# List of top-scoring protein chains for t06-100-30-bys-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 1u69A 163 3.36e-01 d.32.1.7 107699 1rybA 212 4.31e-01 c.56.3.1 98098 2gaiA 633 6.35e-01 1k3yA 221 8.75e-01 a.45.1.1,c.47.1.5 77245,77246 1vcdA 126 2.34e+00 1zemA 262 3.22e+00 1vf1A 229 3.63e+00 1lj2A 110 3.66e+00 h.1.13.2 73926 1sdoA 203 4.60e+00 c.52.1.21 98809 1xrkA 124 5.57e+00 1v7cA 351 7.60e+00 c.79.1.1 100446 1cojA 212 7.66e+00 1avmA a.2.11.1,d.44.1.1 15737,38734 1bupA 386 7.73e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1xd7A 145 7.93e+00 a.4.5.55 109566 2msbA 115 8.25e+00 1rtm1 d.169.1.1 42355 1womA 271 9.03e+00 1wwpA 119 9.08e+00 1ylkA 172 9.24e+00 1l3lA 234 9.68e+00 a.4.6.2,d.110.5.1 73541,73542 1y74A 57 9.92e+00 2f9sA 151 1.05e+01 1st9A 143 1.06e+01 c.47.1.10 98987 1rktA 205 1.11e+01 a.4.1.9,a.121.1.1 97623,97624 1x82A 190 1.12e+01 1u20A 212 1.15e+01 1hnjA 317 1.18e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1avoA 60 1.21e+01 1avoA a.24.8.1 16619 1z6oM 191 1.27e+01 1zowA 313 1.30e+01 2f9lA 199 1.31e+01 1f5qB 252 1.40e+01 1f5qB a.74.1.1,a.74.1.1 18362,18363 1qh4A 380 1.61e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1nwzA 125 1.61e+01 d.110.3.1 86370 1ysjA 404 1.63e+01 1dugA 234 1.64e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1z9lA 128 1.64e+01 1wr2A 238 1.75e+01 1zi8A 236 1.76e+01 1vpkA 378 1.88e+01 1rgxA 114 1.90e+01 g.77.1.1 104932 1i1qA 520 1.97e+01 1qdlA d.161.1.1 61543 1su8A 636 1.97e+01 e.26.1.2 98999 1wucA 250 2.03e+01 1bbzA 58 2.09e+01 1bbzA b.34.2.1 24477 1go4E 100 2.11e+01 h.1.22.1 70296 1ze3H 122 2.12e+01 3pviA 157 2.20e+01 3pviA c.52.1.6 33300 1q02A 52 2.24e+01 a.5.2.1 95490 1tu7A 208 2.29e+01 1owfB 94 2.33e+01 a.55.1.1 87488 1jksA 294 2.37e+01 d.144.1.7 71710 1df7A 159 2.41e+01 3dfr c.71.1.1 34885 1y9lA 115 2.43e+01 1wxxA 382 2.49e+01 1lrzA 426 2.58e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1q2zA 120 2.66e+01 a.118.19.1 95656 1uu3A 310 2.66e+01 d.144.1.7 99999 1g1pA 33 2.69e+01 1g1pA g.3.6.1 44099 2bmeA 186 2.75e+01 1din 236 2.77e+01 1din c.69.1.9 34682 1v7lA 163 2.82e+01 1nh2D 121 2.82e+01 a.32.1.1,b.56.1.1 91876,91877 1ryp2 233 2.82e+01 1ryp2 1e1hA 287 2.83e+01 d.92.1.7 83167 1lba 146 2.86e+01 1lba d.118.1.1 41062 1uunA 184 2.90e+01 f.6.1.2 100012 1z90A 469 2.97e+01 1qc7A 101 3.06e+01 1qc7A a.118.14.1 18456 1lpbA 95 3.31e+01 1lpbA g.3.10.1,g.3.10.1 44189,44190 1eluA 390 3.33e+01 1elqA c.67.1.3 34434 1e3dB 542 3.37e+01 1h2rL e.18.1.1 59189 1rypC 244 3.37e+01 1rypC d.153.1.4 41934 1pb1A 416 3.52e+01 c.77.1.1 88014 2gf9A 189 3.53e+01 1k2xA 177 3.57e+01 d.153.1.5 90929 1go3F 107 3.59e+01 a.60.8.2 65407 1v5dA 386 3.60e+01 2c4jA 218 3.68e+01 1oxjA 173 3.77e+01 a.60.1.2,a.118.1.13 87517,87518 1z6oA 212 3.81e+01 2f71A 298 3.83e+01 1x3sA 195 3.86e+01 2ae6A 166 3.87e+01 1yoaA 159 3.94e+01 1qr0A 228 3.95e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1hz6A 72 3.97e+01 2ptl d.15.7.1 61429 1h12A 405 4.01e+01 a.102.1.2 83447 1r77A 103 4.02e+01 1e58A 249 4.03e+01 1qhfA c.60.1.1 59262 1uzpA 162 4.05e+01 g.3.11.1,g.3.11.1,g.23.1.1 100232,100233,100234 2g9iA 249 4.13e+01 1k4nA 192 4.16e+01 d.32.1.5 72059 1jgsA 138 4.18e+01 a.4.5.28 66683 2gq1A 332 4.30e+01 256bA 106 4.45e+01 256bA a.24.3.1 16539 2blkA 122 4.47e+01 1vk3A 615 4.49e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1muwA 386 4.74e+01 c.1.15.3 79495 1g5aA 628 4.76e+01 b.71.1.1,c.1.8.1 65152,65153 1i52A 236 4.96e+01 1i52A c.68.1.13 61767 1x4rA 99 5.10e+01 1h8mA 140 5.11e+01 1h8mA d.110.4.1 60782 1ty9A 222 5.11e+01 1jykA 254 5.14e+01 c.68.1.13 67458 1c6vX 81 5.24e+01 1ihvA b.34.7.1 24641 1atzA 189 5.27e+01 1atzA c.62.1.1 34132 1wb4A 297 5.30e+01 1llmC 88 5.36e+01 g.37.1.1,g.37.1.1 91059,91060 1avqA 228 5.36e+01 1avqA c.52.1.13 33326 1qwnA 1045 5.58e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1yw5A 177 5.60e+01 1jr2A 286 5.61e+01 c.113.1.1 67111 1a2yB 116 5.66e+01 1gc1H b.1.1.1 19927 2eutA 294 5.66e+01 1ufaA 520 5.69e+01 a.8.3.3,c.6.2.4 99329,99330 2fp4B 395 5.76e+01 1ykwA 435 5.76e+01 2ethA 154 5.85e+01 1jogA 146 5.86e+01 a.24.16.2 77142 1uh4A 637 5.92e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1bed 181 5.96e+01 1fvkA c.47.1.13 90330 1uehA 253 6.00e+01 c.101.1.1 99259 2f6mA 65 6.03e+01 1wloA 136 6.04e+01 2eryA 172 6.05e+01 1ji1A 637 6.12e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1mw7A 240 6.13e+01 e.39.1.1 79557 1usgA 346 6.30e+01 c.93.1.1 99864 2ex0A 399 6.46e+01 1j30A 144 6.49e+01 a.25.1.1 90806 1v1hA 103 6.56e+01 b.83.1.1,h.1.17.1 108243,108244 1v3vA 333 6.60e+01 b.35.1.2,c.2.1.1 108345,108346 2fd5A 180 6.66e+01 1wgzA 510 6.68e+01 1nowA 507 6.70e+01 c.1.8.6,d.92.2.1 85936,85937 1opd 85 6.70e+01 1ptf d.94.1.1 40560 1khdA 345 6.70e+01 a.46.2.1,c.27.1.1 77400,77401 1ppjJ 62 6.72e+01 f.23.14.1 104266 1pa1A 310 6.74e+01 c.45.1.2 94404 1h5qA 265 6.75e+01 1cydA c.2.1.2 60643 1i7wB 151 6.75e+01 1i7wB j.71.1.1 61910 1mrj 247 6.77e+01 1mrj d.165.1.1 42177 1hw7A 255 6.77e+01 1i7fA d.193.1.1 61297 1vp2A 208 6.88e+01 1g3mA 294 6.90e+01 c.37.1.5 83268 2f60K 64 6.91e+01 1k3bA 119 6.91e+01 b.61.5.1 72016 1odfA 290 6.95e+01 c.37.1.6 92782 1fjlA 81 6.98e+01 2hddA a.4.1.1 16017 1i19A 561 6.99e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 2ddrA 306 7.05e+01 1v54A 514 7.07e+01 f.24.1.1 100321 1rypI 222 7.07e+01 d.153.1.4 41877 12asA 330 7.15e+01 12asA d.104.1.1 40783 2fuqA 747 7.17e+01 1v2xA 194 7.30e+01 c.116.1.1 100274 1yiyA 429 7.31e+01 1j8mF 297 7.34e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1b9hA 388 7.40e+01 1b9hA c.67.1.4 34488 2a5jA 191 7.40e+01 1lvoA 302 7.46e+01 b.47.1.4 74284 1pz4A 116 7.54e+01 d.106.1.1 95400 2b3nA 159 7.57e+01 2etjA 250 7.67e+01 1nt2A 210 7.79e+01 c.66.1.3 86149 1j0hA 588 7.82e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 2fdn 55 7.84e+01 2fdn d.58.1.1 38944 2cw9A 194 7.87e+01 1fzqA 181 7.87e+01 1hurA c.37.1.8 32060 2cxxA 190 7.88e+01 2hddA 61 7.93e+01 2hddA a.4.1.1 15971 1it2A 146 8.00e+01 a.1.1.2 66365 2ashA 381 8.03e+01 1ozjA 144 8.06e+01 d.164.1.1 93846 1ee8A 266 8.08e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1smxA 96 8.10e+01 b.40.4.5 105772 1yizA 429 8.15e+01 1p6xA 334 8.19e+01 c.37.1.1 94195 1y0zA 330 8.30e+01 2mltA 27 8.38e+01 j.19.1.1 46171 1osdA 72 8.48e+01 d.58.17.1 104022 1rypB 250 8.48e+01 1rypB d.153.1.4 41933 1en2A 89 8.52e+01 1hev g.3.1.1,g.3.1.1 44048,44049 1b5l 172 8.63e+01 1b5l a.26.1.3 16900 1d0qA 103 8.72e+01 1d0qA g.41.3.2 45208 1m70A 190 8.93e+01 a.3.1.4,a.3.1.4 91200,91201 1ni9A 338 8.97e+01 e.7.1.2 85739 1xn7A 78 9.00e+01