# List of top-scoring protein chains for t06-100-30-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 2bptA 861 2.37e-23 1xqrA 296 1.06e-02 1xqsA 280 1.52e-02 1b3uA 588 3.04e-02 1b3uA a.118.1.2 19135 1e7uA 961 9.69e-02 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1cb8A 678 2.55e-01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1e8yA 966 2.67e-01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1wa5B 530 4.50e-01 1ee4A 423 5.26e-01 1ee4A a.118.1.1 19128 2bkkA 264 8.11e-01 2awiA 317 9.05e-01 1qsaA 618 9.32e-01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1eyhA 144 9.61e-01 1eduA a.118.9.1 19214 1n7oA 721 1.26e+00 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1bbhA 131 1.30e+00 1bbhA a.24.3.2 16546 1ux5A 411 1.68e+00 a.207.1.1 100144 2d2eA 250 1.90e+00 1a8rA 221 2.33e+00 1a8rA d.96.1.1 40587 1rqjA 299 2.35e+00 a.128.1.1 97744 1wu4A 396 2.62e+00 2d0tA 406 2.82e+00 1rtwA 220 2.99e+00 a.132.1.3 97823 1ei5A 520 3.14e+00 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1rxwA 336 3.16e+00 a.60.7.1,c.120.1.2 98059,98060 1xnfA 275 3.60e+00 2fk8A 318 3.67e+00 1lehA 364 3.80e+00 1bw9A c.2.1.7,c.58.1.1 30268,33916 1s4bP 674 4.47e+00 d.92.1.5 105252 1r5rA 119 4.85e+00 a.39.2.1 97104 1ihbA 162 4.95e+00 1bd8 d.211.1.1 19161 1nekC 129 5.01e+00 f.21.2.2 80431 1ie9A 259 5.07e+00 1db1A a.123.1.1 62318 1td6A 306 5.48e+00 1dceA 567 5.68e+00 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1vrbA 342 6.39e+00 1dekA 241 6.40e+00 1dekA c.37.1.1 31842 1t3wA 148 7.25e+00 1vjjA 692 7.72e+00 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1vmaA 306 7.79e+00 a.24.13.1,c.37.1.10 108887,108888 1upkA 341 7.92e+00 a.118.1.15 99758 1b25A 619 8.12e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 1ho8A 480 8.53e+00 1ho8A a.118.1.9 61107 2cwcA 303 9.00e+00 2spcA 107 9.27e+00 2spcA a.7.1.1 16311 1pc6A 146 9.64e+00 d.262.1.1 94430 1tuaA 191 1.01e+01 d.51.1.1,d.51.1.1 107321,107322 1zvdA 380 1.10e+01 1xo1A 291 1.16e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1wa5C 960 1.20e+01 1v8dA 235 1.26e+01 c.140.1.1 108425 1wkbA 810 1.30e+01 1ajsA 412 1.30e+01 1ajsA c.67.1.1 34276 1i5pA 633 1.32e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 5rubA 490 1.35e+01 1burA c.1.14.1,d.58.9.1 29382,39288 1rcwA 231 1.39e+01 a.132.1.4 97299 1v54A 514 1.41e+01 f.24.1.1 100321 16pk 415 1.43e+01 16pk c.86.1.1 35454 1zc6A 305 1.45e+01 1wdcB 156 1.46e+01 1wdcB a.39.1.5 17302 1q8yA 373 1.49e+01 d.144.1.7 96234 2azjA 289 1.60e+01 1g87A 614 1.75e+01 a.102.1.2,b.2.2.2 83275,83276 1ew6A 137 1.78e+01 1ewaA a.1.1.2 15637 1n46A 258 1.85e+01 a.123.1.1 85315 1q8iA 783 1.88e+01 c.55.3.5,e.8.1.1 96208,96209 1n00A 321 1.91e+01 a.65.1.1 85241 1hrhA 136 1.91e+01 1rthA c.55.3.1 33577 2axtB 510 1.92e+01 1h54A 754 1.93e+01 a.102.1.4,b.30.5.3 60634,60635 1oq9A 363 1.93e+01 a.25.1.2 87257 1qq5A 253 1.94e+01 1qq5A c.108.1.1 43327 1ouvA 273 1.96e+01 a.118.18.1 93570 1f45B 197 2.04e+01 1f45B a.26.1.1 59642 1upvA 257 2.04e+01 1a76 326 2.09e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1m0kA 262 2.10e+01 f.13.1.1 78344 2fcwA 109 2.12e+01 1rzhL 281 2.18e+01 f.26.1.1 98164 2fq9A 225 2.21e+01 1l6wA 220 2.23e+01 c.1.10.1 73632 1xdwA 331 2.25e+01 1tazA 365 2.26e+01 a.211.1.2 106734 2bbeA 108 2.27e+01 1t2dA 322 2.31e+01 c.2.1.5,d.162.1.1 99084,99085 1twfB 1224 2.32e+01 1ji6A 589 2.33e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 2b99A 156 2.34e+01 1wdyA 285 2.35e+01 1dqeA 137 2.37e+01 1dqeA a.39.2.1 17388 1z5hA 780 2.53e+01 1ig8A 486 2.56e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1ki9A 192 2.56e+01 c.37.1.1 84404 1hw1A 239 2.67e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1owcA 427 2.68e+01 a.103.1.1 104039 1a6m 151 2.69e+01 1a6m a.1.1.2 15018 1gjnA 153 2.74e+01 a.1.1.2 70191 1yc9A 442 2.74e+01 1gpmA 525 2.75e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1mpgA 282 2.75e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1gw5A 621 2.76e+01 a.118.1.10 70629 2frfA 153 2.76e+01 1ps1A 337 2.78e+01 1ps1A a.128.1.4 19450 1kk8B 139 2.79e+01 a.39.1.5 77430 1o6zA 303 2.80e+01 c.2.1.5,d.162.1.1 81107,81108 2sqcA 631 2.83e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1yzfA 195 2.83e+01 1t5oA 351 2.83e+01 c.124.1.5 106459 1b43A 340 2.88e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1wg8A 285 2.89e+01 1pu6A 218 2.89e+01 a.96.1.5 95123 1ytaA 180 2.90e+01 1ex0A 731 2.92e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 2c30A 321 2.94e+01 1n35A 1267 2.94e+01 e.8.1.4 79935 1o26A 232 2.94e+01 d.207.1.1 86566 1uzbA 516 2.95e+01 c.82.1.1 100220 1lrv 244 2.95e+01 1lrv a.118.1.5 19146 1a5t 334 3.00e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1wer 334 3.05e+01 1wer a.116.1.2 19108 1q5zA 177 3.06e+01 a.196.1.1 95954 1l7vA 326 3.09e+01 f.22.1.1 73672 1wzvA 155 3.11e+01 2arcA 164 3.14e+01 2arcA b.82.4.1 28148 2g62A 325 3.23e+01 1rxqA 178 3.25e+01 a.213.1.1 105118 1lshA 1056 3.26e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1rro 108 3.29e+01 1a75A a.39.1.4 17195 1i6pA 220 3.33e+01 1ddzA c.53.2.1 61848 1clc 639 3.37e+01 1clc a.102.1.2,b.1.18.2 18835,21872 1qf8A 182 3.41e+01 1qf8A g.41.4.1 45212 1xahA 354 3.42e+01 2auwA 170 3.49e+01 2bidA 197 3.51e+01 2bidA f.1.4.1 43398 1z23A 163 3.53e+01 1u4gA 301 3.55e+01 d.92.1.2 107670 1ycsB 239 3.59e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 1vb3A 428 3.63e+01 1mkiA 330 3.68e+01 e.3.1.2 84994 2esrA 177 3.70e+01 1epuA 591 3.77e+01 1dn1A e.25.1.1 43358 1eyeA 280 3.81e+01 1aj2 c.1.21.1 29672 1yw0A 276 3.82e+01 1sziA 247 3.87e+01 a.24.23.1 106159 2ftuA 118 3.88e+01 1jdhA 529 3.90e+01 a.118.1.1 66549 1yakA 263 3.92e+01 1ztpA 251 3.92e+01 1pjhA 280 4.02e+01 c.14.1.3 94761 2napA 723 4.05e+01 2napA b.52.2.2,c.81.1.1 26926,35334 2bmaA 470 4.06e+01 1y2mA 716 4.06e+01 1v5dA 386 4.09e+01 1ituA 369 4.13e+01 c.1.9.7 71423 1n45A 233 4.13e+01 a.132.1.1 79981 1qgdA 662 4.16e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1ayl 541 4.17e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 2d00A 109 4.23e+01 1v4aA 440 4.24e+01 a.24.16.4,d.218.1.9 108350,108351 1p1jA 533 4.25e+01 c.2.1.3,d.81.1.3 87687,87688 1eyvA 156 4.26e+01 1eyvA a.79.1.1 18446 1sumB 235 4.26e+01 a.7.12.1 106025 2gupA 292 4.26e+01 1uocA 289 4.34e+01 c.55.3.9 99686 1uwkA 557 4.38e+01 e.51.1.1 108065 1t4bA 367 4.38e+01 c.2.1.3,d.81.1.1 106406,106407 2bv5A 282 4.39e+01 1myt 146 4.39e+01 1a6m a.1.1.2 15207 1v74B 87 4.41e+01 a.24.20.1 100443 1v0wA 506 4.44e+01 d.136.1.2,d.136.1.2 108220,108221 1pjr 724 4.45e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1dciA 275 4.48e+01 1dciA c.14.1.3 30918 1fmjA 351 4.50e+01 c.37.1.5 59879 1w5fA 353 4.58e+01 2ac3A 316 4.59e+01 1j54A 186 4.62e+01 c.55.3.5 77077 2f4iA 197 4.63e+01 1vjoA 393 4.66e+01 c.67.1.3 100827 2bykB 128 4.67e+01 1s9uA 207 4.69e+01 a.184.1.1 105390 2cy7A 396 4.81e+01 1qopB 396 4.87e+01 2tysB c.79.1.1 35270 1r0pA 312 4.87e+01 d.144.1.7 96734 2fiqA 420 4.88e+01 1u2kA 309 4.98e+01 1ukuA 102 5.02e+01 d.58.5.2 99533 1vyiA 112 5.02e+01 1obbA 480 5.05e+01 c.2.1.5,d.162.1.2 86760,86761 1xyzA 347 5.05e+01 1taxA c.1.8.3 28804 1jk0B 345 5.14e+01 a.25.1.2 63143 1ekeA 230 5.24e+01 1ekeA c.55.3.1 33572 1vqoR 155 5.29e+01 1om1A 332 5.36e+01 d.144.1.7 93347 1ydxA 406 5.36e+01 1up8A 598 5.37e+01 a.111.1.2 99710 1musA 477 5.38e+01 c.55.3.4 79494 1f3vA 179 5.42e+01 1f3vA d.58.22.1 39382 1p4cA 380 5.43e+01 c.1.4.1 94100 2f57A 317 5.49e+01 1xkrA 206 5.56e+01 1rq2A 382 5.56e+01 c.32.1.1,d.79.2.1 105048,105049 1k8kG 151 5.56e+01 a.118.13.1 68313 1i3dA 146 5.56e+01 a.1.1.2 61587 1h21A 247 5.62e+01 a.138.1.3 76510 1ugpA 203 5.68e+01 d.149.1.1 107831 1vlbA 907 5.70e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1cg5B 141 5.76e+01 1cg5B a.1.1.2 15585 1k7kA 221 5.78e+01 c.51.4.1 72104 1thg 544 5.86e+01 1thg c.69.1.17 34763 1lnsA 763 5.87e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1uthA 315 5.90e+01 c.94.1.1 108032 1jfbA 404 5.92e+01 a.104.1.1 66624 1on2A 142 6.08e+01 a.4.5.24,a.76.1.1 87103,87104 1kgnA 329 6.10e+01 a.25.1.2 68584 1r9dA 787 6.12e+01 c.7.1.1 104865 1vqqA 646 6.14e+01 1yg2A 179 6.14e+01 16vpA 366 6.17e+01 16vpA d.180.1.1 42601 1mwmA 320 6.26e+01 c.55.1.1,c.55.1.1 79580,79581 2aaoA 166 6.32e+01 1ib2A 349 6.38e+01 1ib2A a.118.1.8 62141 6ldh 330 6.40e+01 3ldh c.2.1.5,d.162.1.1 30161,42128 2tct 207 6.43e+01 2tct a.4.1.9,a.121.1.1 16063,19240 2af6A 258 6.59e+01 2ex3B 264 6.63e+01 1eu8A 409 6.63e+01 1eu8A c.94.1.1 59502 1elkA 157 6.68e+01 1dvpA a.118.9.2 19217 2aebA 322 6.71e+01 1hbnB 442 6.73e+01 1mroB a.89.1.1,d.58.31.2 60900,60901 1v0dA 329 6.73e+01 d.4.1.7 108204 1pvtA 238 6.75e+01 c.74.1.1 95189 2bjkA 516 6.76e+01 1uarA 285 6.78e+01 c.46.1.2,c.46.1.2 107762,107763 2b5dX 528 6.79e+01 1cv8 174 6.79e+01 1cv8 d.3.1.1 37089 2ch4A 320 6.82e+01 1yz7A 188 6.91e+01 1yksA 440 6.92e+01 1r6fA 310 6.95e+01 e.46.1.1 97149 1ki1B 352 7.00e+01 a.87.1.1,b.55.1.1 72497,72498 1cd3B 120 7.08e+01 1cd3B 1zedA 484 7.10e+01 1h7eA 245 7.27e+01 c.68.1.13 60717 1g0cA 364 7.29e+01 7a3hA c.1.8.3 60165 1xfrA 128 7.30e+01 2pgd 482 7.50e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1ofcX 304 7.51e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1dm5A 315 7.51e+01 1avc a.65.1.1 18186 2aa1B 146 7.57e+01 1gbs 185 7.68e+01 153l d.2.1.5 36986 1dkuA 317 7.70e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1uhnA 189 7.77e+01 a.39.1.5 99399 1ihuA 589 7.79e+01 c.37.1.10,c.37.1.10 62394,62395 3grs 478 7.87e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1ex2A 189 7.90e+01 1ex2A c.51.4.2 33225 1lvfA 110 7.98e+01 a.47.2.1 74280 1t0qA 498 8.00e+01 a.25.1.2 106220 1m0uA 249 8.06e+01 a.45.1.1,c.47.1.5 78359,78360 1e12A 253 8.08e+01 1c3wA f.13.1.1 43428 1hm6A 346 8.12e+01 1avc a.65.1.1 18147 1cnzA 363 8.17e+01 1cnzA c.77.1.1 35061 2f2gA 221 8.21e+01 1auiB 169 8.24e+01 1auiB a.39.1.5 17325 2g38B 198 8.25e+01 1oyzA 280 8.26e+01 a.118.1.16 93775 1o12A 376 8.39e+01 b.92.1.5,c.1.9.10 80758,80759 1pvaA 110 8.42e+01 1a75A a.39.1.4 17207 1hz4A 373 8.45e+01 a.118.8.2 65960 1otsA 465 8.47e+01 f.20.1.1 87415 1dceB 331 8.48e+01 1dceB a.102.4.3 18872 1su0B 159 8.48e+01 d.224.1.2 106015 1w5qA 337 8.56e+01 1jixA 351 8.56e+01 1c3jA c.87.1.1 63081 1gwuA 309 8.57e+01 a.93.1.1 83351 2fug1 438 8.57e+01 1ldjA 760 8.64e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1aisB 200 8.72e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1x8vA 455 8.75e+01 1jr8A 117 8.79e+01 a.24.15.1 67115 2c5uA 375 8.94e+01 1uzeA 589 8.97e+01 d.92.1.5 108174