# List of top-scoring protein chains for t06-100-30-n_notor2-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 1lehA 364 1.25e+00 1bw9A c.2.1.7,c.58.1.1 30268,33916 1jq5A 370 1.49e+00 e.22.1.2 67084 2ajrA 331 1.65e+00 1qh4A 380 1.90e+00 1qh4A a.83.1.1,d.128.1.2 18462,41197 1ct9A 553 2.10e+00 1ct9A c.26.2.1,d.153.1.1 31616,41834 1ta9A 450 2.21e+00 1wb0A 445 2.79e+00 1cjaA 342 3.00e+00 1cjaA d.144.1.3 41708 1l5oA 356 3.13e+00 c.39.1.1 77711 1zmdA 474 3.42e+00 1c93A 265 3.46e+00 2ebn c.1.8.5 28998 1yw5A 177 3.58e+00 2pia 321 3.83e+00 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1udc 338 3.94e+00 1xel c.2.1.2 29785 1xesA 413 4.27e+00 1nrwA 288 4.55e+00 c.108.1.10 86128 1l9kA 305 4.82e+00 c.66.1.25 84569 1t1gA 364 5.00e+00 c.41.1.2 106246 1nd4A 264 5.39e+00 d.144.1.6 91815 1zy9A 564 5.44e+00 1woqA 267 5.54e+00 c.55.1.10,c.55.1.10 109462,109463 1usyA 275 5.56e+00 1x38A 602 5.75e+00 1eu8A 409 5.83e+00 1eu8A c.94.1.1 59502 1ojrA 274 5.97e+00 c.74.1.1 93147 1pieA 419 6.29e+00 d.14.1.5,d.58.26.7 94706,94707 1jbwA 428 6.70e+00 c.59.1.2,c.72.2.2 62860,62861 1rvkA 382 6.81e+00 c.1.11.2,d.54.1.1 97928,97929 2av4A 162 7.27e+00 2a1hA 365 7.44e+00 2cvzA 289 7.56e+00 1kqfB 294 7.74e+00 d.58.1.5,f.23.22.1 75900,75901 1j7gA 144 8.00e+00 c.110.1.1 84130 1d4xG 126 8.17e+00 1d0nA d.109.1.1 59109 1e4mM 501 8.19e+00 1e70M c.1.8.4 59226 1u0mA 382 8.32e+00 c.95.1.2,c.95.1.2 107557,107558 1ujnA 348 8.38e+00 e.22.1.1 99460 1wljA 189 8.40e+00 1z57A 339 8.74e+00 1p35A 299 8.79e+00 1p35A b.28.1.1 23925 1pot 325 8.80e+00 1pot c.94.1.1 35807 2gnpA 266 8.85e+00 1wsrA 375 9.02e+00 1dc1A 323 9.46e+00 1dc1A c.52.1.11 33321 1vheA 373 1.00e+01 b.49.3.1,c.56.5.4 100669,100670 3tmkA 216 1.02e+01 3tmkA c.37.1.1 31920 1w5qA 337 1.05e+01 1zk7A 467 1.12e+01 2b6nA 278 1.17e+01 1k2xB 143 1.20e+01 1vkhA 273 1.21e+01 c.69.1.32 108662 1m5q1 130 1.22e+01 1gppA 237 1.23e+01 b.86.1.2 76262 1zkpA 268 1.23e+01 1zxuA 217 1.26e+01 1djrD 103 1.26e+01 3chbD b.40.2.1 24865 1p57A 114 1.29e+01 d.170.1.2 94125 1gycA 499 1.29e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1vhxA 150 1.33e+01 c.55.3.8 100712 3bamA 213 1.33e+01 1bam c.52.1.3 33288 1euvA 221 1.35e+01 1euvA d.3.1.7 37133 1v8bA 479 1.38e+01 2d0iA 333 1.39e+01 1txnA 328 1.41e+01 2fh5A 185 1.44e+01 2cfuA 658 1.45e+01 1u3dA 509 1.50e+01 a.99.1.1,c.28.1.1 107638,107639 1rypA 243 1.51e+01 1pmaA d.153.1.4 41932 1xahA 354 1.55e+01 2ap1A 327 1.61e+01 1hnjA 317 1.61e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 2btvA 901 1.64e+01 2btvA e.28.1.1 43376 1yifA 533 1.64e+01 1j1lA 290 1.65e+01 b.82.1.12 90766 1f8rA 498 1.66e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 1aisA 182 1.67e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1poiB 260 1.67e+01 1poiB c.124.1.3 34155 1wd7A 261 1.68e+01 1i8aA 189 1.72e+01 1i82A b.1.9.2 61951 1byi 224 1.77e+01 1byi c.37.1.10 32199 1wthD 391 1.78e+01 2a74A 643 1.79e+01 2furA 209 1.80e+01 1r5yA 386 1.80e+01 c.1.20.1 97134 1vixA 420 1.80e+01 c.56.5.4,d.58.19.1 100777,100778 2g8yA 385 1.81e+01 2bjbA 462 1.84e+01 1mqeA 207 1.88e+01 d.113.1.1 91394 1y88A 199 1.90e+01 1orvA 728 1.90e+01 b.70.3.1,c.69.1.24 87354,87355 2c0hA 353 1.91e+01 1xb4A 202 1.93e+01 1x0rA 249 1.94e+01 2aioA 269 1.94e+01 1wf3A 301 1.98e+01 2bkrA 212 1.99e+01 1r1hA 696 2.07e+01 d.92.1.4 104756 1t46A 313 2.08e+01 d.144.1.7 106397 1atg 231 2.09e+01 1atg c.94.1.1 35834 1ejxC 567 2.10e+01 b.92.1.1,c.1.9.2 83184,83185 1icpA 376 2.11e+01 1oyc c.1.4.1 62270 1zybA 232 2.13e+01 1ry9A 145 2.23e+01 d.198.1.1 98094 1hbnB 442 2.24e+01 1mroB a.89.1.1,d.58.31.2 60900,60901 1jmuB 666 2.27e+01 2b59B 172 2.28e+01 2aamA 309 2.29e+01 1u69A 163 2.33e+01 d.32.1.7 107699 1c0pA 363 2.34e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1h3qA 140 2.35e+01 d.110.4.3 76652 3eipA 84 2.37e+01 3eipA d.26.2.1 38434 3chbD 104 2.38e+01 3chbD b.40.2.1 24970 1bx4A 345 2.38e+01 1bx4A c.72.1.1 34935 1zbfA 142 2.41e+01 2bhuA 602 2.42e+01 1zc6A 305 2.45e+01 1khbA 625 2.47e+01 c.91.1.1,c.109.1.1 68606,68607 1a0cA 438 2.53e+01 1a0cA c.1.15.3 29529 1lnsA 763 2.53e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1yqzA 438 2.56e+01 1ga8A 311 2.57e+01 1ga8A c.68.1.4 34516 1jx4A 352 2.58e+01 d.240.1.1,e.8.1.7 90378,90379 2b7aA 293 2.61e+01 1d8wA 426 2.62e+01 1de5A c.1.15.2 29394 1z15A 344 2.69e+01 1wa3A 205 2.71e+01 1uanA 227 2.82e+01 c.134.1.1 99135 1odzA 386 2.84e+01 c.1.8.3 86889 1nnfA 309 2.89e+01 c.94.1.1 85903 1tfr 305 2.92e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1rlmA 271 2.94e+01 1p7gA 222 2.94e+01 a.2.11.1,d.44.1.1 94223,94224 1e8yA 966 2.99e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1lf6A 684 2.99e+01 a.102.1.5,b.30.5.5 77918,77919 1k8kA 418 3.03e+01 c.55.1.1,c.55.1.1 68305,68306 1vybA 238 3.05e+01 d.151.1.1 108897 1vloA 381 3.10e+01 b.44.2.1,d.250.1.1 108838,108839 1q7eA 428 3.12e+01 c.123.1.1 96035 1vcoA 550 3.12e+01 c.23.16.1,c.37.1.10 108508,108509 1ra0A 430 3.13e+01 2b4yA 271 3.15e+01 1wvfA 520 3.15e+01 1n4kA 381 3.18e+01 a.118.22.1,b.42.6.1 79992,79993 1jftA 340 3.20e+01 a.35.1.5,c.93.1.1 66652,66653 1wqaA 455 3.22e+01 1qhfA 240 3.23e+01 1qhfA c.60.1.1 33960 1rybA 212 3.23e+01 c.56.3.1 98098 1i0dA 332 3.25e+01 1pscA c.1.9.3 61487 2bsxA 253 3.25e+01 1gw5S 142 3.26e+01 d.110.4.2 70633 1j6wA 175 3.27e+01 1j98A d.185.1.2 62663 1zaiA 363 3.33e+01 1zvkA 358 3.33e+01 2d0oA 610 3.38e+01 1r0rE 274 3.41e+01 c.41.1.1 96735 1bykA 255 3.41e+01 1bykA c.93.1.1 35706 1vi6A 208 3.42e+01 c.23.15.1 100736 1dfmA 223 3.47e+01 1d2iA c.52.1.5 33295 1p1jA 533 3.48e+01 c.2.1.3,d.81.1.3 87687,87688 1zk4A 251 3.49e+01 1w6gA 646 3.50e+01 1vrbA 342 3.51e+01 1us0A 316 3.52e+01 c.1.7.1 99850 2asbA 251 3.53e+01 1m1hA 248 3.55e+01 b.114.1.1,d.58.42.1 78415,78416 2f2hA 773 3.58e+01 1xpkC 388 3.60e+01 1hyoA 421 3.64e+01 1qcnA b.34.8.1,d.177.1.1 59001,59002 1gzcA 239 3.64e+01 b.29.1.1 70803 1ht6A 405 3.66e+01 b.71.1.1,c.1.8.1 83629,83630 1jbkA 195 3.66e+01 c.37.1.20 71631 1vr7A 142 3.68e+01 1azo 232 3.75e+01 1azo c.52.1.14 33329 1k8kC 372 3.75e+01 b.69.4.1 68308 1qh5A 260 3.75e+01 1qh5A d.157.1.2 42057 1p90A 145 3.82e+01 c.55.5.2 94377 2bvfA 459 3.83e+01 1ea7A 310 3.84e+01 c.41.1.1 70086 2b99A 156 3.91e+01 2amdA 311 3.92e+01 1gdeA 389 4.01e+01 c.67.1.1 60456 2sns 149 4.02e+01 1snc b.40.1.1 24860 1zgdA 312 4.06e+01 2bfwA 200 4.09e+01 1ctt 294 4.13e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1o0yA 260 4.20e+01 c.1.10.1 80756 1mqoA 227 4.23e+01 d.157.1.1 103846 1cl8A 276 4.28e+01 1ckqA c.52.1.1 33230 1hqsA 423 4.29e+01 1iso c.77.1.1 61154 1vlyA 338 4.37e+01 b.44.2.1,d.250.1.1 108871,108872 1ynfA 458 4.37e+01 1o5kA 306 4.39e+01 c.1.10.1 92504 1zxmA 400 4.42e+01 1w1oA 534 4.42e+01 d.58.32.4,d.145.1.1 109071,109072 2a10A 125 4.47e+01 1u6eA 335 4.52e+01 1zfjA 491 4.56e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1mrg 263 4.64e+01 1mrj d.165.1.1 42183 1iejA 332 4.66e+01 1nnt c.94.1.2 62328 1z2mA 155 4.67e+01 1ztpA 251 4.70e+01 1xfkA 336 4.70e+01 1v97A 1332 4.71e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1rqbA 539 4.72e+01 a.5.7.2,c.1.10.5 105057,105058 1xezA 721 4.76e+01 2bdeA 470 4.77e+01 1gnxA 479 4.86e+01 c.1.8.4 76241 2fpqA 444 4.87e+01 1mgtA 174 4.88e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1nqkA 381 4.98e+01 c.1.16.4 92050 1juhA 350 4.98e+01 b.82.1.5 71884 1nnwA 252 5.00e+01 d.159.1.5 80674 1itxA 419 5.10e+01 c.1.8.5,d.26.3.1 71425,71426 1tf5A 844 5.10e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1cnzA 363 5.13e+01 1cnzA c.77.1.1 35061 2f7tA 227 5.22e+01 2gupA 292 5.29e+01 2cvhA 220 5.34e+01 1xl7A 612 5.37e+01 1me8A 503 5.38e+01 c.1.5.1 79028 2cunA 410 5.39e+01 2eu9A 355 5.41e+01 1zxxA 319 5.46e+01 2cw6A 298 5.48e+01 2b8nA 429 5.50e+01 1l5wA 796 5.51e+01 c.87.1.4 73605 1w9cA 321 5.60e+01 1iyeA 309 5.62e+01 e.17.1.1 83786 1ejeA 192 5.66e+01 1ejeA b.45.1.2 25757 1e0tA 470 5.67e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1jdc 429 5.68e+01 1jdc b.71.1.1,c.1.8.1 27789,28776 2bv2A 83 5.69e+01 1ig8A 486 5.86e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1efpB 252 5.88e+01 1efvB c.26.2.3 31636 1lba 146 5.89e+01 1lba d.118.1.1 41062 1vf8A 377 5.90e+01 1cb0A 283 5.92e+01 1cb0A c.56.2.1 33790 1lu4A 136 5.97e+01 c.47.1.10 91124 1mx3A 347 5.97e+01 c.2.1.4,c.23.12.1 79638,79639 1h8eA 510 6.06e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1di1A 300 6.07e+01 1di1A a.128.1.4 19446 1auk 489 6.09e+01 1auk c.76.1.2 35030 1pixA 587 6.09e+01 c.14.1.4 94708 1w18A 493 6.13e+01 1n2sA 299 6.13e+01 c.2.1.2 79857 1obbA 480 6.13e+01 c.2.1.5,d.162.1.2 86760,86761 1qw2A 102 6.27e+01 d.249.1.1 96456 1a6cA 513 6.28e+01 1a6cA b.121.4.2,b.121.4.2,b.121.4.2 23296,23297,23298 1t13A 158 6.29e+01 1sffA 426 6.31e+01 c.67.1.4 105482 2fymA 431 6.31e+01 1u94A 356 6.32e+01 c.37.1.11,d.48.1.1 107743,107744 1xrsA 516 6.34e+01 2gl5A 410 6.34e+01 1d5rA 324 6.35e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1j9lA 247 6.35e+01 c.106.1.1 62762 1yd9A 193 6.38e+01 1k77A 260 6.40e+01 c.1.15.5 72096 1hh1A 143 6.43e+01 1gefA c.52.1.18 61036 1hzdA 272 6.44e+01 c.14.1.3 65969 2csgA 424 6.46e+01 1m4lA 307 6.50e+01 c.56.5.1 78604 1gq6A 313 6.51e+01 c.42.1.1 70341 1k3sA 113 6.57e+01 d.198.1.1 68120 2afaA 425 6.58e+01 1w9pA 433 6.65e+01 2aq4A 434 6.71e+01 1zd3A 555 6.72e+01 1m2oA 768 6.73e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1vbuA 328 6.74e+01 1qczA 169 6.75e+01 1qczA c.23.8.1 31276 2bbdA 350 6.77e+01 1bif 469 6.81e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1qhtA 775 6.88e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 2atzA 180 6.91e+01 1ju2A 536 6.94e+01 c.3.1.2,d.16.1.1 77169,77170 2gd9A 189 6.95e+01 1u6rA 380 6.98e+01 2ceyA 306 7.03e+01 1ihoA 283 7.08e+01 1ihoA c.26.1.4 62390 1tuaA 191 7.10e+01 d.51.1.1,d.51.1.1 107321,107322 1v58A 241 7.13e+01 c.47.1.9,d.17.3.1 108371,108372 1sc3A 178 7.13e+01 c.17.1.1 105416 1g73C 121 7.22e+01 1g3fA g.52.1.1 45375 1ffyA 917 7.26e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1fukA 165 7.26e+01 1fukA c.37.1.19 32409 1e7uA 961 7.27e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1ooeA 236 7.31e+01 c.2.1.2 87196 1cp2A 269 7.33e+01 1cp2A c.37.1.10 32269 1zcbA 362 7.37e+01 2fug1 438 7.40e+01 1y74A 57 7.41e+01 2fv7A 331 7.42e+01 1x6oA 174 7.44e+01 b.34.5.2,b.40.4.5 109493,109494 1wrvA 308 7.53e+01 1zowA 313 7.58e+01 1wwkA 307 7.67e+01 2govA 195 7.74e+01 1wdyA 285 7.84e+01 1f8eA 388 7.84e+01 2qwc b.68.1.1 59694 1cs0A 1073 7.86e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1jhgA 101 7.88e+01 1jhgA a.4.12.1 19009 1wrjA 156 7.89e+01 1rxwA 336 7.89e+01 a.60.7.1,c.120.1.2 98059,98060 2cb2A 318 7.91e+01 1mb3A 124 7.98e+01 c.23.1.1 78907 1bjt 793 8.07e+01 1bjt e.11.1.1 43249 1svb 395 8.11e+01 1svb b.1.18.4,f.10.1.1 21814,43827 1ob8A 135 8.15e+01 1gp0A 143 8.18e+01 b.64.1.1 70300 1kfcA 268 8.24e+01 c.1.2.4 77371 1on0A 158 8.25e+01 d.108.1.1 87095 2citA 282 8.26e+01 2dkaA 544 8.26e+01 1arb 268 8.28e+01 1arb b.47.1.1 25766 2ahuA 531 8.39e+01 1q0rA 298 8.52e+01 c.69.1.28 95508 1ji1A 637 8.53e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1nrjA 158 8.55e+01 d.110.4.4 86124 1xp8A 366 8.56e+01 1eq2A 310 8.59e+01 1eq2A c.2.1.2 29814 1lopA 164 8.62e+01 2cpl b.62.1.1 27510 1a9xA 1058 8.69e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1whsA 255 8.70e+01 1ivyA c.69.1.5 34649 1qz9A 416 8.71e+01 c.67.1.3 96621 1ayoA 130 8.76e+01 1ayoA b.2.4.1 22431 1z83A 196 8.84e+01 1p5dX 463 8.86e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1y2qA 143 8.89e+01 1n8fA 350 8.90e+01 c.1.10.4 85397 2cayA 145 8.93e+01