# List of top-scoring protein chains for T0331.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 1dnlA 199 1.42e-03 1ci0A b.45.1.1 25753 1g79A 218 1.51e-03 1ci0A b.45.1.1 25752 1nrgA 261 3.09e-02 b.45.1.1 80694 1t9mA 214 1.79e-01 1ty9A 222 4.91e-01 1rfeA 162 1.83e+00 1vl7A 157 1.92e+00 b.45.1.1 108732 2av5A 120 2.21e+00 2furA 209 3.40e+00 1cjxA 357 3.78e+00 1cjxA d.32.1.3,d.32.1.3 38516,38517 2a2jA 246 4.06e+00 2fhqA 141 4.96e+00 1fg7A 356 5.34e+00 1gewA c.67.1.1 59819 1qhuA 460 6.77e+00 1qhuA b.66.1.1,b.66.1.1 27530,27531 1xfcA 384 6.87e+00 1qyiA 384 7.32e+00 c.108.1.13 96595 1q7lA 198 9.61e+00 c.56.5.4 96044 1yfjA 259 9.97e+00 1yf3A 259 1.04e+01 2bihA 474 1.41e+01 1tpzA 422 1.49e+01 c.37.1.8 107194 1kewA 361 1.54e+01 c.2.1.2 68544 1ci0A 228 1.69e+01 1ci0A b.45.1.1 25750 1r6xA 395 1.95e+01 b.122.1.3,c.26.1.5 97167,97168 1mszA 86 1.96e+01 d.68.7.1 79428 1zdrA 164 2.11e+01 1q1aA 289 2.24e+01 c.31.1.5 95561 1szdA 297 2.26e+01 c.31.1.5 106150 1q17A 300 2.27e+01 c.31.1.5 95550 1jecA 510 2.54e+01 b.122.1.3,c.26.1.5,c.37.1.15 66595,66596,66597 2biiA 424 2.54e+01 1q14A 361 2.57e+01 c.31.1.5 95537 1o65A 246 2.58e+01 b.58.1.2 92544 1qvzA 237 2.62e+01 c.23.16.2 96453 1j70A 514 2.63e+01 b.122.1.3,c.26.1.5,c.37.1.15 84118,84119,84120 1g6oA 330 2.69e+01 1g6oA c.37.1.11 32430 1q0sA 259 2.76e+01 c.66.1.28 95509 2aq6A 147 2.76e+01 1b3iA 97 2.93e+01 1plc b.6.1.1 22877 1hmjA 78 2.98e+01 d.78.1.1 39752 1gtmA 419 3.07e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1jztA 246 3.21e+01 c.104.1.1 63319 1ju9A 374 3.27e+01 b.35.1.2,c.2.1.1 63293,63294 1qlhA 374 3.29e+01 2ohxA b.35.1.2,c.2.1.1 24685,29701 1uuhA 159 3.32e+01 d.169.1.4 100008 2cf2C 342 3.37e+01 1ee2A 373 3.43e+01 2ohxA b.35.1.2,c.2.1.1 24663,29679 1n8kA 374 3.57e+01 b.35.1.2,c.2.1.1 80298,80299 1qvvA 237 3.59e+01 c.23.16.2 96442 1rw7A 243 3.63e+01 c.23.16.2 97963 1mgoA 374 4.19e+01 b.35.1.2,c.2.1.1 79094,79095 1luiA 110 4.21e+01 d.93.1.1 78224 2sspE 223 4.23e+01 3eugA c.18.1.1 31012 1axeA 374 4.31e+01 2ohxA b.35.1.2,c.2.1.1 24681,29697 1oe4A 247 4.34e+01 c.18.1.3 86895 4sknE 223 4.36e+01 3eugA c.18.1.1 31013 1a71A 374 4.37e+01 2ohxA b.35.1.2,c.2.1.1 24673,29689 1g8fA 511 4.43e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1qv6A 374 4.47e+01 b.35.1.2,c.2.1.1 96348,96349 1akz 223 4.47e+01 3eugA c.18.1.1 31007 1heuA 374 4.49e+01 2ohxA b.35.1.2,c.2.1.1 60979,60980 1axgA 374 4.56e+01 2ohxA b.35.1.2,c.2.1.1 24691,29707 1znpA 154 5.11e+01 2fcjA 119 5.69e+01 1t8pA 267 5.80e+01 c.60.1.1 106667 2fk0A 334 5.86e+01 1g8lA 411 5.97e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 2feaA 236 6.06e+01 1epuA 591 6.54e+01 1dn1A e.25.1.1 43358 2ftsA 419 6.59e+01 1t3eA 421 6.63e+01 b.85.6.1,b.103.1.1,c.57.1.2 106348,106349,106350 1nkvA 256 6.66e+01 c.66.1.21 80577 1vcc 77 6.69e+01 1vcc d.121.1.1 41092 1yl36 82 6.73e+01 2aefA 234 7.46e+01 1jsmA 325 7.53e+01 b.19.1.2 63264 1tqdA 413 7.68e+01 c.37.1.8 107222 1tq4A 413 7.69e+01 c.37.1.8 107201 1f74A 293 7.96e+01 1nal3 c.1.10.1 29079 1yc7A 124 8.03e+01 1sbqA 189 8.04e+01 c.124.1.6 105412 1tq6A 413 8.23e+01 c.37.1.8 107202 1oe8A 211 8.25e+01 a.45.1.1,c.47.1.5 86905,86906 2ew8A 249 8.51e+01