# List of top-scoring protein chains for t04-100-30-str2-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 1v7lA 163 1.51e-02 2gp4A 628 4.23e-02 2napA 723 2.25e-01 2napA b.52.2.2,c.81.1.1 26926,35334 1kqfA 1015 3.12e-01 b.52.2.2,c.81.1.1 72871,72872 1vs0A 310 4.51e-01 1iz6A 138 1.02e+00 b.34.5.2,b.40.4.5 76976,76977 1h0hA 977 1.09e+00 b.52.2.2,c.81.1.1 76435,76436 2viuA 328 1.11e+00 1hgeA b.19.1.2 23797 1ofdA 1520 1.38e+00 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1jsdA 319 1.68e+00 b.19.1.2 63258 1k3sA 113 1.69e+00 d.198.1.1 68120 1o54A 277 1.79e+00 c.66.1.13 92482 1kblA 873 2.02e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1k7jA 206 2.63e+00 d.115.1.1 72103 1pueE 89 3.09e+00 1awcA a.4.5.21 16165 1huuA 90 3.17e+00 1huuA a.55.1.1 17897 1lucB 324 3.37e+00 1lucA c.1.16.1 29548 1r6xA 395 3.41e+00 b.122.1.3,c.26.1.5 97167,97168 1zvyA 136 3.42e+00 1te7A 103 3.56e+00 1owfA 99 3.58e+00 a.55.1.1 87487 2g50A 530 4.27e+00 2b3gA 123 4.54e+00 1y0nA 78 4.56e+00 1se8A 301 4.57e+00 b.40.4.3 105448 3ullA 132 4.61e+00 3ullA b.40.4.3 25282 1qvcA 145 4.83e+00 3ullA b.40.4.3 25284 2be1A 339 5.65e+00 1hdr 244 5.77e+00 1dhr c.2.1.2 29837 2gjgA 248 6.08e+00 1zvhA 134 6.14e+00 1kl9A 182 6.46e+00 b.40.4.5 72681 1fltX 95 6.56e+00 1fltX b.1.1.4 21765 1lgpA 116 7.01e+00 b.26.1.2 73890 1g8fA 511 7.31e+00 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1ro0A 216 7.31e+00 d.264.1.2 97664 1amx 180 8.18e+00 1amx b.2.3.1 22410 2ggcA 263 8.64e+00 1jsmA 325 8.78e+00 b.19.1.2 63264 1xnzA 264 9.18e+00 1bkb 136 9.24e+00 1bkb b.34.5.2,b.40.4.5 24609,25341 1c24A 263 9.32e+00 1c24A d.127.1.1 41148 1x7dA 350 9.70e+00 2frnA 278 9.80e+00 1xocA 520 1.00e+01 2h88A 621 1.02e+01 2fbwA 621 1.03e+01 1zeqX 84 1.05e+01 2bwvA 440 1.05e+01 1wl9A 440 1.05e+01 2ahjB 212 1.07e+01 2ahjB b.34.4.4 24599 2cz1B 212 1.07e+01 2b29A 123 1.08e+01 1vkyA 347 1.10e+01 e.53.1.1 108696 1r3eA 309 1.11e+01 b.122.1.1,d.265.1.2 96907,96908 1ruwA 69 1.13e+01 2fcbA 173 1.13e+01 2fcbA b.1.1.4,b.1.1.4 21781,21782 1e0tA 470 1.17e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1xovA 326 1.21e+01 1rqpA 299 1.22e+01 b.141.1.1,c.132.1.1 97754,97755 1op3H 225 1.23e+01 b.1.1.1,b.1.1.2 87208,87209 1dzfA 215 1.24e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1dl5A 317 1.25e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 2gnqA 336 1.25e+01 1az9 457 1.25e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 2h14A 317 1.25e+01 1nnlA 225 1.29e+01 c.108.1.4 85906 1ua4A 455 1.29e+01 c.72.1.3 99128 1v37A 177 1.30e+01 1x6oA 174 1.30e+01 b.34.5.2,b.40.4.5 109493,109494 2hcuA 213 1.31e+01 1h59B 54 1.32e+01 g.3.9.1 70881 1a88A 275 1.37e+01 1brt c.69.1.12 34707 1ewiA 114 1.39e+01 1ewiA b.40.4.3 25302 1ttwA 138 1.40e+01 d.198.1.1 107308 1vdmA 153 1.45e+01 1ko7A 314 1.45e+01 c.98.2.1,c.91.1.2 72797,72798 1t3tA 1303 1.48e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1f2tB 148 1.51e+01 1f2tB 1kzlA 208 1.51e+01 b.43.4.3,b.43.4.3 77635,77636 1q7hA 153 1.52e+01 b.122.1.1,d.17.6.2 96042,96043 2bjfA 329 1.62e+01 1ydxA 406 1.63e+01 1qbjA 81 1.64e+01 1qbjA a.4.5.19 16155 1xm8A 254 1.65e+01 2g5dA 422 1.68e+01 1ufmA 84 1.70e+01 a.4.5.47 107816 1lrwA 600 1.74e+01 b.70.1.1 91111 1wjnA 97 1.80e+01 1yn8A 59 1.81e+01 1k4iA 233 1.81e+01 d.115.1.2 72056 1ue1A 164 1.83e+01 b.40.4.3 99243 1z9fA 153 1.87e+01 2cwaA 263 1.87e+01 1u7bA 261 1.89e+01 1hr0W 71 1.90e+01 1ah9 b.40.4.5 25329 1zoyA 622 1.93e+01 1a49A 530 1.94e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1erjA 393 1.95e+01 1erjA b.69.4.1 27660 2bjqA 345 1.95e+01 1ireB 228 1.98e+01 b.34.4.4 76770 1o0xA 262 1.99e+01 d.127.1.1 80755 1jqbA 351 2.01e+01 b.35.1.2,c.2.1.1 77151,77152 2cb5A 453 2.02e+01 3gcb d.3.1.1 37035 1mk4A 157 2.11e+01 d.108.1.1 84979 1fb6A 105 2.12e+01 1thx c.47.1.1 32739 2fp8A 322 2.12e+01 1uheA 97 2.14e+01 2prd 174 2.18e+01 2prd b.40.5.1 25435 1x3eA 165 2.20e+01 1kevA 351 2.21e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1zymA 258 2.21e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1wmmA 145 2.24e+01 1rpyA 114 2.25e+01 d.93.1.1 97718 1ro2A 216 2.26e+01 d.264.1.2 97665 1xmkA 79 2.30e+01 1ti6A 875 2.31e+01 b.52.2.2,c.81.1.1 106974,106975 1fdr 248 2.32e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1a8p 258 2.34e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 2acjA 66 2.35e+01 1a8vA 121 2.36e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1ugpB 226 2.44e+01 b.34.4.4 107832 1fx2A 235 2.47e+01 1fx2A d.58.29.1 39430 1tksA 204 2.48e+01 d.115.1.2 107114 2f9hA 129 2.53e+01 1s12A 94 2.54e+01 1nksA 194 2.56e+01 1nksA c.37.1.1 31886 1snnA 227 2.57e+01 d.115.1.2 105821 1pvyA 227 2.58e+01 d.115.1.2 95195 1odmA 331 2.60e+01 b.82.2.1 86875 1dhr 241 2.61e+01 1dhr c.2.1.2 29832 1zx8A 136 2.69e+01 1jb0D 138 2.70e+01 1jb0D d.187.1.1 62823 1c5cH 215 2.73e+01 1igtB b.1.1.1,b.1.1.2 20475,21439 2f1rA 171 2.75e+01 1vcbC 160 2.80e+01 1vcbC b.3.3.1 22535 1mjuH 227 2.87e+01 b.1.1.1,b.1.1.2 91302,91303 2bf5A 98 2.94e+01 1sf9A 128 2.98e+01 b.34.15.1 98831 1nkqA 259 2.98e+01 d.177.1.1 103862 2et1A 201 3.00e+01 1vchA 175 3.00e+01 1zoiA 276 3.02e+01 1qwzA 235 3.03e+01 b.100.1.1 96510 1pzxA 289 3.03e+01 c.119.1.1 95484 1fi2A 201 3.04e+01 1fi2A b.82.1.2 59845 1r5mA 425 3.06e+01 1upsA 420 3.06e+01 1ktbA 405 3.06e+01 b.71.1.1,c.1.8.1 72960,72961 1rcqA 357 3.22e+01 b.49.2.2,c.1.6.1 104882,104883 1tuaA 191 3.23e+01 d.51.1.1,d.51.1.1 107321,107322 1bk0 331 3.23e+01 1bk0 b.82.2.1 28118 2bj0A 203 3.32e+01 1rlmA 271 3.34e+01 1yavA 159 3.40e+01 1wi1A 126 3.41e+01 1hl9A 449 3.42e+01 b.71.1.3,c.1.8.11 90650,90651 1yc7A 124 3.44e+01 1n9lA 109 3.49e+01 d.110.3.6 85468 2ha8A 184 3.61e+01 2f2eA 146 3.62e+01 1bxoA 323 3.67e+01 2er7E b.50.1.2 26805 1w70A 60 3.67e+01 1k0wA 231 3.71e+01 c.74.1.1 77220 1uebA 184 3.75e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 2pvaA 345 3.75e+01 3pvaA d.153.1.3 41850 1iv8A 720 3.75e+01 b.71.1.1,c.1.8.1 76842,76843 2fxqA 264 3.96e+01 1xneA 113 3.96e+01 1a6wH 120 3.96e+01 1mfa b.1.1.1 20253 1olzA 663 4.03e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1rloA 271 4.03e+01 1smxA 96 4.05e+01 b.40.4.5 105772 1y1nA 291 4.06e+01 2gu2A 312 4.10e+01 2a9nH 126 4.23e+01 1z92B 219 4.27e+01 2fokA 579 4.34e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1juvA 193 4.35e+01 c.71.1.1 90912 1pk6A 133 4.35e+01 b.22.1.1 94801 2a19A 175 4.36e+01 1qhxA 178 4.39e+01 1qhsA c.37.1.3 31936 1oaqH 121 4.41e+01 b.1.1.1 92707 1t0hB 224 4.48e+01 c.37.1.1 106208 2bdvA 231 4.51e+01 1o26A 232 4.51e+01 d.207.1.1 86566 1kcqA 104 4.52e+01 d.109.1.1 68449 1mvuB 121 4.53e+01 b.1.1.1 91475 1ckmA 330 4.59e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1xgsA 295 4.64e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 2bu3A 254 4.66e+01 1rlmB 271 4.70e+01 1ustA 93 4.74e+01 a.4.5.13 99884 1ad2 228 4.75e+01 1ad2 e.24.1.1 43353 1lm8V 160 4.90e+01 b.3.3.1 74035 2b3hA 329 4.96e+01 1wocA 103 5.00e+01 2aqlA 173 5.01e+01 1zq4A 693 5.03e+01 1zl0A 311 5.06e+01 2b9sB 62 5.06e+01 1giqA 413 5.06e+01 d.166.1.1,d.166.1.1 76224,76225 1yfuA 174 5.10e+01 1f0lA 535 5.16e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1b12A 248 5.41e+01 1b12A b.87.1.2 28388 1jzuA 157 5.41e+01 b.60.1.1 84271 1yp5A 58 5.41e+01 1e9lA 377 5.46e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1fxkC 133 5.47e+01 1fxkC a.2.5.1 15702 1cruA 454 5.52e+01 1c9uA b.68.2.1 27617 1wi6A 88 5.55e+01 1a48 306 5.58e+01 1a48 d.143.1.1 41590 1m5yA 408 5.59e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1twfB 1224 5.62e+01 1zud2 66 5.62e+01 2bmwA 304 5.64e+01 2h4uA 145 5.64e+01 1yb3A 175 5.65e+01 1i8dA 213 5.68e+01 b.43.4.3,b.43.4.3 61953,61954 3pvaA 335 5.68e+01 3pvaA d.153.1.3 41854 1ds1A 324 5.69e+01 1drtA b.82.2.2 28127 1qxyA 252 5.69e+01 d.127.1.1 96565 1lx7A 253 5.70e+01 c.56.2.1 74329 2aq5A 402 5.83e+01 1fqtA 112 5.90e+01 1fqtA b.33.1.1 24441 2cwpA 112 5.95e+01 1xksA 450 5.96e+01 2ch8A 201 5.97e+01 1vkkA 154 5.98e+01 d.109.1.2 108669 1i50B 1224 5.99e+01 e.29.1.1 61755 2c5qA 240 5.99e+01 1b33N 67 6.02e+01 1b33N d.30.1.1 38459 1kb0A 677 6.06e+01 a.3.1.6,b.70.1.1 68378,68379 1z6gA 218 6.06e+01 1tedA 393 6.09e+01 c.95.1.2 106807 1dik 874 6.15e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 2bdrA 175 6.16e+01 2fvgA 340 6.17e+01 1g72A 573 6.17e+01 4aahA b.70.1.1 27680 1vc3B 97 6.17e+01 3tgl 269 6.25e+01 3tgl c.69.1.17 34733 1k07A 263 6.27e+01 d.157.1.1 77218 1jnyA 435 6.27e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1ltlA 279 6.31e+01 b.40.4.11 84701 1f02T 66 6.36e+01 1f02T j.67.1.1 46360 1b34B 118 6.39e+01 1b34B b.38.1.1 24797 1k3eA 156 6.39e+01 d.198.1.1 68103 2b8mA 117 6.41e+01 1aquA 297 6.42e+01 1aquA c.37.1.5 31942 1rypC 244 6.47e+01 1rypC d.153.1.4 41934 1z85A 234 6.49e+01 1whzA 70 6.51e+01 2cvlA 124 6.51e+01 1zlmA 58 6.58e+01 1ckaA 57 6.61e+01 1ckaA b.34.2.1 24459 2cnqA 306 6.61e+01 1jc4A 148 6.63e+01 1jc4A d.32.1.4 62863 1eu3A 210 6.65e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1obdA 306 6.68e+01 d.143.1.1 86767 1t3lA 337 6.71e+01 b.34.2.1,c.37.1.1 106358,106359 1tx2A 297 6.72e+01 c.1.21.1 107420 1rypG 244 6.87e+01 d.153.1.4 41938 1svy 114 6.87e+01 1svy d.109.1.1 40831 1eexG 173 6.90e+01 1dioG a.23.2.1 16490 1q5fA 156 6.94e+01 d.24.1.1 104536 2ez3A 302 6.96e+01 1qorA 327 6.97e+01 1qorA b.35.1.2,c.2.1.1 24766,29782 1w66A 232 7.03e+01 4ubpB 126 7.03e+01 1ubpB b.85.3.1 28345 1i1dA 161 7.06e+01 1i21A d.108.1.1 61526 1okgA 373 7.08e+01 c.46.1.2,c.46.1.2,d.26.1.3 93250,93251,93252 2aabH 243 7.09e+01 2bz8A 58 7.12e+01 1vf8A 377 7.12e+01 1sq5A 308 7.13e+01 c.37.1.6 105882 1wlsA 328 7.15e+01 1sz6A 249 7.16e+01 1pjxA 314 7.26e+01 b.68.6.1 104167 2auaA 224 7.30e+01 1lf2A 331 7.31e+01 b.50.1.2 77914 1j5uA 136 7.31e+01 d.208.1.1 71584 1dlfH 124 7.34e+01 1igtB b.1.1.1 20383 1tf5A 844 7.34e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1i12A 160 7.35e+01 1i21A d.108.1.1 61515 1gt1A 159 7.37e+01 b.60.1.1 90515 1hn2A 159 7.37e+01 b.60.1.1 65890 2hts 88 7.37e+01 2hts a.4.5.22 16174 1obpA 159 7.39e+01 1obpA b.60.1.1 27092 1i1nA 226 7.42e+01 c.66.1.7 71102 1ol0A 121 7.45e+01 b.1.1.1 93296 1wdjA 187 7.47e+01 1oruA 195 7.49e+01 b.58.1.2 93464 1ylnA 252 7.50e+01 2gcc 70 7.51e+01 2gcc d.10.1.2 37484 1uz8B 212 7.51e+01 b.1.1.1,b.1.1.2 108168,108169 2a9mH 126 7.53e+01 1h9dA 134 7.55e+01 1cmoA b.2.5.6 60821 6paxA 133 7.56e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 2cx7A 130 7.57e+01 1t6sA 162 7.59e+01 1e1aA 314 7.59e+01 1e1aA b.68.6.1 59155 2b8lA 405 7.71e+01 1x7lA 149 7.73e+01 b.2.10.1 109500 2fhfA 1083 7.75e+01 1pl8A 356 7.80e+01 b.35.1.2,c.2.1.1 94878,94879 1cl8A 276 7.82e+01 1ckqA c.52.1.1 33230 1k78A 149 7.85e+01 a.4.1.5,a.4.1.5 68255,68256 3aprE 325 7.85e+01 2er7E b.50.1.2 26820 1cx4A 305 7.86e+01 b.82.3.2,b.82.3.2 59099,59100 1e3jA 352 7.89e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1mzgA 146 7.92e+01 d.224.1.1 79696 2bsaA 303 7.94e+01 1h8eH 146 7.95e+01 1e79H b.93.1.1 60757 2fh1A 344 7.95e+01 1o57A 291 7.98e+01 a.4.5.40,c.61.1.1 92483,92484 2fbyA 205 8.00e+01 1s72E 178 8.00e+01 d.141.1.1,d.141.1.1 105323,105324 2an1A 292 8.02e+01 1w34A 304 8.13e+01 1wr4A 36 8.16e+01 1fknA 391 8.18e+01 1fknA b.50.1.2 26879 7aatA 401 8.29e+01 1ajsA c.67.1.1 34250 1yarA 233 8.30e+01 1w78A 422 8.31e+01 1k0rA 366 8.36e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 67961,67962,67963,67964 1tlfA 301 8.44e+01 1tlfA c.93.1.1 35687 1gcqA 61 8.46e+01 1ckaA b.34.2.1 60434 2apr 325 8.49e+01 2er7E b.50.1.2 26819 1fjgE 162 8.65e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1aonO 97 8.68e+01 b.35.1.1 24642 2gs5A 198 8.68e+01 1ju3A 583 8.68e+01 b.18.1.13,c.69.1.21 67300,67301 2avyM 117 8.72e+01 1fseA 74 8.78e+01 1fseA a.4.6.2 60000 2gvkA 317 8.81e+01 1s29A 92 8.82e+01 a.4.5.46 98373 1gcqC 70 8.82e+01 1gcpA b.34.2.1 60436 1rypB 250 8.84e+01 1rypB d.153.1.4 41933 3htsB 102 8.85e+01 2hts a.4.5.22 16175 1vi4A 174 8.86e+01 c.8.7.1 100731 1pwbA 177 8.90e+01 d.169.1.1,h.1.1.1 95212,95213 2ge3A 170 8.92e+01 2asbA 251 8.95e+01 1a62 130 8.95e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1m2tA 254 8.99e+01 d.165.1.1 84761