# List of top-scoring protein chains for T0269.t04-w0.5 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 1qq2A 199 7.59e-36 1qq2A c.47.1.10 33064 1qmvA 197 1.22e-35 1qq2A c.47.1.10 33066 1e2yA 188 1.45e-32 1qq2A c.47.1.10 59173 1prxA 224 9.22e-30 1prxA c.47.1.10 33076 1kygA 186 3.34e-25 c.47.1.10 68881 1n8jA 186 6.00e-24 c.47.1.10 85401 1st9A 143 3.58e-23 c.47.1.10 -7503 1nm3A 241 2.63e-19 c.47.1.1 85866 c.47.1.10 85867 1jfuA 186 5.01e-18 c.47.1.10 62940 1kngA 156 1.13e-17 c.47.1.10 72777 1psqA 163 3.74e-17 c.47.1.10 88283 1qxhA 167 1.80e-16 c.47.1.10 -7496 1oc3A 172 6.47e-16 c.47.1.10 -7491 1hd2A 161 7.95e-16 c.47.1.10 60962 1on4A 174 7.49e-14 c.47.1.10 -7512 1q98A 165 1.20e-13 c.47.1.10 -7499 1okdA 154 1.62e-13 c.47.1.10 -7490 1ezkA 153 2.02e-13 1ewxA c.47.1.10 33063 1qk8A 146 2.03e-13 1ewxA c.47.1.10 33061 1o73A 144 2.29e-13 c.47.1.10 86638 1ewxA 146 2.38e-13 1ewxA c.47.1.10 33062 1lu4A 136 1.50e-12 c.47.1.10 -7509 1o8xA 146 2.12e-12 c.47.1.10 86681 1o81A 152 9.76e-12 c.47.1.10 81175 1o6jA 150 9.94e-12 c.47.1.10 81089 1fg4A 149 1.01e-11 1ewxA c.47.1.10 59814 1gp1A 198 1.52e-11 1gp1A c.47.1.10 33059 1oc9A 152 1.80e-11 c.47.1.10 86797 1quwA 105 1.03e-10 1thx c.47.1.1 32735 1nw2A 105 1.48e-10 c.47.1.1 -7380 1i5gA 144 2.19e-10 1ewxA c.47.1.10 61784 1nswA 105 3.30e-10 c.47.1.1 -7376 1rqmA 105 4.72e-10 2trxA 108 6.20e-10 1thx c.47.1.1 32719 2tir 108 1.60e-09 1thx c.47.1.1 32721 1tho 109 2.73e-09 1thx c.47.1.1 32722 1srx 108 2.76e-09 1thx c.47.1.1 32729 1dbyA 107 2.83e-09 1thx c.47.1.1 32734 1m7tA 107 3.94e-09 c.47.1.1 78745 1kebA 108 4.79e-09 c.47.1.1 77341 1txxA 108 5.35e-09 1thx c.47.1.1 32724 1fb6A 105 7.51e-09 1thx c.47.1.1 32739 1gl8A 104 7.91e-09 c.47.1.1 65290 1f6mC 108 1.35e-08 1thx c.47.1.1 32725 1oazA 123 1.59e-07 c.47.1.1 -7374 1thx 115 2.42e-07 1thx c.47.1.1 32732 1mek 120 2.71e-07 1erv c.47.1.2 32775 1ep7A 112 3.29e-07 c.47.1.1 64905 1ep8A 112 7.70e-07 c.47.1.1 64907 1f9mA 112 1.65e-06 1erv c.47.1.1 32736 1faaA 124 1.90e-06 1erv c.47.1.1 32738 1erv 105 3.83e-06 1erv c.47.1.1 32743 1trs 105 7.21e-06 1erv c.47.1.1 32753 1aiu 105 1.48e-05 1erv c.47.1.1 32746 1ert 105 1.52e-05 1erv c.47.1.1 32744 3trx 105 1.77e-05 1erv c.47.1.1 32757 1syrA 112 4.62e-05 c.47.1.1 -7391 1cqgA 105 1.56e-04 1erv c.47.1.1 32756 1uc7A 125 1.55e-03 c.47.1.1 -7414 1r26A 125 2.73e-03 c.47.1.1 -7389 1erw 105 7.40e-03 1erv c.47.1.1 32745 1se1A 277 2.19e-02 b.1.17.1 -2859 c.47.1.1 -7411 1senA 164 2.71e-02 1qgvA 142 4.41e-02 1qgvA c.47.1.8 33056 1fvjA 189 5.74e-02 1fvkA unknown_sccs -7426 1j1uA 306 5.90e-02 c.26.1.1 83980 1gh2A 107 5.93e-02 1erv c.47.1.1 60515 1pqnA 127 6.29e-02 c.47.1.8 -7479 1nhoA 85 7.14e-02 c.47.1.1 -7408 1fvkA 189 8.19e-02 1fvkA unknown_sccs -7419 1bq7A 189 1.07e-01 1fvkA unknown_sccs -7432 1ac1A 189 1.11e-01 1fvkA unknown_sccs -7421 1acvA 189 1.65e-01 1fvkA unknown_sccs -7428 1uedA 406 2.44e-01 a.104.1.1 -1459 1losA 224 3.22e-01 c.1.2.3 74157 1loqA 228 4.17e-01 c.1.2.3 74155 1fo5A 85 4.19e-01 1fo5A c.47.1.1 59922 1dv7A 227 4.19e-01 1dvjA c.1.2.3 28550 1un2A 197 4.38e-01 unknown_sccs -7442 1lp6A 229 4.40e-01 c.1.2.3 74171 1klyA 247 4.98e-01 c.1.2.3 72730 1nvtA 287 5.06e-01 c.2.1.7 86270 c.58.1.5 86271 1km2A 247 5.12e-01 c.1.2.3 72738 1dvjA 246 5.26e-01 1dvjA c.1.2.3 28546 1km0A 247 5.52e-01 c.1.2.3 72732 1km5A 247 5.61e-01 c.1.2.3 72741 1km4A 247 5.76e-01 c.1.2.3 72740 1klzA 247 6.24e-01 c.1.2.3 72731 1km1A 247 6.60e-01 c.1.2.3 72736 1km6A 247 7.30e-01 c.1.2.3 72742 1fo6A 304 8.84e-01 1erzA d.160.1.2 59923 1km3A 247 8.87e-01 c.1.2.3 72739 1ethA 448 1.04e+00 1gpl b.12.1.2 23641 c.69.1.19 34789 1ihuA 589 1.15e+00 c.37.1.10 62394 c.37.1.10 62395 1bed 181 1.19e+00 1fvkA unknown_sccs -7444 1uf5A 303 1.48e+00 1f76A 336 1.50e+00 c.1.4.1 76160 1erzA 303 1.61e+00 1erzA d.160.1.2 59498 1emsA 440 1.70e+00 1emsA d.13.1.1 37520 d.160.1.1 42086 1l8lA 225 1.73e+00 c.108.1.4 84562 1nnlA 225 1.73e+00 c.108.1.4 85906 1c0pA 363 1.97e+00 1an9A c.4.1.2 30647 d.16.1.3 37934 1ivhA 394 2.47e+00 3mdeA a.29.3.1 16608 e.6.1.1 42869 1v58A 241 2.96e+00 1qydA 313 2.96e+00 c.2.1.2 -5786 1m6yA 301 2.99e+00 a.60.13.1 78716 c.66.1.23 78717 1kf6A 602 3.23e+00 a.7.3.1 72394 c.3.1.4 72395 d.168.1.1 72396 1uip 349 3.76e+00 1a4mA c.1.9.1 29022 1kte 105 3.91e+00 1kte c.47.1.1 32771 1c7gA 456 4.12e+00 c.67.1.2 -8153 1uio 349 4.45e+00 1a4mA c.1.9.1 29021 1k28D 391 4.86e+00 b.106.1.1 68052 b.106.1.1 68053 1pavA 78 4.90e+00 d.68.3.3 88013 1jmuG 366 4.93e+00 d.196.1.1 66894 2ada 352 4.94e+00 1a4mA c.1.9.1 29027 1pv4A 419 5.02e+00 a.140.3.1 88295 b.40.4.5 88296 c.37.1.11 88297 1fkw 349 5.07e+00 1a4mA c.1.9.1 29019 1a4mA 349 5.11e+00 1a4mA c.1.9.1 29014 1qlmA 316 5.18e+00 1qlmA d.147.1.1 41765 1fkx 349 5.38e+00 1a4mA c.1.9.1 29018 1jhb 106 5.40e+00 1kte c.47.1.1 32772 1aqjA 421 5.98e+00 2admA c.66.1.27 34242 2admA 421 5.98e+00 2admA c.66.1.27 34238 1gycA 499 6.75e+00 b.6.1.3 70748 b.6.1.3 70749 b.6.1.3 70750 1g38A 393 6.77e+00 2admA c.66.1.27 60235 1g8iA 190 6.91e+00 1rec a.39.1.5 60363 1ovgA 238 7.45e+00 c.56.2.1 -7755 1fc4A 401 7.53e+00 1bs0A c.67.1.4 59760 1qoyA 318 8.28e+00 1qoyA h.4.4.1 45788 1iruG 254 8.66e+00 d.153.1.4 71358 1oi7A 288 9.83e+00 c.2.1.8 87049 c.23.4.1 87050 1hplA 449 1.02e+01 1gpl b.12.1.2 23639 c.69.1.19 34787 1ag9A 175 1.07e+01 1rcf c.23.5.1 31178 1rz3A 201 1.13e+01 c.37.1.6 -7048 1eejA 216 1.13e+01 1eejA c.47.1.9 33057 d.17.3.1 38071 1g5yA 238 1.15e+01 1lbd a.123.1.1 60294 1fbyA 239 1.16e+01 1lbd a.123.1.1 19275 1fn9A 365 1.16e+01 1fn9A d.196.1.1 59894 1mvcA 240 1.16e+01 a.123.1.1 79499 1a8y 367 1.18e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1rj9A 304 1.18e+01 a.24.13.1 -631 c.37.1.10 -7129 1b74A 254 1.21e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1nhjA 333 1.26e+01 d.14.1.3 85720 d.122.1.2 85721 1e3dA 266 1.26e+01 2frvA e.19.1.1 59188 1s96A 219 1.27e+01 c.37.1.1 -6972 1sfcC 83 1.29e+01 1sfcC h.1.15.1 45645 1k6mA 432 1.29e+01 c.37.1.7 77275 c.60.1.4 77276 1uuqA 440 1.32e+01 c.1.8.3 -5321 1t0lA 414 1.37e+01 1n7sC 79 1.40e+01 h.1.15.1 80273 1b62A 349 1.41e+01 1b63A d.14.1.3 37567 d.122.1.2 41108 2gwxA 267 1.43e+01 2prgA a.123.1.1 19323 1b63A 333 1.44e+01 1b63A d.14.1.3 37566 d.122.1.2 41107 1lbd 282 1.44e+01 1lbd a.123.1.1 19279 8abp 306 1.46e+01 8abp c.93.1.1 35647 1bknA 352 1.48e+01 1b63A d.14.1.3 37568 d.122.1.2 41109 1okkD 303 1.52e+01 a.24.13.1 -632 c.37.1.10 -7130 1vhqA 232 1.53e+01 c.23.16.2 -6514 1tme3 236 1.57e+01 1qqp3 1fbtA 190 1.59e+01 1bif c.60.1.4 34004 1c80A 191 1.59e+01 c.60.1.4 83162 1l7mA 211 1.59e+01 c.108.1.4 73664 1jx4A 352 1.62e+01 unknown_sccs -10188 unknown_sccs -11898 1bh5A 183 1.63e+01 1qipA d.32.1.1 38476 1dkfA 233 1.65e+01 3erdA a.123.1.1 19280 1a8l 226 1.67e+01 1a8l c.47.1.2 32777 c.47.1.2 32778 1l7pA 211 1.68e+01 c.108.1.4 73670 1uu9A 286 1.72e+01 d.144.1.7 -11343 1ad1A 266 1.75e+01 1aj2 c.1.21.1 29668 1h1wA 289 1.76e+01 d.144.1.7 83460 1bw0A 416 1.77e+01 1bw0A c.67.1.1 34385 1uheA 97 1.79e+01 1uhdA 96 1.80e+01 2fcr 173 1.80e+01 1rcf c.23.5.1 31151 1l9gA 192 1.81e+01 c.18.1.2 84568 1jflA 228 1.84e+01 c.78.2.1 71656 c.78.2.1 71657 1krmA 356 1.84e+01 c.1.9.1 77513 1kmzA 130 1.85e+01 d.32.1.2 72759 1rh5A 436 1.88e+01 unknown_sccs -12298 1pk9A 237 1.90e+01 c.56.2.1 -7734 1ecpA 238 1.90e+01 1ecpA c.56.2.1 33775 1jb0F 164 1.91e+01 1jb0F f.23.16.1 62825 1pw7A 239 1.92e+01 c.56.2.1 -7728 1oy1A 228 1.93e+01 c.23.16.2 87548 1nscA 390 1.93e+01 2qwc b.68.1.1 27591 1kllA 130 1.95e+01 d.32.1.2 72720 1ndyA 356 1.95e+01 c.1.9.1 -5420 1qu0A 191 1.97e+01 1dykA b.29.1.4 24225 1rtwA 220 2.00e+01 unknown_sccs -1904 1oi8A 532 2.00e+01 1p0hA 318 2.02e+01 d.108.1.1 -10802 1rhzA 436 2.03e+01 unknown_sccs -12299 1rniA 216 2.03e+01 unknown_sccs -11389 1i50B 1224 2.03e+01 e.29.1.1 61755 1qipA 183 2.05e+01 1qipA d.32.1.1 38470 1vknA 351 2.05e+01 1n67A 359 2.09e+01 b.2.3.4 85354 b.2.3.4 85355 1jpnA 296 2.10e+01 a.24.13.1 67039 c.37.1.10 67040 1o87A 297 2.10e+01 a.24.13.1 -619 c.37.1.10 -7117 1rj9B 300 2.11e+01 a.24.13.1 -621 c.37.1.10 -7119 1ls1A 295 2.11e+01 a.24.13.1 78170 c.37.1.10 78171 1ffh 294 2.11e+01 1ng1 a.24.13.1 16960 c.37.1.10 32271 1ng1 294 2.11e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 2ng1 293 2.11e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1ii7A 333 2.14e+01 1ii7A d.159.1.4 62415 1abe 306 2.14e+01 8abp c.93.1.1 35648 1ja1A 622 2.14e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1uu3A 310 2.20e+01 d.144.1.7 -11339 1oyeA 1049 2.21e+01 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1iwgA 1053 2.21e+01 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1vk2A 204 2.22e+01 c.18.1.2 -6326 1d7kA 421 2.22e+01 7odcA b.49.2.3 26486 c.1.6.1 28648 1k3eA 156 2.24e+01 d.198.1.1 68103 1j97A 211 2.26e+01 1f5sA c.108.1.4 62753 1s72G 348 2.31e+01 1ar1B 298 2.36e+01 2occB b.6.1.2 23037 f.17.2.1 43619 1ea6A 364 2.37e+01 d.14.1.3 64871 d.122.1.2 64872 1h7sA 365 2.38e+01 d.14.1.3 65705 d.122.1.2 65706 1qleB 252 2.41e+01 2occB b.6.1.2 23038 f.17.2.1 43621 1lk5A 229 2.44e+01 unknown_sccs 73960 d.58.40.1 73961 3bct 470 2.47e+01 3bct a.118.1.1 19112 1rzhH 260 2.47e+01 b.41.1.1 -3979 f.23.10.1 -12092 1kilC 74 2.48e+01 h.1.15.1 72520 1aijH 260 2.54e+01 6prcH b.41.1.1 25466 f.23.10.1 43463 1dkuA 317 2.61e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1r9lA 309 2.70e+01 c.94.1.1 -8700 1r3nA 462 2.71e+01 c.56.5.4 -7872 d.58.19.1 -10096 1ecsA 126 2.71e+01 1ecsA d.32.1.2 59407 1r43A 463 2.71e+01 c.56.5.4 -7870 d.58.19.1 -10094 1f89A 291 2.72e+01 d.160.1.1 64988 1rvjH 260 2.74e+01 b.41.1.1 -3977 f.23.10.1 -12090 1lujA 514 2.78e+01 a.118.1.1 78225 2bct 516 2.78e+01 3bct a.118.1.1 19113 1df9A 191 2.84e+01 1befA b.47.1.3 26420 1ulzA 451 2.86e+01 b.84.2.1 -5015 c.30.1.1 -6714 d.142.1.2 -11235 1jdhA 529 2.87e+01 a.118.1.1 66549 1a7m 180 2.88e+01 1lki a.26.1.1 16830 1g3jA 532 2.89e+01 3bct a.118.1.1 19114 1qz7A 533 2.89e+01 a.118.1.1 -1542 1i7wA 538 2.91e+01 3bct a.118.1.1 61909 1jpwA 540 2.92e+01 a.118.1.1 67059 1h75A 81 2.93e+01 1h75A c.47.1.1 60716 1q92A 197 2.94e+01 c.108.1.8 -6819 3gwxA 271 2.98e+01 2prgA a.123.1.1 19325 1bjt 793 3.03e+01 1bjt e.11.1.1 43249 1befA 181 3.03e+01 1befA b.47.1.3 26419 1ja0A 620 3.05e+01 1amoA b.43.4.1 62798 c.23.5.2 62799 c.25.1.4 62800 1vjqA 79 3.13e+01 unknown_sccs -13478 1khdA 345 3.13e+01 a.46.2.1 77400 c.27.1.1 77401 1j9zA 622 3.15e+01 1amoA b.43.4.1 62792 c.23.5.2 62793 c.25.1.4 62794 1uwjA 276 3.16e+01 d.144.1.7 -11357 1bap 306 3.21e+01 8abp c.93.1.1 35654 1ro2A 216 3.25e+01 unknown_sccs -11391 1kb9C 385 3.27e+01 f.32.1.1 77315 f.21.1.2 77316 1uwhA 276 3.30e+01 d.144.1.7 -11355 1jv2B 692 3.32e+01 b.1.15.1 67338 c.62.1.1 67339 d.200.1.1 67340 g.3.11.6 67341 g.3.11.6 67342 1m22A 503 3.37e+01 c.117.1.1 78464 1uj6A 227 3.37e+01 1h54A 754 3.38e+01 a.102.1.4 60634 b.30.5.3 60635 1h0hA 977 3.43e+01 b.52.2.2 76435 c.81.1.1 76436 1h1dA 221 3.44e+01 c.66.1.1 83452 1kkqA 269 3.48e+01 a.123.1.1 68679 1jfrA 262 3.52e+01 1jfrA c.69.1.16 34724 1s72I 162 3.53e+01 1vdwA 254 3.54e+01 e.7.1.1 -11868 1e5xA 486 3.57e+01 c.79.1.1 59283 1owlA 484 3.65e+01 a.99.1.1 -1296 c.28.1.1 -6646 1bg1A 596 3.67e+01 1bg1A a.47.1.1 17767 b.2.5.5 22461 d.93.1.1 40527 1f8vA 355 3.69e+01 2bbvA b.121.4.4 23329 1ogvH 250 3.70e+01 b.41.1.1 -3976 f.23.10.1 -12089 1pstH 237 3.74e+01 6prcH b.41.1.1 25480 f.23.10.1 43505 1r66A 337 3.75e+01 c.2.1.2 -5756 1jthA 82 3.82e+01 h.1.15.1 67270 1eia 207 3.86e+01 1eia a.28.3.1 16951 a.73.1.1 18331 2eiaA 206 3.86e+01 1eia a.28.3.1 16949 a.73.1.1 18329 1f1uA 323 3.86e+01 d.32.1.3 83200 d.32.1.3 83201 2ffhA 425 3.88e+01 1ng1 a.24.13.1 16965 a.36.1.1 17122 c.37.1.10 32276 1cov2 263 3.92e+01 1aym2 1b1cA 181 3.94e+01 1amoA c.23.5.2 31212 1jfh 496 3.95e+01 1smd b.71.1.1 27762 c.1.8.1 28749 1qwvA 142 3.99e+01 a.39.2.1 -873 1ksiA 642 3.99e+01 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044