# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1cm7A 363 1.54e-64 1cnzA c.77.1.1 35063 1cnzA 363 4.42e-64 1cnzA c.77.1.1 35061 1a05A 358 9.34e-63 1cnzA c.77.1.1 35059 1idm 343 1.17e-60 1cnzA c.77.1.1 35035 1dr8B 344 1.47e-60 1cnzA c.77.1.1 35052 1ipd 345 2.34e-60 1cnzA c.77.1.1 35038 1iso 416 5.79e-58 1iso c.77.1.1 35065 1pb1A 416 2.19e-57 c.77.1.1 88014 7icd 416 2.49e-57 1iso c.77.1.1 35072 1hqsA 423 2.84e-57 1iso c.77.1.1 61154 1lwdA 413 1.82e-47 c.77.1.1 78265 1itwA 741 6.24e-08 c.77.1.2 76793 1kyqA 274 2.15e-02 c.2.1.11 73281 e.37.1.1 73282 1ylvA 342 1.13e-01 1b4kA c.1.10.3 29180 1h7nA 342 1.29e-01 1b4kA c.1.10.3 60726 1ohlA 342 1.94e-01 c.1.10.3 87035 1aw5 326 2.07e-01 1b4kA c.1.10.3 29181 1fnmA 691 2.58e-01 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303 1vjoA 393 2.63e-01 c.67.1.3 -8173 1t0hB 224 3.05e-01 1obbA 480 5.40e-01 c.2.1.5 86760 d.162.1.2 86761 1t3lA 337 5.52e-01 1lkcA 364 5.61e-01 c.67.1.1 73978 1kwgA 645 5.77e-01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1qapA 296 6.15e-01 1qpoA c.1.17.1 29559 d.41.2.1 38595 1j2rA 199 6.41e-01 unknown_sccs -6799 1qdlA 422 6.72e-01 1qdlA d.161.1.1 42088 1kwkA 645 7.55e-01 b.71.1.1 77565 c.1.8.1 77566 c.23.16.5 77567 1lc5A 364 8.14e-01 c.67.1.1 73827 1dar 691 9.82e-01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1ltqA 301 9.83e-01 c.108.1.9 78208 c.37.1.1 78209 1eb0A 147 1.43e+00 b.107.1.1 64890 d.58.38.1 64891 1fdyA 297 1.46e+00 1nal3 c.1.10.1 29071 1nal3 297 1.52e+00 1nal3 1jykA 254 1.62e+00 c.68.1.13 67458 1earA 147 1.65e+00 b.107.1.1 64875 d.58.38.1 64876 1vrtA 560 1.83e+00 1rthA c.55.3.1 33574 e.8.1.2 43023 1kl7A 514 1.88e+00 c.79.1.1 72678 1j0aA 325 1.92e+00 c.79.1.1 83871 1nal1 297 2.03e+00 1nal3 1ptmA 329 2.08e+00 unknown_sccs -8456 1hp1A 516 2.09e+00 d.114.1.1 70976 d.159.1.2 70977 1gm5A 780 2.25e+00 unknown_sccs 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1yveI 524 2.36e+00 1qmgA a.100.1.2 18789 c.2.1.6 30186 2fcr 173 2.38e+00 1rcf c.23.5.1 31151 1nhs 447 2.47e+00 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1s72H 171 2.51e+00 1qmgA 524 2.51e+00 1qmgA a.100.1.2 18785 c.2.1.6 30182 1nhp 447 2.72e+00 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1ecxA 384 2.81e+00 1ecxA c.67.1.3 34431 1ush 550 2.82e+00 1ush d.114.1.1 40923 d.159.1.2 42079 2plc 274 2.95e+00 2plc c.1.18.2 29614 1nktA 922 3.06e+00 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1vicA 262 3.16e+00 c.68.1.13 -8252 1b66A 140 3.22e+00 1b66A d.96.1.2 40657 1hlrA 907 3.59e+00 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1rthA 560 3.73e+00 1rthA c.55.3.1 33576 e.8.1.2 43028 1hl2A 297 3.79e+00 c.1.10.1 83581 1gtqA 140 4.12e+00 1b66A d.96.1.2 40661 1k6xA 352 4.17e+00 c.2.1.2 68238 1ortA 335 5.03e+00 1othA c.78.1.1 35204 c.78.1.1 35205 1ursA 402 5.05e+00 c.94.1.1 -8651 1k4mA 213 5.13e+00 c.26.1.3 77258 1f6dA 376 5.22e+00 1f6dA c.87.1.3 35467 1k6iA 352 5.62e+00 c.2.1.2 68223 1jk3A 158 5.81e+00 d.92.1.11 66790 1dttA 560 6.06e+00 1rthA c.55.3.1 33611 e.8.1.2 43088 1b3qA 379 6.32e+00 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 7a3hA 303 6.33e+00 7a3hA c.1.8.3 28817 1a3h 300 6.35e+00 7a3hA c.1.8.3 28819 1r5jA 337 6.65e+00 unknown_sccs -8471 1mkyA 439 6.80e+00 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1joa 447 7.19e+00 1nhp c.3.1.5 30563 c.3.1.5 30564 d.87.1.1 40203 1fsu 492 7.38e+00 1auk c.76.1.2 35032 12asA 330 7.43e+00 12asA d.104.1.1 40783 1yveJ 524 7.51e+00 1qmgA a.100.1.2 18790 c.2.1.6 30187 1ufkA 254 7.66e+00 unknown_sccs -8103 1ka2A 499 7.92e+00 d.92.1.5 77305 1l8bA 190 7.97e+00 d.86.1.1 73683 1ky3A 182 8.04e+00 c.37.1.8 73193 1tpt 440 8.17e+00 1brwA a.46.2.1 17763 c.27.1.1 31627 d.41.3.1 38625 1juk 248 8.31e+00 1a53 c.1.2.4 28567 1augA 215 8.53e+00 1a2zA c.56.4.1 33798 1i9sA 210 8.85e+00 1i9sA c.45.1.1 62099 1qv9A 283 8.90e+00 unknown_sccs -6888 1b5qA 472 8.90e+00 1b37B c.3.1.2 30404 d.16.1.5 37968 1eg5A 384 8.96e+00 1ecxA c.67.1.3 34429 1icpA 376 9.04e+00 1oyc c.1.4.1 62270 1vgvA 384 9.10e+00 c.87.1.3 -8575 1iexA 605 9.16e+00 c.1.8.7 66127 c.23.11.1 66128 1brwA 433 9.41e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1cg2A 393 9.44e+00 1cg2A c.56.5.4 33844 d.58.19.1 39360 1wdnA 226 9.51e+00 1lst c.94.1.1 35816 1b37A 472 9.54e+00 1b37B c.3.1.2 30389 d.16.1.5 37953 1b37B 472 9.67e+00 1b37B c.3.1.2 30390 d.16.1.5 37954 1fcdA 401 9.92e+00 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1a53 247 1.04e+01 1a53 c.1.2.4 28564 1ps9A 671 1.05e+01 c.1.4.1 -5206 1q5nA 454 1.06e+01 a.127.1.1 -1756 1f9aA 168 1.06e+01 1f9aA c.26.1.3 31602 1dg3A 592 1.07e+01 1dg3A a.114.1.1 19078 c.37.1.8 32153 1s7hA 200 1.12e+01 1ho1A 242 1.12e+01 1ho1A c.1.24.1 61097 1igs 248 1.16e+01 1a53 c.1.2.4 28565 1ejhA 190 1.17e+01 1ejhA d.86.1.1 40147 1c8bA 371 1.20e+01 1c8bA c.56.1.2 59082 1umdB 324 1.25e+01 c.36.1.7 -6929 c.48.1.2 -7539 1odzA 386 1.26e+01 c.1.8.3 86889 1vizA 240 1.31e+01 c.1.4.1 -5212 2dri 271 1.32e+01 2dri c.93.1.1 35637 1h1dA 221 1.33e+01 c.66.1.1 83452 1ml9A 302 1.36e+01 b.85.7.1 79282 1l2lA 457 1.38e+01 c.72.1.3 77656 1m56B 264 1.46e+01 b.6.1.2 74472 f.17.2.1 74473 1k5dC 386 1.48e+01 c.10.1.2 68170 1rpxA 230 1.48e+01 1rpxA c.1.2.2 28536 1pii 452 1.51e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1m5wA 243 1.55e+01 c.1.24.1 84836 1e32A 458 1.61e+01 1e32A b.52.2.3 59183 c.37.1.20 59184 d.31.1.1 59185 1iu8A 206 1.65e+01 c.56.4.1 71436 1rm8A 169 1.66e+01 d.92.1.11 -10584 1qxyA 252 1.66e+01 d.127.1.1 -10993 1ex1A 605 1.66e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 1ezvE 185 1.67e+01 1rie b.33.1.1 59548 f.23.12.1 59549 1ayaA 101 1.69e+01 1qadA d.93.1.1 40460 1ji0A 240 1.70e+01 c.37.1.12 71665 1qgvA 142 1.73e+01 1qgvA c.47.1.8 33056 1i7pA 274 1.75e+01 b.43.4.2 66048 c.25.1.1 66049 1gggB 226 1.75e+01 1lst c.94.1.1 35818 1jj2H 167 1.76e+01 1ffkF d.41.4.1 63093 1nmoA 247 1.79e+01 unknown_sccs -8746 1di0A 158 1.87e+01 1di0A c.16.1.1 30957 1oxkB 134 1.88e+01 c.23.1.1 -6411 1bxnA 485 2.07e+01 1burA c.1.14.1 29376 d.58.9.1 39282 1jqsC 68 2.07e+01 i.1.1.1 63239 1uedA 406 2.08e+01 a.104.1.1 -1459 1chmA 401 2.10e+01 1chmA c.55.2.1 33545 d.127.1.1 41142 1ak1 310 2.10e+01 1ak1 c.92.1.1 35594 1hh1A 143 2.20e+01 1gefA c.52.1.18 61036 1dozA 309 2.20e+01 1ak1 c.92.1.1 35592 1j9yA 385 2.22e+01 1j9yA c.1.8.3 62791 1e3mA 800 2.22e+01 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 1zac 90 2.23e+01 1ncx a.39.1.5 17236 2pia 321 2.27e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1lpuA 332 2.28e+01 d.144.1.7 74177 1qo2A 241 2.30e+01 1qo2A c.1.2.1 28533 1mjfA 281 2.33e+01 c.66.1.17 79198 1e2uA 553 2.33e+01 1e1dA e.26.1.1 43362 1gntA 553 2.33e+01 e.26.1.1 70290 1ojqA 212 2.34e+01 d.166.1.1 -11568 1jihA 531 2.39e+01 unknown_sccs -10212 unknown_sccs -11922 1v1aA 309 2.39e+01 c.72.1.1 -8400 1mg7A 417 2.41e+01 d.14.1.6 84954 d.58.26.6 84955 1yacA 208 2.41e+01 1yacA unknown_sccs 31757 1fxjA 331 2.44e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1ass 159 2.46e+01 1a6dA c.8.5.2 30818 1lp4A 332 2.46e+01 d.144.1.7 74170 1h5vA 304 2.47e+01 c.1.8.3 70898 1gvfA 286 2.49e+01 c.1.10.2 70599 1h0cA 392 2.50e+01 c.67.1.3 83424 1o6dA 163 2.58e+01 c.116.1.3 -6689 1dbqA 289 2.58e+01 1qpzA c.93.1.1 35666 1aorA 605 2.58e+01 1b25A a.110.1.1 19042 d.152.1.1 41794 1opjA 293 2.62e+01 d.144.1.7 87230 8rucA 475 2.63e+01 1burA c.1.14.1 29339 d.58.9.1 39245 1egaA 301 2.67e+01 1egaA c.37.1.8 32150 d.52.3.1 38836 1om1A 332 2.67e+01 d.144.1.7 -11318 1gk8A 475 2.69e+01 c.1.14.1 65234 d.58.9.1 65235 1np7A 489 2.69e+01 a.99.1.1 80677 c.28.1.1 80678 1vc4A 254 2.73e+01 c.1.2.4 -5172 1gw1A 376 2.76e+01 c.1.8.3 76361 1avsA 90 2.77e+01 1cll a.39.1.5 17226 1gz6A 319 2.79e+01 c.2.1.2 76410 1n0uA 842 2.82e+01 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1m2rA 327 2.82e+01 d.144.1.7 84760 1qydA 313 2.83e+01 c.2.1.2 -5786 1j7rA 86 2.85e+01 1j7rA a.39.1.5 62701 1fp3A 402 2.86e+01 1fp3A a.102.1.3 18842 1rie 129 2.88e+01 1rie b.33.1.1 24427 1jb0A 755 2.91e+01 1jb0A f.29.1.1 62820 1tikA 213 2.92e+01 1i27A 73 2.93e+01 1i27A a.4.5.30 61555 1yrgB 385 2.97e+01 1yrgA c.10.1.2 30855 2hmiA 558 2.99e+01 1rthA c.55.3.1 33604 e.8.1.2 43106 1sur 215 3.01e+01 1sur c.26.2.2 31620 1t0iA 191 3.03e+01 1ad1A 266 3.05e+01 1aj2 c.1.21.1 29668 1l1sA 113 3.11e+01 c.114.1.1 73484 1ep3B 262 3.11e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1kqzA 273 3.17e+01 c.1.8.5 68844 1c4xA 285 3.19e+01 1c4xA c.69.1.10 34684 1j3gA 187 3.31e+01 d.118.1.1 77075 1ewkA 490 3.42e+01 1ewkA c.93.1.1 35712 1id1A 153 3.42e+01 1id1A c.2.1.9 62286 1e1oA 504 3.42e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1rkd 309 3.43e+01 1rkd c.72.1.1 34928 1php 394 3.46e+01 16pk c.86.1.1 35452 1eqcA 394 3.47e+01 1cz1A c.1.8.3 28811 1n2sA 299 3.59e+01 c.2.1.2 79857 1wetA 340 3.63e+01 1qpzA a.35.1.5 17093 c.93.1.1 35670 1v4vA 376 3.74e+01 c.87.1.3 -8583 1lbd 282 3.76e+01 1lbd a.123.1.1 19279 2shpA 525 3.80e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1clxA 347 3.83e+01 1taxA c.1.8.3 28899 1j5pA 253 3.84e+01 c.2.1.3 83092 d.81.1.3 71577 1bfeA 119 3.85e+01 1pdr b.36.1.1 24775 1yrgA 385 3.91e+01 1yrgA c.10.1.2 30854 1sr9A 644 3.93e+01 1gz0A 253 3.93e+01 c.116.1.1 76391 d.79.3.3 76392 1be3B 439 3.95e+01 1be3B d.185.1.1 58952 d.185.1.1 58953