# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1b0zA 445 3.98e-02 2pgi c.80.1.2 35309 2pgi 445 3.98e-02 2pgi c.80.1.2 35308 1c7qA 445 4.46e-02 2pgi c.80.1.2 35307 1nytA 271 4.98e-01 c.2.1.7 86417 c.58.1.5 86418 1vimA 200 7.38e-01 c.80.1.3 -8532 1moq 368 8.85e-01 1moq c.80.1.1 35302 1gkuB 1054 9.93e-01 c.37.1.16 65257 c.37.1.16 65258 e.10.1.1 65259 1io7A 368 1.07e+00 1f4tA a.104.1.1 18971 1b78A 193 1.35e+00 1b78A c.51.4.1 33221 1ufoA 238 1.50e+00 unknown_sccs -8303 1o63A 219 1.88e+00 c.94.1.1 -8691 2mjpA 193 2.14e+00 1b78A c.51.4.1 33223 1bxnA 485 2.24e+00 1burA c.1.14.1 29376 d.58.9.1 39282 4ts1A 319 2.56e+00 2ts1 c.26.1.1 31565 1be1 137 2.79e+00 1be1 c.23.6.1 31237 1mtzA 293 4.02e+00 c.69.1.7 79467 1k3tA 359 4.28e+00 c.2.1.3 72022 d.81.1.1 72023 1lucA 355 4.57e+00 1lucA c.1.16.1 29547 1qycA 308 4.73e+00 c.2.1.2 -5782 2fokA 579 5.67e+00 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1jkxA 212 5.92e+00 c.65.1.1 66813 1yacA 208 5.93e+00 1yacA unknown_sccs 31757 1rhcA 330 6.47e+00 c.1.16.3 -5606 1brlA 355 6.55e+00 1lucA c.1.16.1 29553 1brmA 367 6.76e+00 1brmA c.2.1.3 30030 d.81.1.1 39945 2ts1 419 8.07e+00 2ts1 c.26.1.1 31564 1e9rA 437 8.38e+00 c.37.1.11 64827 1j6nA 303 8.80e+00 1fl0A 171 8.95e+00 1eujA b.40.4.4 25315 1o58A 303 9.21e+00 c.79.1.1 -8503 1eujA 166 9.62e+00 1eujA b.40.4.4 25316 1mkaA 171 9.98e+00 1mkaA d.38.1.2 38543 7aatA 401 1.03e+01 1ajsA c.67.1.1 34250 1kyhA 276 1.07e+01 c.72.1.4 73222 1ep2B 261 1.14e+01 1ep2B b.43.4.2 25666 c.25.1.3 31556 1gvoA 364 1.15e+01 c.1.4.1 76357 1vyrA 364 1.24e+01 1j4wA 174 1.25e+01 d.51.1.1 71529 d.51.1.1 71530 1fdi 715 1.25e+01 2napA b.52.2.2 26918 c.81.1.1 35326 1f4tA 368 1.29e+01 1f4tA a.104.1.1 18973 1h61A 364 1.31e+01 1oyc c.1.4.1 60657 1fdo 715 1.43e+01 2napA b.52.2.2 26917 c.81.1.1 35325 1gtmA 419 1.46e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1vypX 364 1.54e+01 1cseE 274 1.55e+01 1gci c.41.1.1 32481 1pmi 440 1.58e+01 1pmi b.82.1.3 28114 1eziA 228 1.64e+01 1eyrA c.68.1.13 34512 1g61A 228 1.77e+01 1g61A d.126.1.1 41126 1p77A 272 1.80e+01 c.2.1.7 -5965 c.58.1.5 -6371 1gq2A 555 1.88e+01 c.2.1.7 70308 c.58.1.3 70309 1o5kA 306 1.92e+01 c.1.10.1 -5482 1vk0A 206 1.96e+01 c.55.3.5 -7647 1aa6 715 2.02e+01 2napA b.52.2.2 26916 c.81.1.1 35324 1eyrA 228 2.03e+01 1eyrA c.68.1.13 34514 1garA 212 2.04e+01 2gar c.65.1.1 34162 1r0rE 274 2.16e+01 c.41.1.1 -7293 1jzxK 205 2.31e+01 i.1.1.2 67885 2bc2B 227 2.43e+01 1a7tA d.157.1.1 42032 1ep3B 262 2.44e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1jilA 420 2.47e+01 c.26.1.1 66745 1sup 275 2.51e+01 1gci c.41.1.1 32510 1n55A 251 2.57e+01 c.1.1.1 80007 1l7vC 249 2.61e+01 c.37.1.12 73674 1gd1O 334 2.65e+01 1dssG c.2.1.3 29962 d.81.1.1 39877 1cf2O 337 2.74e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1kbqA 273 2.77e+01 c.23.5.3 68391 1eh9A 558 2.80e+01 1ehaA b.1.18.2 21858 b.71.1.1 27785 c.1.8.1 28772 1gypA 358 2.81e+01 1dssG c.2.1.3 30004 d.81.1.1 39919 1rvv1 154 2.91e+01 1rvv1 1rvvA 154 2.91e+01 1rvv1 c.16.1.1 30927 1rpxA 230 2.91e+01 1rpxA c.1.2.2 28536 1d4aA 273 2.99e+01 1d4aA c.23.5.3 31219 1k3kA 158 3.00e+01 f.1.4.1 72017 1ikzA 142 3.00e+01 1o2dA 371 3.11e+01 e.22.1.2 86591 1lw6E 281 3.26e+01 c.41.1.1 74293 1oyjA 231 3.27e+01 a.45.1.1 87597 c.47.1.5 87598 1m6jA 261 3.30e+01 c.1.1.1 78693 1fyeA 229 3.30e+01 1fyeA c.23.16.4 31477 1v0dA 329 3.37e+01 1mqoA 227 3.44e+01 1aq0A 306 3.49e+01 1aq0A c.1.8.3 28842 1jlnA 297 3.49e+01 1pty c.45.1.2 63172 1pkp 150 3.50e+01 1pkp d.14.1.1 37551 d.50.1.2 38787 1fnnA 389 3.53e+01 1fnnA a.4.5.11 16129 c.37.1.20 32426 1hwxA 501 3.59e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 5pal 109 3.61e+01 1a75A a.39.1.4 17215 1qrdA 273 3.65e+01 1d4aA c.23.5.3 31217 1dar 691 3.69e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1qr6A 584 3.79e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1l7aA 318 3.80e+01 c.69.1.25 77772 1fy2A 229 3.83e+01 1fyeA c.23.16.4 31478 1ehaA 558 3.87e+01 1ehaA b.1.18.2 21859 b.71.1.1 27786 c.1.8.1 28773 1qfjA 232 3.92e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1j5xA 342 3.98e+01 c.80.1.1 71591