# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-scores 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 1tzbA 302 2.36e-04 1c7qA 445 9.73e-03 2pgi c.80.1.2 35307 1moq 368 1.02e-02 1moq c.80.1.1 35302 1mkaA 171 4.52e-01 1mkaA d.38.1.2 38543 1io7A 368 1.22e+00 1f4tA a.104.1.1 18971 1t5bA 201 1.34e+00 1j5xA 342 1.37e+00 c.80.1.1 71591 1dar 691 1.99e+00 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1nnlA 225 2.10e+00 c.108.1.4 85906 1gp6A 356 2.18e+00 b.82.2.1 65441 1kkhA 317 2.47e+00 d.14.1.5 72645 d.58.26.3 72646 2fcr 173 2.68e+00 1rcf c.23.5.1 31151 1edg 380 3.37e+00 1edg c.1.8.3 28807 1garA 212 3.43e+00 2gar c.65.1.1 34162 1h2sA 225 3.43e+00 f.13.1.1 76578 1rkpA 326 3.58e+00 a.125.1.1 -1729 1jgjA 217 4.06e+00 1c3wA f.13.1.1 62952 1in4A 334 4.65e+00 1hqcA a.4.5.11 62597 c.37.1.20 62598 1bx4A 345 4.71e+00 1bx4A c.72.1.1 34935 1tbfA 347 4.78e+00 1g0hA 252 5.01e+00 1dk4A e.7.1.1 60171 1r9dA 787 5.71e+00 7aatA 401 6.52e+00 1ajsA c.67.1.1 34250 1lfwA 470 6.74e+00 c.56.5.4 77942 d.58.19.1 77943 1kid 203 6.87e+00 1derA c.8.5.1 30771 3ertA 261 6.96e+00 3erdA a.123.1.1 19292 1in6A 334 7.03e+00 1hqcA a.4.5.11 62601 c.37.1.20 62602 1mqvA 125 7.15e+00 a.24.3.2 79415 1kb9B 352 7.17e+00 d.185.1.1 77313 d.185.1.1 77314 1egaA 301 7.23e+00 1egaA c.37.1.8 32150 d.52.3.1 38836 1j6rA 214 7.26e+00 d.173.1.2 71598 1vhiA 142 8.47e+00 1b3tA d.58.8.1 39230 1dqnA 230 8.70e+00 1dqnA c.61.1.1 34067 1c7gA 456 8.98e+00 c.67.1.2 -8153 1mumA 295 9.30e+00 c.1.12.7 85108 1ciy 590 1.03e+01 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1e6yA 569 1.04e+01 1mroA a.89.1.1 18529 d.58.31.2 39447 1dqpA 230 1.04e+01 1dqnA c.61.1.1 34069 1pmy 123 1.09e+01 1bqk b.6.1.1 22888 1tikA 213 1.10e+01 1b3tA 147 1.11e+01 1b3tA d.58.8.1 39228 1ezvB 352 1.14e+01 1ezvB d.185.1.1 59543 d.185.1.1 59544 1s9pA 227 1.22e+01 1otjA 283 1.30e+01 b.82.2.5 -4893 1e1oA 504 1.32e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1pyfA 312 1.34e+01 c.1.7.1 -5251 1jlnA 297 1.37e+01 1pty c.45.1.2 63172 1qisA 396 1.38e+01 1ajsA c.67.1.1 34284 1r5jA 337 1.41e+01 unknown_sccs -8471 1rp4A 389 1.42e+01 1lwbA 122 1.45e+01 a.133.1.3 84728 1oaoA 674 1.49e+01 e.26.1.2 86744 1p77A 272 1.56e+01 c.2.1.7 -5965 c.58.1.5 -6371 1p4xA 250 1.64e+01 a.4.5.28 87784 a.4.5.28 87785 1nytA 271 1.66e+01 c.2.1.7 86417 c.58.1.5 86418 1kao 167 1.66e+01 1ctqA c.37.1.8 32014 1ct9A 553 1.71e+01 1ct9A c.26.2.1 31616 d.153.1.1 41834 1jkxA 212 1.79e+01 c.65.1.1 66813 1ihp 438 1.79e+01 1ihp c.60.1.2 33993 1ax4A 467 1.80e+01 1ax4A c.67.1.2 34391 1j08A 226 1.84e+01 c.47.1.2 83855 c.47.1.2 83856 1st9A 143 1.89e+01 c.47.1.10 -7503 1ig0A 319 1.89e+01 1ig0A b.82.6.1 62354 c.100.1.1 62355 1n5uA 585 1.89e+01 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1b6rA 355 1.92e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 2kinB 100 1.96e+01 3kinB 2gar 212 1.99e+01 2gar c.65.1.1 34161 1mkyA 439 2.08e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1jl5A 454 2.09e+01 c.10.2.6 66830 1qmhA 347 2.14e+01 1qmhA c.47.2.1 33082 d.68.2.1 39568 1i5pA 633 2.14e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1o75A 415 2.16e+01 b.1.20.1 81117 b.1.20.1 81118 b.120.1.1 81119 1nt2B 258 2.17e+01 a.183.1.1 86150 1nwaA 203 2.19e+01 d.58.28.1 86295 1e3pA 757 2.22e+01 1e3hA a.4.9.1 16258 b.40.4.5 25328 d.14.1.4 37574 d.14.1.4 37575 d.52.3.1 38811 d.101.1.1 40697 d.101.1.1 40698 1mk4A 157 2.25e+01 d.108.1.1 84979 1okcA 297 2.27e+01 unknown_sccs -12339 1efdN 266 2.27e+01 1efdN c.92.2.1 35597 1bbhA 131 2.29e+01 1bbhA a.24.3.2 16546 1m22A 503 2.37e+01 c.117.1.1 78464 1shuX 182 2.38e+01 c.62.1.1 -7982 1ps1A 337 2.39e+01 1ps1A a.128.1.4 19450 1sqsA 242 2.45e+01 unknown_sccs -6433 1ow4A 129 2.46e+01 a.39.2.1 -876 1khdA 345 2.47e+01 a.46.2.1 77400 c.27.1.1 77401 1uqtA 482 2.54e+01 c.87.1.6 -8593 1sfe 180 2.55e+01 1sfe a.4.2.1 16073 c.55.7.1 33748 1mwvA 714 2.58e+01 a.93.1.3 85161 a.93.1.3 85162 1f7lA 121 2.63e+01 1f7lA d.150.1.2 59666 1m3sA 186 2.72e+01 c.80.1.3 78573 1gkzA 388 2.76e+01 a.29.5.1 65268 d.122.1.4 65269 1t33A 224 2.78e+01 1ekeA 230 2.89e+01 1ekeA c.55.3.1 33572 1dusA 194 2.93e+01 1dusA c.66.1.4 34182 1dljA 402 2.96e+01 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1c02A 166 2.97e+01 1qspA a.24.10.2 16633 1c3wA 222 3.13e+01 1c3wA f.13.1.1 43405 1jw9B 249 3.13e+01 c.111.1.1 67377 1izoA 417 3.15e+01 a.104.1.1 83851 1m0kA 262 3.22e+01 f.13.1.1 78344 1m1zA 513 3.27e+01 c.26.2.1 78457 d.153.1.1 78458 1f0yA 302 3.29e+01 2hdhA a.100.1.3 18793 c.2.1.6 30197 1evyA 366 3.35e+01 1evyA a.100.1.6 18811 c.2.1.6 30215 1e7aA 585 3.39e+01 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1qlpA 394 3.41e+01 1ovaA e.1.1.1 42628 1cnzA 363 3.47e+01 1cnzA c.77.1.1 35061 1teaA 299 3.47e+01 1jipA 403 3.48e+01 a.104.1.1 66748 1jqbA 351 3.49e+01 b.35.1.2 77151 c.2.1.1 77152 1pswA 348 3.51e+01 c.87.1.7 88287 4enl 436 3.55e+01 4enl c.1.11.1 29202 d.54.1.1 38846 1kevA 351 3.62e+01 1pedA b.35.1.2 24749 c.2.1.1 29765 1t35A 191 3.70e+01 unknown_sccs -7285 1rcf 169 3.82e+01 1rcf c.23.5.1 31170 1tpfA 250 3.86e+01 1amk c.1.1.1 28467