd3C a.108.1.1 19031 d.45.1.1 38760 1i50A 1733 2.97e+01 e.29.1.2 61754 1mn3A 54 2.98e+01 a.5.2.4 85024 1ui7A 638 2.98e+01 b.30.2.1 -3523 d.17.2.1 -9268 d.17.2.1 -9269 1o08A 221 3.03e+01 c.108.1.6 86525 1c1dA 355 3.08e+01 1bw9A c.2.1.7 30270 c.58.1.1 33918 1e9lA 377 3.08e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 1fcdA 401 3.10e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1p3qQ 54 3.14e+01 a.5.2.4 87748 2liv 344 3.18e+01 2liv c.93.1.1 35708 1gwiA 411 3.18e+01 a.104.1.1 76364 2cro 71 3.18e+01 1r69 a.35.1.2 17038 1kv9A 668 3.22e+01 a.3.1.6 73056 b.70.1.1 73057 1ftt 68 3.26e+01 2hddA a.4.1.1 15997 1ysc 421 3.27e+01 1ivyA c.69.1.5 34652 1k4wA 252 3.30e+01 a.123.1.1 72068 1foeA 377 3.32e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1noyA 388 3.42e+01 1clqA c.55.3.5 33713 1top 162 3.49e+01 1ncx a.39.1.5 17223 1gc0A 398 3.50e+01 c.67.1.3 70168 1e0cA 271 3.51e+01 1e0cA c.46.1.2 32717 c.46.1.2 32718 1dekA 241 3.51e+01 1dekA c.37.1.1 31842 1nq7A 244 3.54e+01 a.123.1.1 -1682 1ncx 162 3.57e+01 1ncx a.39.1.5 17222 1mznA 240 3.61e+01 a.123.1.1 79704 1tmcA 175 3.61e+01 1agdA d.19.1.1 38258 1ithA 141 3.62e+01 1ithA a.1.1.2 15623 1ekeA 230 3.63e+01 1ekeA c.55.3.1 33572 1uhvA 500 3.72e+01 b.71.1.2 -4683 c.1.8.3 -5354 1ut0A 190 3.76e+01 1ba1 386 3.85e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1fl1A 230 3.86e+01 1at3A b.57.1.1 27023 1ptmA 329 3.89e+01 unknown_sccs -8456 1pufB 73 3.90e+01 a.4.1.1 -192 1n9bA 265 3.92e+01 e.3.1.1 85463 1odoA 408 3.97e+01 a.104.1.1 -1463