# List of top-scoring protein chains for T0386.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 2g03A 194 4.14e-13 2f6sA 201 2.49e-12 1d5rA 324 3.06e-01 1d5rA b.7.1.1,c.45.1.1 23181,32697 2gupA 292 7.77e+00 1mkp 144 8.80e+00 1vhrA c.45.1.1 32654 1t92A 116 1.26e+01 1v7rA 186 1.49e+01 c.51.4.1 100482 1avc 673 1.55e+01 1avc a.65.1.1,a.65.1.1 18178,18179 2gk9A 401 1.67e+01 1gwz 299 1.68e+01 2shpA c.45.1.2 32685 2f2gA 221 1.69e+01 1ynrA 80 1.81e+01 1v02E 565 2.19e+01 c.1.8.4 108198 7taa 478 2.25e+01 7taa b.71.1.1,c.1.8.1 27778,28765 2cohA 202 2.26e+01 1b89A 449 2.31e+01 1b89A a.118.1.3 19138 1lmzA 187 2.33e+01 a.96.1.4 74037 2taaA 478 2.38e+01 7taa b.71.1.1,c.1.8.1 27780,28767 1ojlA 304 2.40e+01 2b3oA 532 2.65e+01 1e8gA 560 2.70e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1s9jA 341 3.06e+01 1hruA 188 3.19e+01 1hruA d.115.1.1 40926 1g8lA 411 3.27e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1xi9A 406 3.35e+01 1te5A 257 3.37e+01 d.153.1.1 106795 1c4zD 154 3.42e+01 1u9aA d.20.1.1 38331 1yuwA 554 3.81e+01 1xi4A 1630 3.82e+01 1fprA 284 4.30e+01 2shpA c.45.1.2 59949 1nj4A 363 4.31e+01 b.105.1.1,e.3.1.1 80545,80546 1fpwA 190 4.57e+01 1rec a.39.1.5 17329 1v02A 565 4.63e+01 c.1.8.4 108194 1z6fA 363 4.64e+01 1pfpA 105 4.87e+01 d.17.1.3 94656 1v03A 565 4.97e+01 c.1.8.4 108200 1dusA 194 5.19e+01 1dusA c.66.1.4 34182 1qqnA 378 5.20e+01 1ba1 c.55.1.1,c.55.1.1 33393,33394 1qqmA 378 5.30e+01 1ba1 c.55.1.1,c.55.1.1 33391,33392 1qqoA 378 5.37e+01 1ba1 c.55.1.1,c.55.1.1 33395,33396 1ngb 386 5.57e+01 1ba1 c.55.1.1,c.55.1.1 33401,33402 1v54G 85 5.73e+01 f.23.2.1 100328 1wrdA 103 5.81e+01 2occG 84 5.98e+01 2occG f.23.2.1 43522 1nga 386 6.00e+01 1ba1 c.55.1.1,c.55.1.1 33407,33408 1zbqA 327 6.11e+01 2f02A 323 6.15e+01 1ngc 386 6.17e+01 1ba1 c.55.1.1,c.55.1.1 33411,33412 1ats 386 6.19e+01 1ba1 c.55.1.1,c.55.1.1 33423,33424 1ngg 386 6.26e+01 1ba1 c.55.1.1,c.55.1.1 33415,33416 1ngh 386 6.26e+01 1ba1 c.55.1.1,c.55.1.1 33413,33414 1ba1 386 6.27e+01 1ba1 c.55.1.1,c.55.1.1 33387,33388 1hpm 386 6.27e+01 1ba1 c.55.1.1,c.55.1.1 33381,33382 1bupA 386 6.28e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1ngd 386 6.28e+01 1ba1 c.55.1.1,c.55.1.1 33417,33418 1ngf 386 6.30e+01 1ba1 c.55.1.1,c.55.1.1 33405,33406 1ba0 386 6.34e+01 1ba1 c.55.1.1,c.55.1.1 33397,33398 1nge 386 6.35e+01 1ba1 c.55.1.1,c.55.1.1 33409,33410 1tuoA 464 6.36e+01 1kax 381 6.40e+01 1ba1 c.55.1.1,c.55.1.1 33389,33390 1atr 386 6.43e+01 1ba1 c.55.1.1,c.55.1.1 33421,33422 2d2mB 142 6.46e+01 1z2nX 324 6.53e+01 1kaz 381 6.54e+01 1ba1 c.55.1.1,c.55.1.1 33383,33384 1kay 381 6.57e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1kanA 253 6.59e+01 1knyA a.24.16.1,d.218.1.1 75878,75879 2bupA 381 6.63e+01 1ba1 c.55.1.1,c.55.1.1 33379,33380 1hx1A 400 6.64e+01 1ba1 c.55.1.1,c.55.1.1 61348,61349 1knyA 253 6.82e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 2dpmA 284 6.82e+01 2dpmA c.66.1.28 34246 1qltA 560 6.83e+01 1qltA d.58.32.1,d.145.1.1 39457,41720 1pmi 440 7.50e+01 1pmi b.82.1.3 28114 1dznA 560 7.69e+01 1qltA d.58.32.1,d.145.1.1 39471,41734 1e0yA 560 7.76e+01 1qltA d.58.32.1,d.145.1.1 39467,41730 2gfoA 396 8.36e+01 2ayuA 417 8.38e+01 1k1xA 659 8.40e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 2c3gA 98 8.46e+01 1f16A 192 8.49e+01 1f16A f.1.4.1 43400 1hfc 169 8.56e+01 1hfc d.92.1.11 40335 1bjfA 193 8.69e+01 1rec a.39.1.5 17331 1nxuA 333 8.77e+01 c.122.1.1 86389 1qjbA 245 8.84e+01 1qjaA a.118.7.1 19202 1s20A 340 8.90e+01 c.122.1.1 98356