# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 2al3A 90 4.67e-01 1c1yB 77 1.32e+00 1c1yB d.15.1.5 37618 1guaB 81 1.67e+00 1c1yB d.15.1.5 37619 1wrvA 308 2.92e+00 2bgcA 238 2.98e+00 1wm3A 72 3.09e+00 1euvB 86 4.12e+00 1a5r d.15.1.1 37598 1wvhA 134 6.01e+00 1gzqA 300 6.32e+00 b.1.1.2,d.19.1.1 70818,70819 1rfa 79 7.09e+00 1c1yB d.15.1.5 37620 1kv0A 66 7.30e+00 g.3.7.1 91040 2g7jA 124 7.93e+00 1yduA 170 8.70e+00 1rybA 212 9.51e+00 c.56.3.1 98098 1gskA 513 9.73e+00 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 1xv2A 237 9.83e+00 1vjoA 393 1.05e+01 c.67.1.3 100827 1g291 372 1.13e+01 1g291 1qcwA 410 1.20e+01 1gox c.1.4.1 28622 1kbjA 412 1.23e+01 c.1.4.1 72280 1vmjA 151 1.26e+01 1b1yA 500 1.30e+01 1byb c.1.8.1 28796 1djtA 64 1.30e+01 1aho g.3.7.1 44132 1vphA 149 1.37e+01 1b59A 370 1.45e+01 1bn5 a.4.5.25,d.127.1.1 16225,41162 1omiA 248 1.47e+01 b.82.3.3,a.4.5.4 87079,87080 1xezA 721 1.52e+01 1b6a 478 1.53e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 2cvjA 180 1.63e+01 3hhrB 203 1.64e+01 1axiB b.1.2.1,b.1.2.1 22005,22006 1ltdA 506 1.70e+01 1gox c.1.4.1,d.120.1.1 28618,41086 1fcbA 511 1.72e+01 1gox c.1.4.1,d.120.1.1 28620,41087 1axiB 236 1.80e+01 1axiB b.1.2.1,b.1.2.1 21997,21998 2ffyA 358 1.80e+01 1kvlA 358 1.81e+01 e.3.1.1 73062 1mpp 361 1.91e+01 2rmpA b.50.1.2 26856 1fsyA 358 1.91e+01 1gceA e.3.1.1 60016 1vq0A 302 1.93e+01 2blsA 358 1.96e+01 1gceA e.3.1.1 42747 1pi4A 358 2.01e+01 e.3.1.1 94700 2gnxA 365 2.02e+01 1l0gA 358 2.03e+01 e.3.1.1 73400 1kgqA 274 2.06e+01 b.81.1.2 72447 1sn4A 64 2.17e+01 1aho g.3.7.1 44136 1bn5 478 2.18e+01 1bn5 a.4.5.25,d.127.1.1 16224,41161 1l3aA 228 2.28e+01 d.18.1.2 73531 1wn2A 121 2.28e+01 1pv9A 348 2.50e+01 c.55.2.1,d.127.1.1 95157,95158 2ltnA 181 2.57e+01 1led b.29.1.1 24024 2f9cA 334 2.74e+01 1o51A 114 2.74e+01 d.58.5.4 92480 1nqzA 194 2.75e+01 d.113.1.1 86077 1o57A 291 2.75e+01 a.4.5.40,c.61.1.1 92483,92484 1moq 368 2.79e+01 1moq c.80.1.1 35302 1ys7A 233 2.86e+01 1vpmA 169 2.89e+01 1yh6A 179 2.90e+01 1vdxA 184 2.94e+01 1jmxA 494 2.97e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1b56 135 2.99e+01 1hmt b.60.1.2 27183 1a3gA 308 2.99e+01 1daaA e.17.1.1 43286 2yhx 457 3.07e+01 2yhx i.12.1.1 46024 1fwyA 331 3.13e+01 1fwyA b.81.1.4,c.68.1.5 28064,34522 1pz7A 204 3.16e+01 b.29.1.4 95405 2ccvA 101 3.21e+01 1a94A 99 3.24e+01 1fmb b.50.1.1 26599 1lenA 181 3.40e+01 1led b.29.1.1 24032 1iz6A 138 3.60e+01 b.34.5.2,b.40.4.5 76976,76977 3tdt 274 3.65e+01 3tdt b.81.1.2 28053 2tdt 274 3.66e+01 3tdt b.81.1.2 28054 2coaA 125 3.67e+01 1cov3 238 3.74e+01 1aym3 1l7jB 347 4.07e+01 b.30.5.4 73661 1i1kA 309 4.12e+01 1daaA e.17.1.1 61533 1umgA 362 4.17e+01 d.280.1.1 107956 1mmuA 347 4.24e+01 b.30.5.4 79303 1b47A 304 4.29e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17381,17775,40529 1hv9A 456 4.29e+01 1fwyA b.81.1.4,c.68.1.5 28060,34518 1v8yA 170 4.32e+01 1l7jA 347 4.41e+01 b.30.5.4 73660 2a5kA 307 4.42e+01 1zjjA 263 4.43e+01 1w9iA 770 4.43e+01 1v6fA 151 4.43e+01 d.109.1.2 108395 1h7mA 102 4.56e+01 d.79.3.1 83485 1t4hA 290 4.60e+01 d.144.1.7 106420 2cblA 305 4.65e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1d5yA 292 4.66e+01 1d5yA a.4.1.8,a.4.1.8,d.60.1.2 16055,16056,39532 1gwmA 153 4.67e+01 b.18.1.19 83348 1dgmA 363 4.73e+01 1bx4A c.72.1.1 34936 1yvhA 329 4.78e+01 2absA 383 4.80e+01 1ny4A 82 4.89e+01 b.40.4.5 92316 1sesA 421 4.89e+01 1sesA a.2.7.1,d.104.1.1 15710,40710 1ijtA 128 4.89e+01 1bfg b.42.1.1 62510 1a22B 238 4.90e+01 1axiB b.1.2.1,b.1.2.1 22003,22004 1sdsA 117 4.90e+01 d.79.3.1 105439 1gxrA 337 4.91e+01 b.69.4.1 70722 1a12A 413 5.11e+01 1a12A b.69.5.1 27663 3daaA 277 5.13e+01 1daaA e.17.1.1 43272 1uv7A 110 5.15e+01 d.67.4.1 100040 2asi 360 5.19e+01 2rmpA b.50.1.2 26824 2aukA 190 5.21e+01 2dabA 282 5.31e+01 1daaA e.17.1.1 43274 1d3zA 76 5.33e+01 1ubi d.15.1.1 37592 1iyeA 309 5.39e+01 e.17.1.1 83786 2b0vA 153 5.39e+01 1dkuA 317 5.40e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1dkrA 317 5.44e+01 1dkuA c.61.1.2,c.61.1.2 34114,34115 1xwwA 157 5.50e+01 1so7A 382 5.55e+01 1pqhA 143 5.58e+01 b.52.2.1 95017 1fj7A 101 5.71e+01 1fj7A d.58.7.1 39209 1tdtA 259 5.71e+01 3tdt b.81.1.2 28055 1jkfA 533 5.74e+01 c.2.1.3,d.81.1.3 71700,71701 2gh1A 301 5.77e+01 1e01A 48 5.78e+01 1e01A 1wy2A 351 5.79e+01 1gqoN 143 5.92e+01 c.23.13.1 76308 1nbfD 76 5.93e+01 d.15.1.1 80390 1b01A 45 6.08e+01 2cpgA a.43.1.3 17458 1peqA 714 6.21e+01 a.98.1.1,c.7.1.2 104131,104132 1r3nA 462 6.22e+01 c.56.5.4,d.58.19.1 96945,96946 2etgA 296 6.27e+01 1lkfA 299 6.36e+01 1pvl f.6.1.1 43821 2f06A 144 6.41e+01 1ubi 76 6.44e+01 1ubi d.15.1.1 37584 1ubq 76 6.44e+01 1ubi d.15.1.1 37585 1y8qA 346 6.47e+01 1yqzA 438 6.47e+01 2bzoB 79 6.49e+01 1xkgA 312 6.49e+01 1bkb 136 6.54e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 2cpgA 45 6.61e+01 2cpgA a.43.1.3 17455 1u9tA 354 6.74e+01 1ogwA 76 6.85e+01 d.15.1.1 87001 1vgjA 184 6.85e+01 1bdyA 123 6.85e+01 1bdyA b.7.1.1 23190 1liiA 363 6.85e+01 c.72.1.1 73921 1w66A 232 6.92e+01 2lbp 346 6.94e+01 2liv c.93.1.1 35709 1pt1A 143 6.96e+01 b.52.2.1 95084 1w41A 101 6.97e+01 1r6vA 671 7.00e+01 1nddD 76 7.02e+01 1ubi d.15.1.1 37602 1nqcA 217 7.12e+01 d.3.1.1 86024 1sjyA 159 7.13e+01 d.113.1.1 98900 1ylxA 103 7.15e+01 1nddA 76 7.20e+01 1ubi d.15.1.1 37599 2fq9A 225 7.21e+01 1gr0A 367 7.28e+01 c.2.1.3,d.81.1.3 70379,70380 1q2wA 308 7.28e+01 b.47.1.4 88355 1m65A 245 7.35e+01 c.6.3.1 84847 2c0zA 216 7.35e+01 1ktbA 405 7.38e+01 b.71.1.1,c.1.8.1 72960,72961 1frrA 95 7.50e+01 1awd d.15.4.1 37674 1zncA 266 7.50e+01 2cba b.74.1.1 27955 1p7tA 731 7.53e+01 c.1.13.1 94319 1qqsA 174 7.55e+01 1nglA b.60.1.1 27143 1yrkA 126 7.56e+01 1k3eA 156 7.64e+01 d.198.1.1 68103 1vizA 240 7.66e+01 c.1.4.1 100784 1phr 157 7.68e+01 1dg9A c.44.1.1 32635 2amdA 311 7.73e+01 1j7nB 776 7.78e+01 d.92.1.14,d.92.1.14,d.166.1.1 66412,66413,66414 1d8cA 723 7.79e+01 1d8cA c.1.13.1 29325 2d0oB 125 7.85e+01 1gqoX 143 7.92e+01 c.23.13.1 76317 1xrkA 124 7.94e+01 2fvvA 194 7.97e+01 1gqoV 143 8.04e+01 c.23.13.1 76316 1gqoM 143 8.11e+01 c.23.13.1 76307 1xgsA 295 8.11e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1myn 44 8.12e+01 1gpt g.3.7.4 44172 1gqoJ 143 8.17e+01 c.23.13.1 76304 1gqoO 143 8.19e+01 c.23.13.1 76309 1gqoT 143 8.19e+01 c.23.13.1 76314 1l1jA 239 8.21e+01 b.47.1.1 84516 1gqoG 143 8.21e+01 c.23.13.1 76301 1gqoE 143 8.24e+01 c.23.13.1 76299 1gqoS 143 8.24e+01 c.23.13.1 76313 1wdkC 390 8.34e+01 c.95.1.1,c.95.1.1 109258,109259 1sefA 274 8.39e+01 b.82.1.11 105452 2bkrB 77 8.41e+01 1wfyA 104 8.46e+01 1gqoP 143 8.48e+01 c.23.13.1 76310 1gqoB 143 8.49e+01 c.23.13.1 76296 1gqoI 143 8.50e+01 c.23.13.1 76303 1q42A 201 8.53e+01 d.17.4.2 95776 1gqoU 143 8.56e+01 c.23.13.1 76315 1gsa 316 8.58e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1bj4A 470 8.61e+01 1bj4A c.67.1.4 34479 1ten 90 8.61e+01 1ten b.1.2.1 21990 1rkqA 282 8.68e+01 c.108.1.10 97621 2cxhA 217 8.93e+01 1gqoK 143 8.96e+01 c.23.13.1 76305 1fukA 165 8.96e+01 1fukA c.37.1.19 32409 2b5nA 323 8.98e+01