# List of top-scoring protein chains for t06-100-30-n_sep-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 1ospO 257 6.26e-06 1ospO b.76.1.1 27971 2gnqA 336 1.05e-05 2h14A 317 2.50e-05 3proC 166 2.93e-05 3proC d.52.1.1,d.52.1.1 38812,38813 1s5jA 847 3.09e-05 c.55.3.5,e.8.1.1 112040,112041 1zbfA 142 6.49e-05 c.55.3.1 124850 1914 232 1.40e-04 1914 2cnqA 306 1.62e-04 d.143.1.1 130646 2agyA 361 1.77e-04 1obdA 306 2.03e-04 d.143.1.1 86767 2gu3A 136 2.11e-04 1k0wA 231 3.63e-04 c.74.1.1 77220 1dhkB 223 3.78e-04 1led b.29.1.1 24157 1go4A 205 6.31e-04 d.135.1.1 70292 1avbA 226 6.80e-04 1led b.29.1.1 24158 2bbkH 355 7.58e-04 2bbkH b.69.2.1 27634 1a9xA 1058 8.70e-04 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1cs0A 1073 9.07e-04 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1p5dX 463 1.49e-03 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1gzcA 239 2.00e-03 b.29.1.1 70803 1utcA 363 2.01e-03 a.118.1.4,b.69.6.1 99914,99915 2bwqA 129 2.06e-03 b.7.1.2 129380 1l0qA 391 2.29e-03 b.1.3.1,b.69.2.3 77644,77645 2gi9A 56 3.35e-03 2igd 61 3.61e-03 2igd 1ohtA 215 3.97e-03 d.118.1.1 87036 2a2lA 145 5.22e-03 d.110.9.1 126035 1ykdA 398 6.22e-03 1pguA 615 8.41e-03 b.69.4.1,b.69.4.1 88069,88070 1dkzA 219 8.51e-03 1dkzA a.8.4.1,b.130.1.1 90345,90346 1u04A 771 1.04e-02 b.34.14.1,c.55.3.10 107539,107540 1r8gA 372 1.17e-02 d.128.1.3 104845 1in0A 163 1.28e-02 d.58.49.1,d.58.49.1 83694,83695 1jnyA 435 1.30e-02 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1vkkA 154 1.31e-02 d.109.1.2 108669 2ajrA 331 1.37e-02 c.72.1.1 126892 1vjlA 164 1.48e-02 d.257.1.1 100822 1n4xH 120 1.62e-02 b.1.1.1 85324 1aqcA 172 1.91e-02 1x11A b.55.1.2 26983 1erjA 393 1.98e-02 1erjA b.69.4.1 27660 1jofA 365 2.09e-02 b.69.10.1 71775 1pbyB 337 2.15e-02 b.69.2.2 94422 1zpsA 138 2.15e-02 b.168.1.1 125473 1f1xA 322 2.24e-02 d.32.1.3,d.32.1.3 83208,83209 1x3mA 415 2.26e-02 c.55.1.2,c.55.1.2 121664,121665 1qh5A 260 2.26e-02 1qh5A d.157.1.2 42057 1usyA 275 2.27e-02 d.104.1.1 113422 1ob8A 135 2.28e-02 c.52.1.18 111627 1f1uA 323 2.37e-02 d.32.1.3,d.32.1.3 83200,83201 1p35A 299 3.29e-02 1p35A b.28.1.1 23925 1mixA 206 3.60e-02 a.11.2.1,b.55.1.5 79166,79167 1u00A 227 3.81e-02 a.8.4.1,b.130.1.1 112900,112901 1qksA 567 3.90e-02 1qksA a.3.1.2,b.70.2.1 15951,27710 1edqA 540 4.00e-02 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1kshB 152 4.78e-02 b.1.18.8 72915 2c6cA 707 5.00e-02 a.48.2.1,c.8.4.1,c.56.5.5 129989,129990,129991 1o8xA 146 5.19e-02 c.47.1.10 86681 2fh5A 185 5.34e-02 d.110.4.4 133477 1jmxB 349 5.41e-02 b.69.2.2 66906 1gxrA 337 5.58e-02 b.69.4.1 70722 1t6sA 162 5.71e-02 a.4.5.60,a.4.5.60 112271,112272 1rwiA 270 5.84e-02 b.68.9.1 97987 1m40A 263 6.14e-02 e.3.1.1 74437 1rsy 152 6.44e-02 1rsy 2aq5A 402 6.55e-02 1gz8A 299 6.95e-02 d.144.1.7 83405 1jcfA 344 7.00e-02 c.55.1.1,c.55.1.1 62878,62879 1j8uA 325 7.49e-02 d.178.1.1 71611 2nr1 27 8.44e-02 1iybA 208 8.80e-02 d.124.1.1 90720 2dc4A 165 8.87e-02 2brfA 110 8.93e-02 b.26.1.2 128996 2cy5A 140 8.97e-02 b.55.1.2 131018 2be1A 339 9.18e-02 2chdA 142 9.27e-02 1lgpA 116 9.40e-02 b.26.1.2 73890 1h2wA 710 9.48e-02 b.69.7.1,c.69.1.4 76596,76597 2czvC 120 9.85e-02 1zxuA 217 1.08e-01 d.23.1.2 125796 1qxmA 300 1.10e-01 b.42.2.1,b.42.2.1 96533,96534 1vd3A 217 1.12e-01 1sq9A 397 1.14e-01 b.69.4.1 105889 2a1rA 430 1.15e-01 1yleA 342 1.16e-01 d.108.1.8 123647 2eifA 136 1.20e-01 1bkb b.34.5.2,b.40.4.5 24607,25339 1uwcA 261 1.26e-01 c.69.1.17 100101 1gpqA 135 1.27e-01 d.233.1.1 83295 1xs0A 136 1.33e-01 d.233.1.1 115889 1evhA 112 1.37e-01 1evhA b.55.1.4 26997 2fnoA 248 1.46e-01 a.45.1.1,c.47.1.5 133821,133822 2cfuA 658 1.48e-01 1khiA 176 1.51e-01 b.34.5.2,b.40.4.5 77408,77409 2bklA 695 1.58e-01 1v74A 107 1.58e-01 d.243.1.1 100442 1w96A 554 1.60e-01 b.84.2.1,c.30.1.1,d.142.1.2 114397,114398,114399 1ym5A 300 1.69e-01 1dzkA 157 1.74e-01 1obpA b.60.1.1 27096 1wq3A 322 1.74e-01 1nlbH 218 1.78e-01 b.1.1.1,b.1.1.2 80621,80622 1uheA 97 1.84e-01 2erfA 209 1.84e-01 b.29.1.4 132287 2b9hA 353 1.92e-01 1sflA 238 1.96e-01 c.1.10.1 112077 1y08A 323 1.99e-01 d.3.1.12 116280 1oacA 727 2.08e-01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1pz4A 116 2.25e-01 d.106.1.1 95400 1z5bA 469 2.51e-01 a.156.1.3,d.14.1.3,d.122.1.2 124464,124465,124466 1tjxA 159 2.59e-01 b.7.1.2 112465 1f89A 291 2.77e-01 d.160.1.1 64988 1t71A 281 2.80e-01 d.159.1.9 112283 2dchX 216 2.89e-01 1ebfA 358 2.92e-01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1ignA 246 2.96e-01 1ignA a.4.1.6,a.4.1.6 16048,16049 2eu8A 216 3.05e-01 1w53A 84 3.05e-01 a.186.1.2 109175 1s6cA 183 3.08e-01 a.39.1.5 98594 1z2nX 324 3.22e-01 1hz6A 72 3.25e-01 2ptl d.15.7.1 61429 1i40A 175 3.26e-01 b.40.5.1 66024 1udxA 416 3.28e-01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1b06A 210 3.29e-01 1avmA a.2.11.1,d.44.1.1 15740,38737 1mzbA 136 3.30e-01 a.4.5.42 91497 1n8fA 350 3.41e-01 c.1.10.4 85397 1uyjA 296 3.42e-01 f.8.1.2 108143 1f7sA 139 3.52e-01 1cof d.109.1.2 40857 1lbvA 252 3.57e-01 e.7.1.1 73813 1vr6A 350 3.59e-01 c.1.10.4 120439 1aky 221 3.73e-01 1zin 2b06A 155 3.81e-01 d.113.1.1 127624 2bcfA 276 3.91e-01 1i12A 160 4.01e-01 1i21A d.108.1.1 61515 1yb2A 275 4.08e-01 c.66.1.13 122868 1vkcA 158 4.10e-01 d.108.1.1 113663 1iz6A 138 4.12e-01 b.34.5.2,b.40.4.5 76976,76977 2cyjA 118 4.12e-01 c.103.1.1 131026 1zvnA 99 4.27e-01 1x7yA 400 4.35e-01 c.36.1.11 114944 1tr0A 108 4.37e-01 d.58.4.4 107261 1ov9A 50 4.39e-01 a.155.1.1 93591 2cxcA 144 4.47e-01 1fcqA 350 4.68e-01 c.1.8.9 65006 1sqhA 312 4.92e-01 d.108.1.5 98966 1qwyA 291 4.92e-01 b.84.3.2 96509 1xmxA 385 4.93e-01 c.52.1.26 115568 1t6gC 184 4.99e-01 b.29.1.11 106569 2g84A 197 5.07e-01 c.97.1.2 134766 2bfdA 400 5.13e-01 1t5rA 284 5.33e-01 f.6.1.1 106465 1v9kA 228 5.47e-01 d.265.1.3 108449 1wy0A 342 5.53e-01 1ifqA 138 5.64e-01 1ifqA d.110.4.1 62350 1yqyA 523 5.75e-01 d.92.1.14,d.166.1.1 123903,123904 1io1A 398 6.13e-01 1io1A e.32.1.1 62611 1h6lA 353 6.28e-01 b.68.3.1 60687 1mswD 883 6.29e-01 e.8.1.3 79427 1vggA 161 6.31e-01 d.256.1.1 113647 1rzfH 235 6.81e-01 b.1.1.1,b.1.1.2 98150,98151 1dq3A 454 6.85e-01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1qmvA 197 6.94e-01 1qq2A c.47.1.10 33066 1o04A 500 7.21e-01 c.82.1.1 86508 2gjgA 248 7.28e-01 2bnuA 203 7.29e-01 1at0 145 7.38e-01 1at0 1s4uX 407 7.40e-01 b.69.4.1 112027 1obbA 480 7.59e-01 c.2.1.5,d.162.1.2 86760,86761 1zxmA 400 7.73e-01 1ykuA 136 7.76e-01 1uwvA 433 7.81e-01 b.40.4.12,c.66.1.40 100128,100129 2essA 248 7.91e-01 d.38.1.8,d.38.1.8 132346,132347 1nr0A 611 8.03e-01 b.69.4.1,b.69.4.1 86078,86079 1wqaA 455 8.07e-01 1tuaA 191 8.13e-01 d.51.1.1,d.51.1.1 107321,107322 1xtpA 254 8.50e-01 c.66.1.42 116031 2h4uA 145 8.51e-01 d.38.1.5 136082 1nrjA 158 8.55e-01 d.110.4.4 86124 1jvbA 347 8.63e-01 b.35.1.2,c.2.1.1 77181,77182 1w6sA 599 8.88e-01 b.70.1.1 114284 1a2yB 116 8.88e-01 1gc1H b.1.1.1 19927 1oalA 151 8.89e-01 b.1.8.1 86739 1xm8A 254 8.94e-01 d.157.1.2 115475 1mlwA 301 9.04e-01 d.178.1.1 79289 1uebA 184 9.06e-01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1ugiA 84 9.54e-01 1ugiA d.17.5.1 38125 1y4wA 518 9.78e-01 b.29.1.19,b.67.2.3 116470,116471 2cdnA 201 9.80e-01 c.37.1.1 130289 1cruA 454 9.82e-01 1c9uA b.68.2.1 27617 1gp0A 143 9.87e-01 b.64.1.1 70300 1crzA 403 1.01e+00 1crzA b.68.4.1,c.51.2.1 27629,33211 1vkmA 297 1.04e+00 c.138.1.1 108670 1em2A 229 1.06e+00 1em2A d.129.3.2 41321 1muwA 386 1.08e+00 c.1.15.3 79495 1v3wA 173 1.09e+00 b.81.1.5 100291 1w79A 489 1.12e+00 e.3.1.3 120680 1r2zA 274 1.15e+00 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1pvgA 418 1.18e+00 d.14.1.3,d.122.1.2 95161,95162 1iicA 422 1.18e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 1xw3A 110 1.25e+00 1kl9A 182 1.26e+00 a.60.14.1,b.40.4.5 111574,111575 2g0wA 296 1.29e+00 c.1.15.4 134503 1quqB 121 1.29e+00 1quqB b.40.4.3 25305 1sh8A 154 1.31e+00 d.38.1.5 105549 1uacH 114 1.33e+00 b.1.1.1 99132 1ko6A 187 1.34e+00 b.119.1.1 77471 3tdt 274 1.34e+00 3tdt 1kveB 77 1.36e+00 1kveB 1a1x 108 1.36e+00 1a1x 1zeqX 84 1.36e+00 1agjA 242 1.37e+00 1agjA b.47.1.1 25827 1d4oA 184 1.39e+00 1d4oA c.31.1.4 31748 1qd1A 325 1.40e+00 1qd1A d.58.34.1,d.58.34.1 39493,39494 1rjoA 646 1.41e+00 b.30.2.1,d.17.2.1,d.17.2.1 111832,111833,111834 1wvqA 167 1.42e+00 1w6gA 646 1.42e+00 b.30.2.1,d.17.2.1,d.17.2.1 120660,120661,120662 1n91A 108 1.42e+00 d.206.1.1 80326 1z41A 338 1.43e+00 c.1.4.1 124421 1yzsA 121 1.44e+00 1uanA 227 1.45e+00 c.134.1.1 99135 1nf2A 268 1.45e+00 c.108.1.10 91849 1yqtA 538 1.47e+00 1ekrA 161 1.48e+00 1ekrA d.58.21.1 39380 1ri6A 343 1.50e+00 b.69.11.1 97503 1g6aA 271 1.54e+00 1btl e.3.1.1 42704 1bhtA 176 1.55e+00 1bhtA g.10.1.1,g.14.1.1 44603,44663 1ylkA 172 1.55e+00 1q4rA 112 1.56e+00 d.58.4.4 95823 1t0hB 224 1.59e+00 c.37.1.1 106208 2iwaA 266 1.66e+00 1i2sA 282 1.67e+00 e.3.1.1 71104 1t6aA 126 1.69e+00 d.129.8.1 106555 1hbkA 94 1.72e+00 1aca a.11.1.1 60887 1m6kA 251 1.75e+00 e.3.1.1 78695 1gwmA 153 1.75e+00 b.18.1.19 83348 1d0cA 444 1.76e+00 d.174.1.1 64769 1of5A 221 1.78e+00 d.17.4.2 86933 1yqzA 438 1.80e+00 1y14A 187 1.80e+00 a.60.8.2 116322 2fckA 181 1.82e+00 d.108.1.1 133272 1kugA 203 1.83e+00 d.92.1.9 73008 1ktbA 405 1.84e+00 b.71.1.1,c.1.8.1 72960,72961 1u84A 90 1.84e+00 a.230.1.1 113114 1kufA 203 1.85e+00 d.92.1.9 73007 1sdjA 310 1.86e+00 d.21.1.2,d.21.1.2 98807,98808 1pl4A 198 1.86e+00 a.2.11.1,d.44.1.1 94854,94855 1ig5A 75 1.87e+00 4icb a.39.1.1 62363 1x8qA 184 1.88e+00 b.60.1.1 114966 1tqzA 133 1.91e+00 b.55.1.11 119327 1jovA 270 1.97e+00 b.30.5.7 84192 1mo9A 523 1.97e+00 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1j6qA 136 2.02e+00 b.40.9.1 77091 2gc9A 179 2.05e+00 b.60.1.6 134972 2jdxA 385 2.06e+00 1jdw d.126.1.2 41139 1ifc 132 2.08e+00 1mqkH 127 2.09e+00 b.1.1.1 85053 1q7fA 286 2.10e+00 b.68.9.1 96036 1mdc 133 2.11e+00 1hmt 1svdM 110 2.12e+00 d.73.1.1 119059 1pjxA 314 2.14e+00 b.68.6.1 104167 1ncwH 222 2.15e+00 b.1.1.1,b.1.1.2 85555,85556 1ynlH 219 2.15e+00 1wi6A 88 2.16e+00 d.58.7.1 120974 2f57A 317 2.18e+00 1e5pA 151 2.19e+00 1bj7 b.60.1.1 59272 1qx2A 76 2.21e+00 a.39.1.1 104622 2fhzB 108 2.24e+00 d.243.1.2 133506 1wznA 252 2.25e+00 c.66.1.43 121525 1pmnA 364 2.25e+00 d.144.1.7 94907 1p7gA 222 2.26e+00 a.2.11.1,d.44.1.1 94223,94224 1r4xA 275 2.28e+00 b.1.10.3,d.105.1.2 97054,97055 1orvA 728 2.32e+00 b.70.3.1,c.69.1.24 87354,87355 1g5cA 170 2.34e+00 1g5cA c.53.2.1 60264 1k8wA 327 2.36e+00 b.122.1.1,d.265.1.2 83094,90388 1kutA 230 2.42e+00 d.143.1.1 73017 1h7sA 365 2.44e+00 d.14.1.3,d.122.1.2 65705,65706 2bcjB 340 2.44e+00 b.69.4.1 128289 1up8A 598 2.44e+00 a.111.1.2 99710 1xbiA 120 2.45e+00 d.79.3.1 121840 1mvfA 135 2.46e+00 b.1.1.1 85141 1kb0A 677 2.47e+00 a.3.1.6,b.70.1.1 68378,68379 1qyaA 307 2.47e+00 d.21.1.2,d.21.1.2 104653,104654 2dkaA 544 2.47e+00 1bob 320 2.48e+00 1bob 1dosA 358 2.49e+00 1dosA c.1.10.2 29175 1dlfH 124 2.51e+00 1igtB b.1.1.1 20383 1i8nA 126 2.51e+00 1i8nA g.10.1.2 61976 1h5wA 309 2.52e+00 e.27.1.1 65635 1go3E 187 2.52e+00 b.40.4.5,d.230.1.1 83054,83055 1zgkA 308 2.57e+00 1zhhB 242 2.60e+00 1vpqA 273 2.61e+00 c.1.32.1 113974 1cdzA 96 2.63e+00 1cdzA c.15.1.1 30925 1bsg 266 2.65e+00 1btl 2bf6A 449 2.66e+00 2dfkA 402 2.67e+00 2a3qA 170 2.69e+00 a.204.1.2 126092 1mi3A 322 2.74e+00 c.1.7.1 91274 1yfqA 342 2.75e+00 b.69.4.2 116680 1zmeC 70 2.75e+00 1zmeC g.38.1.1,h.1.3.1 45081,45514 1s4bP 674 2.76e+00 d.92.1.5 105252 1rypD 241 2.77e+00 1rypD d.153.1.4 41935 1y2tA 142 2.78e+00 b.97.1.2 116407 1gotB 340 2.80e+00 1tbgA b.69.4.1 27648 1x38A 602 2.81e+00 c.1.8.7,c.23.11.1 121655,121656 2fsrA 195 2.82e+00 d.108.1.1 134036 1sdsA 117 2.87e+00 d.79.3.1 105439 1s7iA 124 2.90e+00 d.58.4.9 105353 1o58A 303 2.90e+00 c.79.1.1 92491 5csmA 256 2.92e+00 5csmA a.130.1.2 19494 1sq2N 113 2.96e+00 b.1.1.1 105881 1aisA 182 2.99e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1x9mA 698 3.02e+00 c.55.3.5,e.8.1.1 114999,115000 1fwxA 595 3.03e+00 b.6.1.4,b.69.3.1 60069,60070 1x6oA 174 3.06e+00 b.34.5.2,b.40.4.5 109493,109494 1iq5B 27 3.11e+00 1ocsA 162 3.12e+00 d.189.1.1 92776 1wr2A 238 3.15e+00 1q0xH 221 3.15e+00 b.1.1.1,b.1.1.2 95517,95518 2an3A 289 3.16e+00 c.66.1.15 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