# List of top-scoring protein chains for t04-100-30-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 1ca1 370 2.77e+00 1ca1 a.124.1.1 19340 b.12.1.3 23648 1aj8A 371 3.90e+00 1aj8A a.103.1.1 18900 1pq1A 196 3.94e+00 f.1.4.1 -12055 1ehkC 33 4.58e+00 1ehkC f.23.9.1 43626 1aisB 200 5.05e+00 1aisB a.74.1.2 18384 a.74.1.2 18385 1gpuA 680 5.47e+00 c.36.1.6 65455 c.36.1.10 65454 c.48.1.1 65456 1oivA 191 5.49e+00 c.37.1.8 -7074 1afwA 393 6.22e+00 1afwA c.95.1.1 35900 c.95.1.1 35901 1hkhA 279 6.90e+00 c.69.1.12 -8342 1trkA 680 7.60e+00 1trkA c.36.1.6 31804 c.36.1.10 31803 c.48.1.1 33090 1s9aA 257 7.94e+00 1e3dB 542 7.97e+00 1h2rL e.18.1.1 59189 1pufA 77 8.12e+00 a.4.1.1 -191 1fzoA 274 8.37e+00 1agdA b.1.1.2 60155 d.19.1.1 60156 1lk2A 274 8.60e+00 b.1.1.2 -2610 d.19.1.1 -9365 1g8iA 190 9.58e+00 1rec a.39.1.5 60363 1lvwA 295 9.60e+00 c.68.1.6 84723 1jggA 60 1.03e+01 2hddA a.4.1.1 62950 1d2mA 665 1.13e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1lci 550 1.21e+01 1lci e.23.1.1 43349 1b25A 619 1.22e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1foeA 377 1.22e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 2liv 344 1.27e+01 2liv c.93.1.1 35708 1gs5A 258 1.33e+01 c.73.1.2 70395 1ucpA 91 1.34e+01 unknown_sccs -1193 1k5nA 276 1.34e+01 b.1.1.2 77266 d.19.1.1 77267 1ee8A 266 1.37e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1mh1 186 1.38e+01 1eesA c.37.1.8 32002 1ac5 483 1.44e+01 1ac5 c.69.1.5 34653 1f3aA 222 1.49e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1ffyA 917 1.55e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 2lhb 149 1.65e+01 2fal a.1.1.2 15597 1bouB 302 1.72e+01 1bouB c.56.6.1 33859 1gc0A 398 1.75e+01 c.67.1.3 70168 1mun 225 1.76e+01 1mun a.96.1.2 18744 1hlb 158 1.79e+01 1hlb a.1.1.2 15625 1bgf 124 1.79e+01 1bgf a.90.1.1 18537 1i4fA 275 1.83e+01 1agdA b.1.1.2 61687 d.19.1.1 61688 1i50A 1733 1.88e+01 e.29.1.2 61754 1vh4A 435 1.90e+01 unknown_sccs -4794 1jhgA 101 2.01e+01 1jhgA a.4.12.1 19009 2cro 71 2.01e+01 1r69 a.35.1.2 17038 1pyaB 228 2.02e+01 1pyaB 1p6xA 334 2.04e+01 c.37.1.1 -6983 1q8iA 783 2.11e+01 c.55.3.5 -7635 e.8.1.1 -11885 1af3 196 2.12e+01 1maz f.1.4.1 43397 1ly1A 181 2.13e+01 c.37.1.1 74334 1omrA 201 2.18e+01 a.39.1.5 -854 1e5eA 404 2.18e+01 1ibjA c.67.1.3 59265 1ekeA 230 2.21e+01 1ekeA c.55.3.1 33572 2cblA 305 2.27e+01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1va4A 279 2.30e+01 1htyA 1015 2.34e+01 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 1lvfA 110 2.35e+01 a.47.2.1 74280 1kqfB 294 2.35e+01 d.58.1.5 75900 f.23.22.1 75901 1rec 201 2.39e+01 1rec a.39.1.5 17326 1qwnA 1045 2.44e+01 a.8.3.1 -414 b.30.5.6 -3517 c.6.2.1 -6058 1t0gA 109 2.56e+01 unknown_sccs -10955 1ui7A 638 2.59e+01 b.30.2.1 -3523 d.17.2.1 -9268 d.17.2.1 -9269 1k3yA 221 2.79e+01 a.45.1.1 77245 c.47.1.5 77246 1cfzA 162 2.86e+01 1cfzA c.56.1.1 33754 1odoA 408 2.88e+01 a.104.1.1 -1463 1dk8A 147 2.89e+01 1agrE a.91.1.1 18548 1ockA 412 3.02e+01 c.117.1.1 86802 1vjnA 220 3.12e+01 unknown_sccs -11458 1o58A 303 3.13e+01 c.79.1.1 -8503 1jfzA 154 3.15e+01 a.149.1.1 66655 1maz 221 3.24e+01 1maz f.1.4.1 43393 1o08A 221 3.30e+01 c.108.1.6 86525 1qnf 484 3.46e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1ji1A 637 3.47e+01 b.1.18.2 71666 b.71.1.1 71667 c.1.8.1 71668 1n55A 251 3.58e+01 c.1.1.1 80007 1ui8A 638 3.60e+01 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1pufB 73 3.61e+01 a.4.1.1 -192 3thiA 371 3.62e+01 2thiA c.94.1.1 35792 1fl1A 230 3.63e+01 1at3A b.57.1.1 27023 1ax4A 467 3.64e+01 1ax4A c.67.1.2 34391 1p3qQ 54 3.69e+01 a.5.2.4 87748 1g4yR 148 3.71e+01 1cll a.39.1.5 60252 1ntyA 311 3.77e+01 2plc 274 3.79e+01 2plc c.1.18.2 29614 1j30A 144 3.80e+01 a.25.1.1 -650 1r6xA 395 3.93e+01 b.122.1.3 -5125 c.26.1.5 -6620 1ewqA 765 3.96e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1fpoA 171 3.98e+01 1fpoA a.2.3.1 15693 a.23.1.1 16487