# List of top-scoring protein chains for t2k-100-30-str 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 1fftC 204 6.50e-02 1fftC f.2.1.3 43629 1hw1A 239 3.59e-01 1e2xA a.4.5.6 16111 a.78.1.1 18441 1eemA 241 7.69e-01 1eemA a.45.1.1 17717 c.47.1.5 33011 1kfuS 184 9.54e-01 a.39.1.7 68574 1ljrA 244 9.71e-01 1ljrA a.45.1.1 17707 c.47.1.5 33001 1l5zA 155 1.14e+00 1kf6A 602 1.24e+00 1qkkA 155 1.27e+00 1dbwA c.23.1.1 31104 1ois 223 1.27e+00 1a36A e.15.1.1 43267 1mhyG 169 1.37e+00 1mtyG a.23.3.1 16518 1ew6A 137 2.00e+00 1ewaA a.1.1.2 15637 1ewaA 137 2.00e+00 1ewaA a.1.1.2 15639 1f4qA 165 2.12e+00 1alvA a.39.1.7 17360 1hlvA 131 2.21e+00 a.4.1.7 65854 a.4.1.7 65855 1e2xA 243 2.28e+00 1e2xA a.4.5.6 16113 a.78.1.1 18443 1ltm 320 2.37e+00 1ltm d.2.1.6 36992 1qusA 322 2.50e+00 1ltm d.2.1.6 36991 1am7A 158 2.79e+00 1am7A d.2.1.4 36981 1ew6B 137 3.03e+00 1ewaA a.1.1.2 15638 1k94A 165 3.12e+00 a.39.1.7 68333 2lhb 149 3.18e+00 2fal a.1.1.2 15597 1eh2 106 3.35e+00 1eh2 a.39.1.6 17339 1klt 226 3.38e+00 5ptp b.47.1.2 26300 1qqfA 277 3.41e+00 1c3d a.102.4.4 18875 1dw0A 112 3.57e+00 1dw0A a.3.1.1 15911 1mhyB 395 3.76e+00 1mtyB a.25.1.2 16781 1hmcB 148 4.03e+00 1hmcB a.26.1.2 16868 1hizA 379 4.05e+00 c.1.8.3 65841 1lnrI 134 4.29e+00 1kgsA 225 4.64e+00 a.4.6.1 68596 c.23.1.1 68597 1ko9A 345 4.73e+00 a.96.1.3 68717 d.129.1.2 68718 1i37A 260 4.89e+00 1a28A a.123.1.1 61583 1iow 306 4.91e+00 1iow c.30.1.2 31713 d.142.1.1 41481 1alvA 173 4.93e+00 1alvA a.39.1.7 17370 1jk0A 419 5.53e+00 a.25.1.2 63142 1seiA 130 6.08e+00 1seiA d.140.1.1 41463 1g5gB 481 6.23e+00 f.12.1.1 65157 h.3.2.1 65158 1enfA 212 6.64e+00 3seb b.40.2.2 25198 d.15.6.1 37787 1kwiA 101 6.73e+00 1a28A 256 7.06e+00 1a28A a.123.1.1 19290 1k8eA 345 7.10e+00 1dseA 292 7.12e+00 1ryc a.93.1.1 59130 1fqvD 149 7.13e+00 1fqvD a.122.1.1 19263 d.42.1.2 38667 2cblA 305 7.16e+00 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 2dln 306 7.17e+00 1iow c.30.1.2 31715 d.142.1.1 41483 1e96B 203 7.22e+00 1e96B a.118.8.1 19211 1fs1B 141 7.32e+00 1vcbB a.122.1.1 19252 d.42.1.2 38664 1guxB 152 7.53e+00 1guxB a.74.1.3 18389 1hmcA 148 7.54e+00 1hmcB a.26.1.2 16867 1hh8A 213 7.83e+00 1e96B a.118.8.1 61042 1ihoA 283 7.85e+00 1ihoA c.26.1.4 62390 1ryc 294 7.94e+00 1ryc a.93.1.1 18601 2cyp 294 8.19e+00 1ryc a.93.1.1 18600 2btvA 901 8.43e+00 2btvA e.28.1.1 43376 1ds4A 292 8.44e+00 1ryc a.93.1.1 59129 1fqvJ 149 8.58e+00 1fqvD a.122.1.1 19266 d.42.1.2 38670 1ash 150 8.79e+00 1ash a.1.1.2 15622 1iq0A 592 9.04e+00 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 1m1cA 680 9.34e+00 1a05A 358 9.74e+00 1cnzA c.77.1.1 35059 1myt 146 9.77e+00 1a6m a.1.1.2 15207 1a6dA 545 1.04e+01 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1b47A 304 1.05e+01 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 1jdrA 294 1.07e+01 1ryc a.93.1.1 62908 1k04A 162 1.07e+01 a.24.14.1 67904 1iq3A 110 1.08e+01 1iq3A a.39.1.6 62640 1huw 166 1.08e+01 1huw a.26.1.1 16831 2vsgA 358 1.09e+01 2vsgA h.4.1.1 45780 1el6A 219 1.13e+01 1el6B d.182.1.1 42606 1bed 181 1.13e+01 1fvkA a.44.1.1 17514 c.47.1.4 32808 1qmhA 347 1.15e+01 1qmhA c.47.2.1 33082 d.68.2.1 39568 1qgjA 300 1.15e+01 1bgp a.93.1.1 18691 1bg4 302 1.16e+01 1taxA c.1.8.3 28806 1b31A 302 1.18e+01 1taxA c.1.8.3 28892 1j4nA 271 1.20e+01 1el6B 219 1.22e+01 1el6B d.182.1.1 42607 2hmiA 558 1.24e+01 1rthA c.55.3.1 33604 e.8.1.2 43106 1ewcA 214 1.24e+01 3seb b.40.2.2 25199 d.15.6.1 37788 1ccg 291 1.24e+01 1ryc a.93.1.1 18627 1gqeA 365 1.26e+01 1exeA 99 1.26e+01 1huuA a.55.1.1 17906 1ng1 294 1.28e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1aisA 182 1.28e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1l2iA 261 1.29e+01 2end 138 1.30e+01 2end a.18.1.1 16400 1dp4A 435 1.34e+01 1dp4A c.93.1.1 35710 1lea 84 1.37e+01 1lea a.4.5.2 16085 1j8uA 325 1.37e+01 1cm7A 363 1.40e+01 1cnzA c.77.1.1 35063 1ii7A 333 1.42e+01 1ii7A d.159.1.4 62415 1iyjB 817 1.42e+01 1fonA 240 1.47e+01 5ptp b.47.1.2 26231 1om2A 95 1.48e+01 1om2A a.23.4.1 16520 1jpnA 296 1.49e+01 a.24.13.1 67039 c.37.1.10 67040 1g8iA 190 1.54e+01 1rec a.39.1.5 60363 1lshA 1056 1.55e+01 1g13A 162 1.56e+01 1g13A b.95.1.1 60194 1mgtA 174 1.57e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1ig6A 107 1.61e+01 1ig6A a.4.3.2 62364 1qrjB 199 1.61e+01 1qrjB a.28.3.1 16952 1b4aA 149 1.64e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1hx1B 114 1.65e+01 1hx1B a.7.7.1 61350 1dn1A 594 1.70e+01 1dn1A e.25.1.1 43357 1g7oA 215 1.70e+01 1g7oA a.45.1.1 60332 c.47.1.5 60333 1ig5A 75 1.74e+01 4icb a.39.1.1 62363 1l7mA 211 1.75e+01 3sdhA 146 1.79e+01 3sdhA a.1.1.2 14984 1gulA 222 1.79e+01 1pgtA a.45.1.1 17675 c.47.1.5 32969 1g5yA 238 1.85e+01 1lbd a.123.1.1 60294 1a4pA 96 1.86e+01 1b4cA a.39.1.2 17176 1f5sA 211 1.87e+01 1f5sA c.108.1.4 59656 1ax4A 467 1.87e+01 1ax4A c.67.1.2 34391 1j97A 211 1.87e+01 1f5sA c.108.1.4 62753 2ng1 293 1.87e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1h99A 224 1.89e+01 a.142.1.1 60814 a.142.1.1 60815 1har 216 1.93e+01 1rthA e.8.1.2 43025 1csn 298 1.93e+01 1csn d.144.1.1 41664 1dmwA 307 1.95e+01 4pah d.178.1.1 42580 1k30A 368 1.99e+01 c.112.1.1 68067 1dgsA 667 1.99e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1jdpA 441 2.02e+01 c.93.1.1 62906 1ebmA 317 2.06e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 3icb 75 2.07e+01 4icb a.39.1.1 17147 1gseA 221 2.07e+01 1pgtA a.45.1.1 17667 c.47.1.5 32961 1spgA 144 2.08e+01 1abwA a.1.1.2 15409 1k3lA 221 2.09e+01 1pah 308 2.10e+01 4pah d.178.1.1 42578 1vasA 137 2.11e+01 2end a.18.1.1 16404 4icb 76 2.11e+01 4icb a.39.1.1 17145 1g2iA 166 2.13e+01 1g2iA c.23.16.2 31438 4pah 308 2.15e+01 4pah d.178.1.1 42576 1f5qB 252 2.16e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 1f82A 424 2.16e+01 1f82A d.92.1.7 40307 1xsm 390 2.16e+01 1xsm a.25.1.2 16804 1go4E 100 2.19e+01 1k7hA 476 2.23e+01 1tfe 145 2.24e+01 1tfe d.43.1.1 38680 1wer 334 2.25e+01 1wer a.116.1.2 19108 1dk8A 147 2.34e+01 1agrE a.91.1.1 18548 1lfpA 249 2.34e+01 1ddzA 496 2.36e+01 1ddzA c.53.2.1 33372 c.53.2.1 33373 1dgjA 907 2.42e+01 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 5pal 109 2.42e+01 1a75A a.39.1.4 17215 1dkgD 383 2.42e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1pvaA 110 2.44e+01 1a75A a.39.1.4 17207 2tct 207 2.47e+01 2tct a.4.1.9 16063 a.121.1.1 19240 1sfcA 96 2.47e+01 1sfcA h.1.15.1 45643 1dp5B 68 2.48e+01 1dp5B a.137.7.1 19646 3vtk 343 2.48e+01 1qhiA c.37.1.1 31884 1gumA 222 2.59e+01 1pgtA a.45.1.1 17683 c.47.1.5 32977 1axn 323 2.61e+01 1avc a.65.1.1 18149 1rec 201 2.65e+01 1rec a.39.1.5 17326 1be3C 379 2.70e+01 1be3C f.2.1.8 43665 1an7A 136 2.71e+01 1seiA d.140.1.1 41465 1i50F 155 2.72e+01 d.78.1.2 61760 2sas 185 2.78e+01 2sas a.39.1.5 17258 1chuA 540 2.83e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1ku1A 230 2.86e+01 1knyA 253 2.87e+01 1knyA e.9.1.3 43232 1cf9A 753 2.88e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1qb2A 109 2.91e+01 1qb2A a.36.1.1 17125 1dlyA 164 2.91e+01 1dlyA a.1.1.1 14983 1kxpD 458 2.96e+01 1e8aA 91 3.01e+01 1b4cA a.39.1.2 17188 1bolA 222 3.05e+01 1bolA d.124.1.1 41120 1ejbA 168 3.08e+01 1rvv1 c.16.1.1 59417 1dcnD 436 3.08e+01 1auwA a.127.1.1 19423 1h0oA 390 3.12e+01 1fyhA 258 3.13e+01 1d9cA a.26.1.3 16907 a.26.1.3 16908 1ae9A 179 3.13e+01 1ae9A d.163.1.1 42153 1sly 618 3.14e+01 1qsaA a.118.5.1 19184 d.2.1.6 36990 1e3aB 560 3.14e+01 1ajqB 1j77A 209 3.20e+01 1j77A a.132.1.2 62674 3erdA 261 3.21e+01 3erdA a.123.1.1 19293 1gyzA 60 3.24e+01 1bhb 71 3.28e+01 1c3wA j.35.1.1 46239 1gk9B 557 3.34e+01 1f3aA 222 3.41e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1gkxA 388 3.46e+01 a.29.5.1 65266 d.122.1.4 65267 1go3F 107 3.47e+01 a.60.8.2 65407 1i5nA 146 3.48e+01 1i5nA a.24.10.3 61805 1gnlA 544 3.48e+01 1e79D 482 3.49e+01 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1eia 207 3.56e+01 1eia a.28.3.1 16951 a.73.1.1 18331 1gkfB 557 3.67e+01 1gm9B 557 3.80e+01 2eiaB 206 3.80e+01 1eia a.28.3.1 16950 a.73.1.1 18330 1dttA 560 3.85e+01 1rthA c.55.3.1 33611 e.8.1.2 43088 1euhA 475 3.91e+01 1euhA c.82.1.1 35369 1hlb 158 3.98e+01 1hlb a.1.1.2 15625 1yveJ 524 3.99e+01 1qmgA a.100.1.2 18790 c.2.1.6 30187