# List of top-scoring protein chains for T0289.t2k-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 1yw6A 335 2.37e-24 2g9dA 350 5.81e-24 2bcoA 350 1.20e-23 1yw4A 341 4.95e-22 1uwyA 426 1.55e-03 b.3.2.1,c.56.5.1 100130,100131 1h8lA 380 4.18e-03 b.3.2.1,c.56.5.1 65737,65738 2bo9A 308 2.97e-01 2boaA 404 3.36e-01 1jqgA 433 5.59e-01 c.56.5.1,d.58.3.1 71791,71792 1f7wA 144 1.14e+00 1f46A d.129.4.1 59679 1f47B 144 1.15e+00 1f46A d.129.4.1 59645 1y2gA 140 1.38e+00 1f46A 140 1.40e+00 1f46A d.129.4.1 59643 1y2fA 139 1.43e+00 2c1cA 312 1.48e+00 1mhmA 288 1.55e+00 1gnxA 479 1.91e+00 c.1.8.4 76241 1vpbA 451 3.70e+00 1vywB 265 4.36e+00 a.74.1.1,a.74.1.1 108923,108924 1po5A 476 4.42e+00 a.104.1.1 94963 1mjc 69 4.57e+00 1mjc b.40.4.5 25319 1suoA 476 4.64e+00 a.104.1.1 106026 1si8A 484 4.95e+00 e.5.1.1 98884 1gxoA 332 5.25e+00 a.102.5.1 76374 1gxmA 332 5.42e+00 a.102.5.1 76371 2ahxA 617 5.69e+00 2c5sA 413 7.38e+00 1xbsA 149 8.71e+00 1vin 268 1.16e+01 1vin a.74.1.1,a.74.1.1 18354,18355 2d2aA 145 1.33e+01 1zp6A 191 1.37e+01 1aye 401 1.37e+01 1aye c.56.5.1,d.58.3.1 33824,39065 2g86A 316 1.52e+01 2azkA 289 1.57e+01 1tsw 316 1.61e+01 1bkpA d.117.1.1 40991 1njd 316 1.61e+01 1bkpA d.117.1.1 41004 1jmg 316 1.63e+01 1bkpA d.117.1.1 41008 1vze 316 1.66e+01 1bkpA d.117.1.1 41003 1tsy 316 1.67e+01 1bkpA d.117.1.1 40990 1tdb 315 1.67e+01 1bkpA d.117.1.1 41025 1nje 316 1.68e+01 1bkpA d.117.1.1 41001 1bp0A 316 1.68e+01 1bkpA d.117.1.1 40993 1dtdA 303 1.68e+01 1aye c.56.5.1 33823 1vza 316 1.69e+01 1bkpA d.117.1.1 41017 1tsx 316 1.70e+01 1bkpA d.117.1.1 41002 1o0wA 252 1.70e+01 a.149.1.1,d.50.1.1 80751,80752 1bo7A 316 1.72e+01 1bkpA d.117.1.1 40997 1bp6A 316 1.73e+01 1bkpA d.117.1.1 41000 1bo8A 316 1.74e+01 1bkpA d.117.1.1 40994 1bpjA 316 1.76e+01 1bkpA d.117.1.1 40996 1jmi 316 1.77e+01 1bkpA d.117.1.1 41006 2g8dA 316 2.02e+01 2btjA 222 2.09e+01 1tlhB 81 2.10e+01 2g8aA 316 2.27e+01 1z2aA 168 2.46e+01 2g89A 316 2.49e+01 1sxjE 354 2.50e+01 a.80.1.1,c.37.1.20 106089,106090 2cchB 260 2.55e+01 1uf9A 203 2.64e+01 c.37.1.1 99326 1bf5A 575 2.65e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1oiuB 260 2.68e+01 a.74.1.1,a.74.1.1 103959,103960 1xvlA 321 2.69e+01 1fp3A 402 2.76e+01 1fp3A a.102.1.3 18842 1ttuA 477 2.78e+01 b.1.18.1,b.2.5.8,b.42.7.1 107305,107306,107307 1gerA 450 3.05e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30477,30478,40170 1midA 91 3.32e+01 a.52.1.1 91280 1gesA 450 3.39e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1ykpB 238 3.41e+01 3pcdM 238 3.42e+01 3pchM b.3.6.1 22778 3pcgM 238 3.43e+01 3pchM b.3.6.1 22742 1ykkB 238 3.43e+01 1yknB 238 3.55e+01 1sdmA 369 3.62e+01 c.37.1.9 105438 1n3lA 372 3.95e+01 c.26.1.1 79966 2c5nB 259 3.97e+01 1yqdA 366 4.02e+01 1jmf 316 4.10e+01 1bkpA d.117.1.1 41007 1ya8A 532 4.34e+01 1mx1A 548 4.40e+01 c.69.1.1 85165 1w61A 414 4.44e+01 1rkiA 102 4.53e+01 1gpjA 404 4.56e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1jmh 316 4.56e+01 1bkpA d.117.1.1 41009 1og7A 43 4.84e+01 j.106.1.1 92865 1xxxA 303 5.06e+01 1ef8A 261 5.26e+01 1ef8A c.14.1.3 30921 1jvbA 347 5.92e+01 b.35.1.2,c.2.1.1 77181,77182 1ac1A 189 5.93e+01 1fvkA c.47.1.13 90326 1fvjA 189 5.94e+01 1fvkA c.47.1.13 90349 1rwzA 245 5.95e+01 d.131.1.2,d.131.1.2 98005,98006 1zy9A 564 5.98e+01 1jfxA 217 6.00e+01 c.1.8.8 62943 1fvkA 189 6.02e+01 1fvkA c.47.1.13 90351 1acvA 189 6.02e+01 1fvkA c.47.1.13 90328 1u3aA 189 6.18e+01 1obr 326 6.19e+01 1aye c.56.5.2 33828 1qazA 351 6.23e+01 1qazA a.102.3.1 18848 1aj1 19 6.39e+01 j.2.1.1 46061 1r8gA 372 6.43e+01 d.128.1.3 104845 2azpA 318 6.75e+01 2azjA 289 6.88e+01 1yvlA 683 6.94e+01 1un2A 197 7.01e+01 c.47.1.13 99645 1nltA 248 7.20e+01 b.4.1.1,b.4.1.1,g.54.1.1 91963,91964,91965 1h1rB 258 7.23e+01 a.74.1.1,a.74.1.1 76490,76491 1xbfA 140 7.26e+01 d.273.1.1 109538 1e9hB 261 7.26e+01 a.74.1.1,a.74.1.1 64813,64814 1gkzA 388 7.37e+01 a.29.5.1,d.122.1.4 65268,65269 1t44G 147 7.42e+01 d.109.1.1 106395 1n7hA 381 7.46e+01 c.2.1.2 80250 1vmhA 144 7.55e+01 1ydhA 216 7.63e+01 2bszA 278 7.77e+01 1c3mA 147 8.11e+01 1jotA b.77.3.1 27983 1uthA 315 8.44e+01 c.94.1.1 108032 1beuA 268 8.62e+01 2tysA c.1.2.4 28574 1tvv 316 8.65e+01 1bkpA d.117.1.1 40998 1va8A 113 8.72e+01 1rk4A 243 8.75e+01 a.45.1.1,c.47.1.5 97592,97593 1tuuA 399 8.77e+01 1x7vA 99 8.84e+01 d.58.4.11 109501 1a6f 119 8.93e+01 1a6f d.14.1.2 37564