# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1opjA 293 1.81e-48 d.144.1.7 87230 1ir3A 306 1.48e-47 1fmk d.144.1.7 41702 1irk 306 3.01e-47 1fmk d.144.1.7 41703 1jpaA 312 3.39e-47 d.144.1.7 67011 1lufA 343 5.25e-47 d.144.1.7 78223 1t46A 313 7.20e-47 d.144.1.7 106397 1p4oA 322 1.42e-46 d.144.1.7 87775 1qpcA 279 1.61e-46 1fgkA d.144.1.7 41685 3lck 271 2.71e-46 1fmk d.144.1.7 41686 1fmk 452 4.20e-46 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24511,40436,41690 1fgkA 310 4.63e-46 1fgkA d.144.1.7 41693 1jqhA 308 5.71e-46 d.144.1.7 71793 1r0pA 312 9.21e-46 d.144.1.7 96734 1fvrA 327 8.92e-45 d.144.1.7 60047 2b7aA 293 1.55e-43 1mp8A 281 1.61e-43 d.144.1.7 91384 1u59A 287 7.03e-43 d.144.1.7 107681 2evaA 307 1.60e-42 1ywnA 316 2.04e-42 1mq4A 272 2.43e-42 d.144.1.7 91391 1xbbA 291 3.49e-42 1u46A 291 7.93e-42 d.144.1.7 107656 1yhvA 297 9.86e-42 2f57A 317 3.69e-41 2bdwA 362 3.72e-41 1f3mC 297 4.63e-41 1hcl d.144.1.7 41677 2bfxA 284 7.44e-41 1xjdA 345 7.44e-41 1gz8A 299 1.94e-40 d.144.1.7 83405 1hcl 298 1.94e-40 1hcl d.144.1.7 41593 1e1xA 299 2.00e-40 1hcl d.144.1.7 59157 1jvpP 298 2.50e-40 d.144.1.7 67371 1o6lA 337 3.64e-40 d.144.1.7 81092 2c30A 321 1.71e-39 1phk 298 2.18e-39 1cdkA d.144.1.7 41635 1jksA 294 2.25e-39 d.144.1.7 71710 1xh9A 350 7.20e-39 1ia8A 289 8.43e-39 1ia8A d.144.1.7 62112 1cdkA 350 1.09e-38 1cdkA d.144.1.7 41620 1q8uA 350 1.10e-38 d.144.1.7 96230 1cmkE 350 1.62e-38 1cdkA d.144.1.7 41623 1s9jA 341 1.68e-38 1zrzA 364 3.70e-38 1h1wA 289 4.06e-38 d.144.1.7 83460 1uu3A 310 4.83e-38 d.144.1.7 99999 1p4fA 293 6.25e-38 d.144.1.7 104063 1kobA 387 6.50e-38 1tkiA d.144.1.7 41640 3erk 364 8.68e-38 1hcl d.144.1.7 41654 1apmE 350 8.80e-38 1cdkA d.144.1.7 41628 1tvoA 368 1.19e-37 2eueA 279 1.37e-37 1blxA 326 2.12e-37 1hcl d.144.1.7 41596 2b9hA 353 2.44e-37 1rdqE 350 6.66e-37 d.144.1.7 97314 1vzoA 355 9.54e-37 d.144.1.7 108971 1pme 380 3.06e-36 1hcl d.144.1.7 41653 1o6yA 299 3.29e-36 d.144.1.7 81106 1t4hA 290 3.31e-36 d.144.1.7 106420 2bvaA 292 8.33e-36 1pmnA 364 1.12e-35 d.144.1.7 94907 1zy4A 303 1.66e-35 2a19B 284 1.89e-35 1wbsA 360 1.91e-35 1omwA 689 2.94e-35 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1r3cA 366 6.44e-35 d.144.1.7 96906 1zzlA 351 1.60e-34 2ac5A 316 1.74e-34 1zz2A 360 2.74e-34 1tkiA 321 3.54e-34 1tkiA d.144.1.7 41638 1ywrA 360 3.94e-34 1j1bA 420 8.97e-34 d.144.1.7 90758 2ac3A 316 9.47e-34 1q41A 424 1.76e-33 d.144.1.7 95774 2bikB 313 3.02e-33 1xwsA 313 3.48e-33 2gfsA 372 3.55e-33 1ymiA 334 1.73e-31 1b6cB 342 1.95e-31 1b6cB d.144.1.7 41673 1py5A 326 9.39e-31 d.144.1.7 104389 1z57A 339 9.91e-31 1vjyA 303 1.79e-30 d.144.1.7 108633 1om1A 332 3.89e-30 d.144.1.7 93347 1lpuA 332 4.81e-30 d.144.1.7 74177 1m2rA 327 4.87e-30 d.144.1.7 84760 1lp4A 332 5.78e-30 d.144.1.7 74170 1a6o 332 1.88e-29 1a6o 1x8bA 289 2.54e-29 1jwhA 337 2.56e-29 d.144.1.7 71913 2eu9A 355 9.29e-29 1q8yA 373 3.01e-28 d.144.1.7 96234 1howA 373 5.87e-28 1hcl d.144.1.7 41679 1wbpA 397 6.48e-27 1ckiA 317 5.27e-24 1csn d.144.1.7 41660 1csn 298 1.82e-21 1csn d.144.1.7 41664 1tqmA 282 7.37e-08 a.4.5.56,d.144.1.9 107236,107237 1zarA 282 7.38e-08 1zthA 258 2.65e-02 1j7lA 264 1.10e-01 d.144.1.6 62697 1j7iA 264 1.19e-01 1j7iA d.144.1.6 62694 1nd4A 264 1.63e-01 d.144.1.6 91815 1e7uA 961 4.80e-01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1kcfA 258 4.96e-01 a.140.2.1,c.55.3.7 68434,68435 1rybA 212 5.97e-01 c.56.3.1 98098 1e8yA 966 6.21e-01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1e8xA 961 7.86e-01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19148,23183,37631,41711 1nw1A 429 1.28e+00 d.144.1.8 86286 2bkkA 264 2.52e+00 2gdnA 267 2.89e+00 1hzoA 271 3.13e+00 e.3.1.1 71092 1g8iA 190 3.66e+00 1rec a.39.1.5 60363 1b8aA 438 3.84e+00 1b8aA b.40.4.1,d.104.1.1 25244,40765 1bza 262 4.49e+00 1btl e.3.1.1 42701 1iyoA 262 4.87e+00 e.3.1.1 76970 1yljA 263 5.20e+00 1f2hA 169 5.28e+00 1f3vA d.58.22.1 59612 1g6aA 271 5.53e+00 1btl e.3.1.1 42704 1oo0A 147 5.63e+00 d.232.1.1 87182 1iysA 262 5.76e+00 e.3.1.1 90723 1q48A 134 5.90e+00 d.224.1.2 95783 1e17A 150 6.52e+00 2hfh a.4.5.14 16143 2ct9A 208 6.85e+00 1f3vA 179 6.95e+00 1f3vA d.58.22.1 39382 1ohtA 215 7.08e+00 d.118.1.1 87036 2b06A 155 7.15e+00 1zbfA 142 7.46e+00 1jc7A 131 9.10e+00 1jc7A b.40.3.2 62873 1jb3A 131 9.24e+00 1jc7A b.40.3.2 62833 1i2sA 282 9.40e+00 e.3.1.1 71104 1yixA 265 9.66e+00 1jl2A 156 1.00e+01 c.55.3.1 66822 2be4A 272 1.06e+01 1txqA 93 1.12e+01 1ncx 162 1.18e+01 1ncx a.39.1.5 17222 1top 162 1.18e+01 1ncx a.39.1.5 17223 2a1hA 365 1.18e+01 1x0lA 333 1.19e+01 1gz2A 142 1.19e+01 d.169.1.1 83392 1coy 507 1.29e+01 1b8sA c.3.1.2,d.16.1.1 30333,37864 1uebA 184 1.29e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1f4qA 165 1.31e+01 1alvA a.39.1.8 17360 1oygA 447 1.40e+01 b.67.2.2 93726 1ekfA 365 1.47e+01 1ekfA e.17.1.1 59445 1btl 263 1.48e+01 1btl e.3.1.1 42691 1rboC 123 1.48e+01 1rboC d.73.1.1 39634 8rucI 123 1.48e+01 1rboC d.73.1.1 39629 1ermA 263 1.48e+01 1btl e.3.1.1 42690 1m40A 263 1.50e+01 e.3.1.1 74437 1fqgA 263 1.50e+01 1btl e.3.1.1 42699 1z5oA 242 1.65e+01 2ftrA 108 1.71e+01 1kt8A 365 1.72e+01 e.17.1.1 77531 1wddS 128 1.73e+01 1vyqA 173 1.79e+01 1jysA 242 1.82e+01 c.56.2.1 77216 1g9mG 321 1.93e+01 1gc1G d.172.1.1 42492 3cox 507 1.96e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1widA 130 2.05e+01 1bsg 266 2.12e+01 1btl e.3.1.1 42729 2atvA 196 2.16e+01 1ktaA 365 2.28e+01 e.17.1.1 77533 1tvxB 75 2.41e+01 1tvxA d.9.1.1 37442 1twfC 318 2.45e+01 1xgsA 295 2.45e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1vheA 373 2.47e+01 b.49.3.1,c.56.5.4 100669,100670 1oxcA 114 2.58e+01 b.115.1.1 93683 1uzvA 114 2.58e+01 1gztA 115 2.59e+01 b.115.1.1 76428 1tvxA 75 2.59e+01 1tvxA d.9.1.1 37441 1kr4A 125 2.68e+01 d.58.5.2 72889 1f0lA 535 2.68e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1a3yA 149 2.80e+01 1obpA b.60.1.1 27110 1q33A 292 2.81e+01 d.113.1.1 95657 1bueA 265 2.86e+01 1btl e.3.1.1 42727 3tgl 269 2.87e+01 3tgl c.69.1.17 34733 1napA 70 2.89e+01 1tvxA d.9.1.1 37445 1qvjA 292 2.91e+01 d.113.1.1 96431 1k94A 165 2.95e+01 a.39.1.8 68333 6cpa 307 3.10e+01 1aye c.56.5.1 33816 1w23A 360 3.10e+01 1yptA 305 3.12e+01 1ytw c.45.1.2 32686 1e8aA 91 3.20e+01 1b4cA a.39.1.2 17188 1ddt 535 3.23e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22379,42241,43384 1o8rA 94 3.31e+01 d.234.1.1 86677 2eifA 136 3.32e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1o70A 324 3.37e+01 b.118.1.1,b.118.1.1 81115,81116 1bavA 309 3.46e+01 1aye c.56.5.1 33806 1cojA 212 3.49e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 2comA 124 3.55e+01 1a2xA 159 3.56e+01 1ncx a.39.1.5 17251 1q52A 314 3.60e+01 c.14.1.3 95846 1to3A 304 3.62e+01 c.1.10.1 107161 1byfA 125 3.64e+01 1byfA d.169.1.1 42419 1tlgA 125 3.64e+01 1byfA d.169.1.1 42421 1sfxA 109 3.64e+01 a.4.5.50 105505 1rzjG 321 3.67e+01 d.172.1.1 98200 1i6aA 219 3.70e+01 c.94.1.1 61827 1je0A 236 3.70e+01 c.56.2.1 66581 1k3eA 156 3.77e+01 d.198.1.1 68103 1i50C 318 3.77e+01 d.74.3.1,d.181.1.1 61756,61757 1dtdA 303 3.83e+01 1aye c.56.5.1 33823 1n6hA 170 3.84e+01 c.37.1.8 80197 1r2qA 170 3.85e+01 c.37.1.8 96874 1yliA 153 3.87e+01 2c6yA 111 3.93e+01 1y13A 181 4.06e+01 2a6mA 155 4.08e+01 1qm4A 396 4.09e+01 1mxb d.130.1.1,d.130.1.1,d.130.1.1 41350,41351,41352 1ecpA 238 4.13e+01 1ecpA c.56.2.1 33775 1fxkC 133 4.15e+01 1fxkC a.2.5.1 15702 1ytw 306 4.17e+01 1ytw c.45.1.2 32689 2bb6A 414 4.20e+01 1lap 488 4.22e+01 1lam c.50.1.1,c.56.5.3 33171,33834 1azsC 388 4.23e+01 1cipA a.66.1.1,c.37.1.8 18203,32086 1us5A 314 4.27e+01 c.94.1.1 99856 1e5rA 290 4.28e+01 1e5rA b.82.2.4 59276 1z5nA 242 4.31e+01 1o6dA 163 4.32e+01 c.116.1.3 92567 1gen 218 4.36e+01 1gen b.66.1.1 27536 2coeA 120 4.39e+01 1yiiA 320 4.42e+01 1bllE 488 4.44e+01 1lam c.50.1.1,c.56.5.3 33170,33833 1viuA 203 4.46e+01 d.113.1.1 100771 1dzkA 157 4.47e+01 1obpA b.60.1.1 27096 1qltA 560 4.47e+01 1qltA d.58.32.1,d.145.1.1 39457,41720 1fnoA 417 4.54e+01 d.58.19.1,c.56.5.4 70145,75841 1ukuA 102 4.56e+01 d.58.5.2 99533 2bfwA 200 4.61e+01 1aye 401 4.62e+01 1aye c.56.5.1,d.58.3.1 33824,39065 2gfaA 119 4.70e+01 1gw5S 142 4.71e+01 d.110.4.2 70633 1b35B 255 4.79e+01 1b35B b.121.4.1 23334 2cb2A 318 5.07e+01 1i69A 219 5.17e+01 c.94.1.1 61825 1usgA 346 5.20e+01 c.93.1.1 99864 1yts 278 5.21e+01 1ytw c.45.1.2 32690 1qu1A 155 5.22e+01 1qu1A h.3.1.1 45670 1ytn 306 5.28e+01 1ytw c.45.1.2 32688 1o7xB 377 5.31e+01 a.103.1.1 81172 2ctb 307 5.33e+01 1aye c.56.5.1 33803 2ctc 307 5.36e+01 1aye c.56.5.1 33802 1fbnA 230 5.42e+01 1fbnA c.66.1.3 34181 1g8sA 230 5.43e+01 c.66.1.3 90507 1bxwA 172 5.47e+01 1bxwA f.4.1.1 43743 1tn4 159 5.50e+01 1ncx a.39.1.5 17248 1pv9A 348 5.51e+01 c.55.2.1,d.127.1.1 95157,95158 1o7xD 377 5.54e+01 a.103.1.1 81174 1rwtA 232 5.56e+01 f.43.1.1 97992 1i9yA 347 5.56e+01 1i9yA d.151.1.2 62101 1m4lA 307 5.59e+01 c.56.5.1 78604 1yme 309 5.59e+01 1aye c.56.5.1 33804 1lyvA 306 5.68e+01 c.45.1.2 74348 1gheA 177 5.69e+01 d.108.1.1 76222 1rch 155 5.72e+01 2rn2 c.55.3.1 33570 1lam 484 5.78e+01 1lam c.50.1.1,c.56.5.3 33166,33829 2fa1A 160 5.84e+01 1j93A 353 5.87e+01 c.1.22.1 66454 1lywA 97 5.91e+01 1lywA b.50.1.2 26861 1a3qA 285 5.94e+01 1a3qA b.1.18.1,b.2.5.3 21932,22447 1y7pA 223 6.00e+01 1bncB 449 6.01e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28237,31644,41489 1srvA 145 6.01e+01 1derA c.8.5.1 30817 1w1kA 560 6.05e+01 d.58.32.1,d.145.1.1 109059,109060 1ogaD 215 6.05e+01 b.1.1.1,b.1.1.2 86990,86991 1n3gA 113 6.11e+01 d.204.1.1 79962 1whzA 70 6.13e+01 1wy2A 351 6.22e+01 1xfxO 149 6.43e+01 1chuA 540 6.50e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1gvjA 146 6.57e+01 a.4.5.21 90525 1n9bA 265 6.57e+01 e.3.1.1 85463 1ala 321 6.64e+01 1avc a.65.1.1 18153 1f3aA 222 6.64e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 2bbvC 363 6.65e+01 2bbvA b.121.4.4 23325 1qfxA 460 6.67e+01 1qfxA c.60.1.2 33994 1e8gA 560 6.75e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1z8kA 193 6.93e+01 1jssA 224 6.95e+01 d.129.3.2 71844 1izoA 417 6.96e+01 a.104.1.1 83851 2be3A 226 6.97e+01 1m2xA 223 6.98e+01 d.157.1.1 84764 1l4sA 112 7.00e+01 d.204.1.1 77693 1a68 95 7.10e+01 1t1dA d.42.1.2 38639 2sqcA 631 7.19e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1m2oA 768 7.24e+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 1ponB 36 7.26e+01 1ponB 1pmmA 466 7.31e+01 c.67.1.6 94901 1i9zA 347 7.36e+01 1i9yA d.151.1.2 62102 1w1oA 534 7.37e+01 d.58.32.4,d.145.1.1 109071,109072 1svdM 110 7.42e+01 1voqa 90 7.52e+01 1o0xA 262 7.57e+01 d.127.1.1 80755 1w6uA 302 7.59e+01 1sauA 115 7.73e+01 2fbyA 205 7.74e+01 1u7iA 136 7.78e+01 d.32.1.7 107724 1htmB 138 7.78e+01 1htmB h.3.1.1 45677 1hh2P 344 7.85e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 1y2qA 143 8.01e+01 2exrA 524 8.03e+01 1r59O 505 8.07e+01 1lox 662 8.11e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1dv1A 449 8.12e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 3rubS 123 8.15e+01 1rboC d.73.1.1 39616 1fsfA 266 8.15e+01 c.124.1.1 65047 1l7lA 121 8.18e+01 b.18.1.16 77790 1pk9A 237 8.21e+01 c.56.2.1 94823 1ik6A 369 8.32e+01 c.36.1.7,c.48.1.2 66174,66175 1juhA 350 8.39e+01 b.82.1.5 71884 1v2yA 105 8.40e+01 d.15.1.1 100275 1eyeA 280 8.50e+01 1aj2 c.1.21.1 29672 1xdfA 157 8.56e+01 1vixA 420 8.58e+01 c.56.5.4,d.58.19.1 100777,100778 1jfrA 262 8.92e+01 1jfrA c.69.1.16 34724