# List of top-scoring protein chains for T0248.t04-w0.5 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 1n3lA 372 6.83e-01 c.26.1.1 79966 1b8aA 438 2.10e+00 1b8aA b.40.4.1 25244 d.104.1.1 40765 1ffyA 917 4.27e+00 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1huw 191 4.50e+00 1huw a.26.1.1 16831 1axiA 191 4.70e+00 1huw a.26.1.1 16832 1bmdA 327 4.80e+00 1bmdA c.2.1.5 30139 d.162.1.1 42106 1o86A 589 4.87e+00 d.92.1.5 81177 1iz9A 327 5.09e+00 c.2.1.5 76984 d.162.1.1 76985 1qwzA 235 5.33e+00 b.100.1.1 -4543 1bdmA 327 5.81e+00 1bmdA c.2.1.5 30137 d.162.1.1 42104 1qx6A 214 5.82e+00 b.100.1.1 -4545 1ng5A 215 5.84e+00 b.100.1.1 -4541 1ncbH 221 5.85e+00 1igtB b.1.1.1 19981 b.1.1.2 21037 1im4A 221 5.96e+00 unknown_sccs 62581 1jubA 311 6.28e+00 c.1.4.1 -5188 1k1sA 354 6.42e+00 unknown_sccs -10207 unknown_sccs -11917 1j3qA 190 6.45e+00 b.82.1.7 -4841 1hwgA 191 6.97e+00 1huw a.26.1.1 16834 3hhrA 190 6.98e+00 1huw a.26.1.1 16835 1q9cA 191 6.98e+00 a.22.1.3 -567 1a76 326 6.98e+00 1a76 a.60.7.1 18091 c.120.1.2 33361 1jrbA 311 7.88e+00 c.1.4.1 -5184 1a22A 191 7.93e+00 1huw a.26.1.1 16833 1st9A 143 8.12e+00 c.47.1.10 -7503 1jqxA 311 9.71e+00 c.1.4.1 -5182 1jueA 311 9.77e+00 c.1.4.1 -5190 1qzxA 440 1.06e+01 a.24.13.1 -628 a.36.1.1 -801 c.37.1.10 -7126 1jqvA 311 1.06e+01 c.1.4.1 -5180 1pk8A 422 1.09e+01 c.30.1.5 -6723 d.142.1.3 -11237 1n9eA 787 1.09e+01 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1m6yA 301 1.13e+01 a.60.13.1 78716 c.66.1.23 78717 1f5qB 252 1.15e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 1jrcA 311 1.21e+01 c.1.4.1 -5186 1hgu 191 1.30e+01 1huw a.26.1.1 16837 1ncaH 221 1.34e+01 1igtB b.1.1.1 19983 b.1.1.2 21039 1hovA 163 1.37e+01 d.92.1.11 65897 1r4mA 529 1.41e+01 c.111.1.2 -8276 1cxzB 86 1.46e+01 1cxzB a.2.6.1 15705 1ob3A 288 1.49e+01 d.144.1.7 -11283 1auvA 311 1.50e+01 1auvA c.30.1.5 31723 d.142.1.3 41558 1jndA 420 1.53e+01 c.1.8.5 71757 d.26.3.1 71758 1lnwA 147 1.60e+01 a.4.5.28 78104 1a99A 344 1.62e+01 1pot c.94.1.1 35812 1adwA 123 1.62e+01 1bqk b.6.1.1 22893 1iicA 422 1.66e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1eakA 421 1.69e+01 a.20.1.2 70093 d.92.1.11 70094 g.14.1.2 70095 g.14.1.2 70096 g.14.1.2 70097 1ni3A 392 1.70e+01 c.37.1.8 80531 d.15.10.2 80532 1h4uA 265 1.70e+01 1h4uA d.22.1.2 60622 g.3.11.5 60623 1gnwA 211 1.74e+01 1gnwA a.45.1.1 17727 c.47.1.5 33021 1gl4A 285 1.76e+01 d.22.1.2 65286 g.3.11.5 65287 1bg6 359 1.76e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1dhn 121 1.80e+01 1dhn d.96.1.3 40663 1tfr 305 1.86e+01 1tfr a.60.7.1 18081 c.120.1.2 33351 1rkqA 282 1.92e+01 c.108.1.10 -6847 1uphA 131 2.08e+01 a.61.1.1 -1065 1hiwA 133 2.09e+01 1hiwA a.61.1.1 18122 1v0oA 288 2.16e+01 d.144.1.7 -11287 1n4qB 377 2.25e+01 a.102.4.3 -1424 1k2pA 263 2.32e+01 d.144.1.7 72012 1po5A 476 2.44e+01 a.104.1.1 -1467 1bev2 248 2.69e+01 1aym2 1v0bA 288 2.74e+01 d.144.1.7 -11285 1nmsA 249 2.96e+01 c.17.1.1 85879 1cp3A 277 2.98e+01 1pauA c.17.1.1 30992 1qx3A 257 3.07e+01 c.17.1.1 -7914 1ck7A 631 3.14e+01 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1hyeA 313 3.18e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1tam 132 3.28e+01 1hiwA a.61.1.1 18128 1sqsA 242 3.31e+01 unknown_sccs -6433 1cz8H 218 3.31e+01 8fabA b.1.1.1 20327 b.1.1.2 21319 1h2bA 359 3.32e+01 b.35.1.2 -3679 c.2.1.1 -5703 1fy7A 278 3.37e+01 1fy7A d.108.1.1 40817 1mjbA 278 3.37e+01 d.108.1.1 79192 1mj9A 278 3.40e+01 d.108.1.1 79190 1ngvA 534 3.51e+01 c.111.1.2 85698 1dj2A 443 3.58e+01 1adeA c.37.1.10 32237 2f5bH 235 3.61e+01 b.1.1.1 88506 b.1.1.2 88507 1rtwA 220 3.78e+01 unknown_sccs -1904 1kenH 221 3.80e+01 b.1.1.1 72379 b.1.1.2 72380 1jw7A 275 3.81e+01 c.2.1.2 -5846 1lqtA 456 3.82e+01 c.3.1.1 74198 c.4.1.1 74199 1nziA 159 3.89e+01 b.23.1.1 86449 g.3.11.1 86450 1c3yA 108 3.96e+01 1c3yA a.39.2.1 17387