# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1d8hA 311 8.27e-03 1d8iA d.63.1.1 39544 1fa8A 135 2.42e-02 1qipA d.32.1.1 38486 1f9zA 135 3.88e-02 1qipA d.32.1.1 38484 1dzkA 157 4.94e-02 1obpA b.60.1.1 27096 1bj7 156 5.81e-02 1bj7 b.60.1.1 27113 1aisA 182 7.27e-02 1ytbA d.129.1.1 41288 d.129.1.1 41289 1qwdA 177 1.50e-01 1mgtA 174 1.74e-01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1auvA 311 2.05e-01 1auvA c.30.1.5 31723 d.142.1.3 41558 1jksA 294 3.45e-01 d.144.1.7 71710 1jc4A 148 3.90e-01 1jc4A d.32.1.4 62863 1ecsA 126 4.00e-01 1ecsA d.32.1.2 59407 1i06A 180 4.21e-01 1mup b.60.1.1 27131 1lqpA 135 4.31e-01 d.32.1.2 78151 1e5pA 151 4.64e-01 1bj7 b.60.1.1 59272 1nkiA 135 4.85e-01 1hn2A 159 5.03e-01 b.60.1.1 65890 1gt1A 159 5.06e-01 1i4uA 181 5.29e-01 b.60.1.1 61732 1i05A 180 5.40e-01 1mup b.60.1.1 27130 1uxzA 131 5.84e-01 1qy1A 174 5.89e-01 1nd4A 264 6.21e-01 1jv4A 162 6.89e-01 b.60.1.1 67343 1qqsA 174 6.92e-01 1nglA b.60.1.1 27143 1oo0A 147 7.26e-01 d.232.1.1 87182 1jg5A 83 9.21e-01 d.205.1.1 66666 1ftrA 296 1.02e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1epaA 164 1.05e+00 1epaA b.60.1.1 27128 1r9cA 139 1.07e+00 1k0rA 366 1.09e+00 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1t7pA 698 1.20e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 1obpA 159 1.35e+00 1obpA b.60.1.1 27092 1cjxA 357 1.38e+00 1cjxA d.32.1.3 38516 d.32.1.3 38517 1p5dX 463 1.40e+00 1ckiA 317 1.65e+00 1csn d.144.1.7 41660 1v8cA 168 1.80e+00 1f08A 148 1.81e+00 1f08A d.89.1.2 59564 1io1A 398 1.82e+00 1io1A e.32.1.1 62611 1nnhA 294 1.83e+00 1ktbA 405 1.86e+00 b.71.1.1 72960 c.1.8.1 72961 3cla 213 1.99e+00 3cla c.43.1.1 32610 1f1xA 322 2.04e+00 d.32.1.3 83208 d.32.1.3 83209 1nw1A 429 2.18e+00 d.144.1.8 86286 1jzuA 157 2.22e+00 b.60.1.1 84271 1i7nA 309 2.35e+00 c.30.1.5 83681 d.142.1.3 83682 1jl0A 334 2.59e+00 1jenA d.156.1.1 63155 1dy9A 187 2.78e+00 1jxpA b.47.1.3 26400 1jyoA 130 2.78e+00 d.198.1.1 67483 1mup 166 2.93e+00 1mup b.60.1.1 27133 1q8yA 373 3.20e+00 1hbq 183 3.48e+00 1aqb b.60.1.1 27078 1p8xA 344 3.54e+00 1uwvA 433 3.95e+00 1qlaB 239 4.12e+00 1qlaB a.1.2.1 15679 d.15.4.2 37707 1m2xA 223 4.24e+00 d.157.1.1 84764 1jb7B 260 4.54e+00 1otcB b.40.4.3 62839 1kafA 108 4.62e+00 d.199.1.1 68372 1kl9A 182 4.81e+00 b.40.4.5 72681 1iazA 179 5.02e+00 1iazA b.97.1.1 62131 1qqgA 264 5.30e+00 1qqgA b.55.1.2 26987 b.55.1.2 26988 1j5wA 298 5.45e+00 d.104.1.1 71589 1hkxA 147 5.87e+00 d.17.4.7 83567 1ksiA 642 5.90e+00 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1em2A 229 6.22e+00 1em2A d.129.3.2 41321 1jssA 224 6.59e+00 d.129.3.2 71844 1k3eA 156 6.83e+00 d.198.1.1 68103 1p5tA 127 6.85e+00 1uzcA 71 6.92e+00 1fu1A 203 6.93e+00 1fu1B b.59.1.1 27076 h.1.11.1 45630 1hl9A 449 7.14e+00 1ik9A 213 7.28e+00 b.59.1.1 66176 h.1.11.1 66177 1dzlA 505 7.35e+00 1dzlA b.121.6.1 23586 1o7nB 194 7.58e+00 d.17.4.4 81164 1hyvA 166 7.65e+00 1b9dA c.55.3.2 61424 1bv1 159 7.73e+00 1bv1 d.129.3.1 41313 1dqnA 230 7.94e+00 1dqnA c.61.1.1 34067 1nukA 183 8.03e+00 1nukA b.18.1.4 23721 1eg9B 194 8.06e+00 1ndoB d.17.4.4 38120 1f1uA 323 8.25e+00 d.32.1.3 83200 d.32.1.3 83201 1un3A 123 8.50e+00 1dqpA 230 8.65e+00 1dqnA c.61.1.1 34069 1vjqA 79 9.39e+00 1ui8A 638 9.44e+00 1n2fA 142 9.64e+00 d.227.1.1 79853 1pytA 94 9.66e+00 1pytA d.58.3.1 39064 1qipA 183 9.92e+00 1qipA d.32.1.1 38470 2polA 366 9.94e+00 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1o63A 219 1.01e+01 1lwjA 441 1.03e+01 b.71.1.1 74303 c.1.8.1 74304 1nh8A 304 1.11e+01 c.94.1.1 80507 d.58.5.3 80508 1agi 125 1.13e+01 7rsa d.5.1.1 37303 1exqA 154 1.15e+01 1b9dA c.55.3.2 33646 1kwmA 402 1.16e+01 c.56.5.1 73079 d.58.3.1 73080 1ukuA 102 1.18e+01 1preA 470 1.21e+01 1preA d.169.1.2 42437 f.8.1.1 43824 1k2yX 463 1.24e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1vp9 322 1.26e+01 3mag c.66.1.25 34210 1csn 298 1.27e+01 1csn d.144.1.7 41664 1o0xA 262 1.27e+01 d.127.1.1 80755 1mmiA 366 1.28e+01 1shwB 181 1.29e+01 1iq4A 179 1.32e+01 1iq4A d.77.1.1 62641 3mag 307 1.33e+01 3mag c.66.1.25 34205 1euoA 180 1.34e+01 1np1A b.60.1.1 27163 1gsoA 431 1.35e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1k8wA 327 1.36e+01 b.122.1.1 83094 d.58.35.2 68317 d.58.35.2 83095 1s0uA 408 1.36e+01 1ko6A 187 1.36e+01 b.119.1.1 77471 1l8bA 190 1.37e+01 d.86.1.1 73683 1vpt 348 1.39e+01 3mag c.66.1.25 34207 1ri6A 343 1.43e+01 1kt6A 183 1.43e+01 b.60.1.1 84466 1l6rA 227 1.50e+01 c.108.1.10 77768 1jkeA 145 1.51e+01 c.110.1.1 66791 1b77A 228 1.51e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 1ltoA 245 1.54e+01 b.47.1.2 84707 1gw5S 142 1.56e+01 d.110.4.2 70633 1g6hA 257 1.59e+01 1gajA c.37.1.12 60318 1k4nA 192 1.60e+01 d.32.1.5 72059 1v39 322 1.61e+01 3mag c.66.1.25 34206 1f46A 140 1.65e+01 1f46A d.129.4.1 59643 1r9wA 145 1.68e+01 1btkA 169 1.71e+01 1btkA b.55.1.1 26959 1mkeA 152 1.71e+01 b.55.1.4 79231 1aqb 183 1.71e+01 1aqb b.60.1.1 27084 1rlw 126 1.73e+01 1rlw b.7.1.1 23177 1n7oA 721 1.74e+01 a.102.3.2 80259 b.24.1.1 80260 b.30.5.2 80261 1pba 81 1.75e+01 1pytA d.58.3.1 39067 1kz7A 353 1.77e+01 a.87.1.1 73333 b.55.1.1 73334 1ry6A 360 1.78e+01 1nzhA 282 1.78e+01 1l0wA 580 1.79e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1gklA 297 1.79e+01 c.69.1.2 65250 1pn2A 280 1.80e+01 1vkfA 188 1.82e+01 1ej1A 190 1.83e+01 1ejhA d.86.1.1 40144 1blxA 326 1.89e+01 1hcl d.144.1.7 41596 1b33N 67 1.91e+01 1b33N d.30.1.1 38459 1qlpA 394 1.91e+01 1ovaA e.1.1.1 42628 1mucA 373 1.98e+01 1mucA c.1.11.2 29236 d.54.1.1 38880 1jenA 267 1.99e+01 1jenA 1jx2B 315 2.00e+01 c.37.1.8 67404 1oacA 727 2.02e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1aoeA 192 2.03e+01 1aoeA c.71.1.1 34923 1ptf 88 2.05e+01 1ptf d.94.1.1 40549 1i2aA 219 2.07e+01 1l3aA 228 2.07e+01 d.18.1.2 73531 2mnr 357 2.08e+01 2mnr c.1.11.2 29245 d.54.1.1 38889 1f3mC 297 2.09e+01 1hcl d.144.1.7 41677 1mk4A 157 2.11e+01 d.108.1.1 84979 1qysA 106 2.12e+01 1k3sA 113 2.14e+01 d.198.1.1 68120 1jj2B 337 2.15e+01 1ffkB b.43.3.2 63086 1eqoA 158 2.16e+01 1hka d.58.30.1 39432 1uf2C 421 2.17e+01 1iqyA 638 2.19e+01 b.30.2.1 76763 d.17.2.1 76764 d.17.2.1 76765 1sgvA 316 2.19e+01 1czpA 98 2.22e+01 1awd d.15.4.1 37645 1gc0A 398 2.22e+01 c.67.1.3 70168 1kao 167 2.23e+01 1ctqA c.37.1.8 32014 1nrlA 316 2.24e+01 1q7hA 153 2.24e+01 1oaoA 674 2.24e+01 e.26.1.2 86744 1uz5A 402 2.25e+01 1in0A 163 2.27e+01 d.58.49.1 83694 d.58.49.1 83695 1avk 638 2.27e+01 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1omiA 248 2.28e+01 a.4.5.4 87079 b.82.3.3 87080 1ctqA 166 2.29e+01 1ctqA c.37.1.8 31965 1i39A 225 2.30e+01 1ekeA c.55.3.1 61585 1skoB 130 2.34e+01 1ng6A 148 2.40e+01 a.182.1.1 85670 1hcl 298 2.41e+01 1hcl d.144.1.7 41593 1uhvA 500 2.45e+01 1cs1A 386 2.45e+01 1ibjA c.67.1.3 34399 1nc7A 138 2.45e+01 b.123.1.1 85549 1b7yA 350 2.48e+01 1pysA d.104.1.1 40776 1j1uA 306 2.53e+01 c.26.1.1 83980 1k28D 391 2.57e+01 b.106.1.1 68052 b.106.1.1 68053 1kw3B 292 2.58e+01 d.32.1.3 77549 d.32.1.3 77550 1b12A 248 2.60e+01 1b12A b.87.1.2 28388 1f9yA 158 2.65e+01 d.58.30.1 83249 1aop 497 2.68e+01 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1jxpA 186 2.70e+01 1jxpA b.47.1.3 26402 1f52A 468 2.70e+01 1lgr d.15.9.1 37839 d.128.1.1 41169 1tkiA 321 2.73e+01 1tkiA d.144.1.7 41638 1p8kZ 254 2.73e+01 1gxuA 91 2.73e+01 d.58.10.1 76378 1kllA 130 2.73e+01 d.32.1.2 72720 1st0A 337 2.76e+01 1ocsA 162 2.76e+01 1v5sA 126 2.81e+01 1idpA 172 2.81e+01 d.17.4.1 83685 1ijgA 309 2.82e+01 1fouA e.27.1.1 62493 1a7j 290 2.83e+01 1a7j c.37.1.6 31952 1kgyA 181 2.87e+01 b.18.1.4 72449 1lb6A 160 2.88e+01 b.8.1.1 73798 1itg 166 2.88e+01 1b9dA c.55.3.2 33661 1bl3A 160 2.90e+01 1b9dA c.55.3.2 33655 1vgyA 393 2.92e+01 1aw7A 194 2.93e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1kk1A 410 2.93e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1hw7A 255 2.96e+01 1i7fA d.193.1.1 61297 1mm4A 170 2.97e+01 f.4.1.2 79294 1b4vA 504 2.98e+01 1b8sA c.3.1.2 30334 d.16.1.1 37865 1khxA 227 3.00e+01 b.26.1.1 68631 1eguA 731 3.04e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.5.2 24423 1mxtA 504 3.05e+01 c.3.1.2 79671 d.16.1.1 79672 1j7lA 264 3.07e+01 d.144.1.6 62697 1n4wA 504 3.08e+01 1gz8A 299 3.11e+01 d.144.1.7 83405 1ojrA 274 3.14e+01 1nnjA 271 3.15e+01 a.156.1.2 80669 b.113.1.1 80670 g.39.1.8 80671 1b6rA 355 3.19e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1p9eA 331 3.19e+01 1jz8A 1023 3.20e+01 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.5.1 67833 c.1.8.3 67834 1umwA 237 3.22e+01 1mp9A 198 3.23e+01 1phk 298 3.24e+01 1cdkA d.144.1.7 41635 1l7mA 211 3.24e+01 c.108.1.4 73664 1rz1A 161 3.26e+01 1v7oA 165 3.26e+01 1bqk 124 3.27e+01 1bqk b.6.1.1 22889 1howA 373 3.27e+01 1hcl d.144.1.7 41679 1g71A 347 3.29e+01 1g71A e.16.1.1 43268 1ooyA 481 3.29e+01 1e3mA 800 3.34e+01 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 1dk8A 147 3.35e+01 1agrE a.91.1.1 18548 1dp0A 1023 3.35e+01 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.5.1 24346 c.1.8.3 28845 1m3iA 471 3.36e+01 1ax4A 467 3.37e+01 1ax4A c.67.1.2 34391 1f0xA 571 3.38e+01 1f0xA d.58.32.2 39483 d.145.1.1 41746 1p42A 270 3.39e+01 d.14.1.7 87754 d.14.1.7 87755 1pysA 350 3.42e+01 1pysA d.104.1.1 40775 1m6pA 152 3.42e+01 1m6pA b.64.1.1 27519 1h3qA 140 3.42e+01 d.110.4.3 76652 1p32A 209 3.44e+01 1p32A d.25.1.1 38379 1g0oA 283 3.45e+01 1ybvA c.2.1.2 60181 1obfO 335 3.46e+01 c.2.1.3 86768 d.81.1.1 86769 1xyn 178 3.47e+01 1axkA b.29.1.11 24322 1r0pA 312 3.48e+01 1l1qA 186 3.48e+01 c.61.1.1 77653 1j7nA 776 3.52e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1d4fA 431 3.55e+01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1p0hA 318 3.58e+01 1gtdA 85 3.58e+01 d.58.45.1 76344 1pda 315 3.63e+01 1pda c.94.1.1 35751 d.50.2.1 38794 1q67A 231 3.63e+01 1dzfA 215 3.67e+01 1dzfA c.52.3.1 33344 d.78.1.1 39753 1gmuA 143 3.73e+01 b.107.1.1 65335 d.58.38.1 65336 1jhsA 188 3.78e+01 d.107.1.1 84172 1jh6A 189 3.79e+01 d.61.1.1 66707 1ukkA 142 3.79e+01 1d8dA 377 3.81e+01 1ft1A a.118.6.1 19185 1gsa 316 3.83e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1ri5A 298 3.84e+01 1ef1A 294 3.85e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1jmcA 246 3.88e+01 1jmcA b.40.4.3 25300 b.40.4.3 25301 1m15A 357 3.93e+01 a.83.1.1 78368 d.128.1.2 78369 1n6zA 105 3.97e+01 d.74.5.1 85369 1f35A 162 3.98e+01 1f35A b.94.1.1 59628