# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-scores 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 1bkjA 240 1.10e-14 1bkjA d.90.1.1 40243 1f5vA 240 3.07e-14 1bkjA d.90.1.1 40255 1nox 205 6.66e-09 1nox d.90.1.1 40242 1icrA 217 4.33e-04 1vfrA d.90.1.1 62274 1gqeA 365 7.28e-02 e.38.1.1 70351 1vfrA 218 9.03e-02 1vfrA d.90.1.1 40247 1ojxA 263 3.19e-01 c.1.10.1 -5445 1h09A 338 6.75e-01 b.109.1.1 83420 c.1.8.8 83421 1adoA 363 2.13e+00 1fbaA c.1.10.1 29124 1ejxC 567 2.72e+00 b.92.1.1 83184 c.1.9.2 83185 1e8yA 966 2.73e+00 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1g94A 448 3.09e+00 b.71.1.1 65169 c.1.8.1 65170 1aqm 453 3.92e+00 1smd b.71.1.1 27717 c.1.8.1 28704 1qo7A 394 4.20e+00 1qo7A c.69.1.11 34697 1e7uA 961 4.21e+00 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1g5aA 628 4.56e+00 b.71.1.1 65152 c.1.8.1 65153 1m1nB 522 5.56e+00 c.92.2.3 78418 1vjzA 341 6.38e+00 c.1.8.3 -5318 1fgs 428 7.26e+00 1fgs c.59.1.2 33959 c.72.2.2 34962 1jae 471 8.12e+00 1smd b.71.1.1 27773 c.1.8.1 28760 1eswA 500 9.46e+00 1cwyA c.1.8.1 59500 1ekjA 221 9.46e+00 1ekjB c.53.2.1 33364 1kblA 873 1.03e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1vizA 240 1.09e+01 c.1.4.1 -5212 1dik 874 1.12e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 2tpsA 227 1.18e+01 2tpsA c.1.3.1 28591 1k6xA 352 1.33e+01 c.2.1.2 68238 1sv6A 269 1.37e+01 1edt 271 1.53e+01 2ebn c.1.8.5 28993 1ct5A 256 1.56e+01 1ct5A c.1.6.2 28663 1ec7A 446 1.59e+01 1bqg c.1.11.2 29218 d.54.1.1 38862 1zrn 232 1.61e+01 1qq5A c.108.1.1 43323 1brwA 433 1.65e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1o08A 221 1.75e+01 c.108.1.6 86525 1n81A 186 1.78e+01 a.185.1.1 85388 1o7nB 194 1.79e+01 d.17.4.4 81164 1eg9B 194 1.80e+01 1ndoB d.17.4.4 38120 1rthA 560 1.93e+01 1rthA c.55.3.1 33576 e.8.1.2 43028 1m2eA 135 1.97e+01 c.23.1.5 78478 1on3A 523 2.00e+01 c.14.1.4 87107 c.14.1.4 87108 1uurA 473 2.06e+01 a.47.1.1 -968 b.2.5.5 -2904 d.93.1.1 -10632 1cseE 274 2.11e+01 1gci c.41.1.1 32481 1hdoA 206 2.12e+01 1he2A c.2.1.2 60965 1uumA 372 2.44e+01 c.1.4.1 -5193 7taa 478 2.46e+01 7taa b.71.1.1 27778 c.1.8.1 28765 1m7xA 617 2.52e+01 b.1.18.2 78749 b.71.1.1 78750 c.1.8.1 78751 1jw9B 249 2.54e+01 c.111.1.1 67377 1p7gA 222 2.55e+01 a.2.11.1 -108 d.44.1.1 -9742 1g8pA 350 2.56e+01 1g8pA c.37.1.20 60376 1j5vA 351 2.61e+01 c.72.1.1 71585 1vk3A 615 2.65e+01 d.79.4.1 -10416 d.79.4.1 -10417 d.139.1.1 -11154 d.139.1.1 -11155 1v8gA 329 2.76e+01 a.46.2.1 -953 c.27.1.1 -6644 1o4uA 285 2.93e+01 c.1.17.1 86624 d.41.2.1 86625 1j0aA 325 2.95e+01 c.79.1.1 83871 1eyeA 280 2.96e+01 1aj2 c.1.21.1 29672 1qr0A 228 2.99e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1j6rA 214 2.99e+01 d.173.1.2 71598 1r0rE 274 3.06e+01 c.41.1.1 -7293 1edg 380 3.08e+01 1edg c.1.8.3 28807 1hcl 298 3.11e+01 1hcl d.144.1.7 41593 1fviA 297 3.19e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 1o5zA 442 3.27e+01 c.59.1.2 -7939 c.72.2.2 -8418 1uxy 340 3.30e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1d3gA 367 3.31e+01 1d3gA c.1.4.1 28600 1sek 378 3.35e+01 1sek e.1.1.1 42675 1su4A 994 3.48e+01 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1gjwA 637 3.49e+01 b.71.1.1 60582 c.1.8.1 60583 1n25A 368 3.80e+01 c.37.1.20 85264 1eulA 994 3.81e+01 1eulA 1uhvA 500 3.92e+01 b.71.1.2 -4683 c.1.8.3 -5354