# List of top-scoring protein chains for t2k-100-30-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 1na3A 91 3.49e-13 k.38.1.1 85481 1elwA 118 1.11e-11 1a17 a.118.8.1 19207 1xnfA 275 3.75e-11 2avpA 70 3.75e-11 1a17 166 5.34e-11 1a17 a.118.8.1 19206 2fbnA 198 2.10e-10 1fchA 368 3.12e-10 1fchA a.118.8.1 19212 1elrA 131 5.36e-10 1a17 a.118.8.1 19209 1wm5A 208 8.73e-10 1e96B 203 1.54e-09 1e96B a.118.8.1 19211 1hh8A 213 1.82e-09 1e96B a.118.8.1 61042 1ihgA 370 8.56e-09 2cpl a.118.8.1,b.62.1.1 62380,62381 1hz4A 373 4.50e-06 a.118.8.2 65960 1qqeA 292 2.03e-04 1qqeA a.118.8.1 19210 1hxiA 121 3.75e-04 1hxiA a.118.8.1 61366 1qbqA 333 6.30e-04 1ft1A a.118.6.1 19187 1ouvA 273 9.73e-04 a.118.18.1 93570 1jcqA 382 1.31e-03 a.118.6.1 66504 1tn6A 382 1.60e-03 1ld8A 382 1.62e-03 a.118.6.1 73838 1jcrA 377 2.02e-03 a.118.6.1 66506 1d8dA 377 2.20e-03 1ft1A a.118.6.1 19185 1ft1A 377 2.55e-03 1ft1A a.118.6.1 19186 2ff4A 388 3.67e-03 1iygA 133 2.11e-02 a.118.8.1 76947 1nznA 126 3.42e-02 a.118.8.1 92382 1zbpA 273 4.17e-02 1om2A 95 1.34e-01 1om2A a.23.4.1 16520 2fnaA 357 2.92e-01 1wt4A 73 3.14e-01 1wy6A 172 4.02e-01 2crbA 97 4.48e-01 1klxA 138 5.81e-01 a.118.18.1 77440 1dceA 567 6.17e-01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1v8fA 276 1.59e+00 c.26.1.4 100503 1orjA 130 1.87e+00 a.24.19.1 93456 1h6oA 204 1.95e+00 a.146.1.1 60689 1wvfA 520 1.99e+00 1ei5A 520 2.26e+00 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1b89A 449 2.50e+00 1b89A a.118.1.3 19138 1wfdA 93 2.80e+00 1f89A 291 3.24e+00 d.160.1.1 64988 1fjgT 106 4.28e+00 1fjfT a.7.6.1 16338 2br9A 234 4.32e+00 1t6lA 290 5.26e+00 d.131.1.2,d.131.1.2 106574,106575 2f5tX 233 5.53e+00 2b05A 246 6.62e+00 2ap1A 327 6.87e+00 1n4qB 377 8.39e+00 a.102.4.3 91636 1ockA 412 8.40e+00 c.117.1.1 86802 2a2mA 258 8.98e+00 2a2oA 258 9.06e+00 1yc9A 442 1.05e+01 1cj5A 162 1.07e+01 1bebA b.60.1.1 27124 1b26A 416 1.08e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 1h70A 255 1.10e+01 1h70A d.126.1.3 60711 2tpt 440 1.21e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1b43A 340 1.24e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 2fn4A 181 1.25e+01 1qsaA 618 1.26e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1f9zA 135 1.28e+01 1qipA d.32.1.1 38484 1o20A 427 1.28e+01 c.82.1.1 86556 1zzmA 259 1.35e+01 1b3bA 415 1.37e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1fa8A 135 1.42e+01 1qipA d.32.1.1 38486 1bvoA 175 1.43e+01 1a3qA b.2.5.3 22457 1pczA 191 1.47e+01 1ytbA d.129.1.1,d.129.1.1 41292,41293 1qjaA 245 1.49e+01 1qjaA a.118.7.1 19204 1sly 618 1.52e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1o17A 345 1.65e+01 a.46.2.1,c.27.1.1 80765,80766 1bpoA 494 1.89e+01 1bpoA a.118.1.4,b.69.6.1 19143,27670 2awpA 198 1.92e+01 176lA 164 1.98e+01 1l92 d.2.1.3 36942 1o9gA 250 2.23e+01 c.66.1.29 86692 1m7vA 363 2.24e+01 d.174.1.1 78748 1ub0A 258 2.28e+01 c.72.1.2 88394 1emy 153 2.32e+01 1a6m a.1.1.2 15204 2d00A 109 2.44e+01 1dkvA 699 2.47e+01 1dkvA 1kfuL 699 2.59e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1b8eA 162 2.65e+01 1bebA b.60.1.1 59077 1chuA 540 2.70e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1qq7A 253 2.77e+01 1qq5A c.108.1.1 43329 158l 164 2.82e+01 1l92 d.2.1.3 36747 167lA 164 2.82e+01 1l92 d.2.1.3 36937 1li5B 461 2.86e+01 a.27.1.1,c.26.1.1 73914,73915 1z5rA 306 2.87e+01 1zb1A 392 2.89e+01 1p36A 164 2.96e+01 d.2.1.3 93978 1gw5B 591 3.08e+01 a.118.1.10 70630 1l8dA 112 3.12e+01 h.4.12.1 73687 1z57A 339 3.13e+01 157l 164 3.18e+01 1l92 d.2.1.3 36717 2fdsA 352 3.23e+01 1rcd 173 3.26e+01 2fha a.25.1.1 16687 1v54M 46 3.29e+01 f.23.7.1 100334 2occM 46 3.29e+01 2occM f.23.7.1 43527 2aioA 269 3.39e+01 1s9uA 207 3.43e+01 a.184.1.1 105390 2c3nA 247 3.47e+01 1w0dA 337 3.53e+01 1ed1A 135 3.53e+01 1hiwA a.61.1.1 18130 1bax 94 3.53e+01 1bax a.61.1.3 18133 1bebA 162 3.60e+01 1bebA b.60.1.1 27115 1zkrA 153 3.61e+01 2jdxA 385 3.62e+01 1jdw d.126.1.2 41139 1wv2A 265 3.65e+01 2aqwA 332 3.67e+01 1r092 262 3.74e+01 1aym2 177l 164 3.84e+01 1l92 d.2.1.3 36958 1lw9A 164 3.88e+01 d.2.1.3 84727 164l 164 3.95e+01 1l92 d.2.1.3 36714 2eu9A 355 3.98e+01 165l 164 4.04e+01 1l92 d.2.1.3 36680 1a1z 91 4.12e+01 1a1z a.77.1.4 18427 1a1w 91 4.14e+01 1a1z a.77.1.4 18425 1dtyA 429 4.22e+01 1dtyA c.67.1.4 34495 109l 164 4.24e+01 1l92 d.2.1.3 36781 1nbwA 607 4.40e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1y21A 282 4.41e+01 155l 164 4.42e+01 1l92 d.2.1.3 36762 1qkkA 155 4.42e+01 1dbwA c.23.1.1 31104 1aoa 275 4.43e+01 1aoa a.40.1.1,a.40.1.1 17396,17397 1nfvA 179 4.44e+01 a.25.1.1 85642 1l5zA 155 4.45e+01 c.23.1.1 77722 138l 164 4.51e+01 1l92 d.2.1.3 36679 1td2A 287 4.52e+01 c.72.1.5 106765 1k1gA 131 4.54e+01 d.51.1.1 68015 175lA 164 4.56e+01 1l92 d.2.1.3 36924 1si6X 282 4.56e+01 123l 164 4.61e+01 1l92 d.2.1.3 36697 1qq5A 253 4.62e+01 1qq5A c.108.1.1 43327 1k8kG 151 4.63e+01 a.118.13.1 68313 2ewrA 170 4.70e+01 1hu3A 260 4.71e+01 1hu3A a.118.1.14 19137 1tdj 514 4.81e+01 1tdj c.79.1.1,d.58.18.2,d.58.18.2 35297,39356,39357 1qg0A 308 4.83e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1u5kA 244 4.84e+01 2g2dA 193 4.84e+01 1em2A 229 4.98e+01 1em2A d.129.3.2 41321 1mr3F 181 5.00e+01 c.37.1.8 79422 130l 164 5.02e+01 1l92 d.2.1.3 36638 151l 164 5.04e+01 1l92 d.2.1.3 36944 1tpt 440 5.06e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17763,31627,38625 1smlA 269 5.06e+01 1smlA d.157.1.1 42053 143l 164 5.12e+01 1l92 d.2.1.3 36857 126l 164 5.18e+01 1l92 d.2.1.3 36699 127l 164 5.19e+01 d.2.1.3 36745 1ffyA 917 5.21e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1qu2A 917 5.21e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16925,26890,31592 1ntfA 282 5.23e+01 d.151.1.2 92104 166l 164 5.24e+01 1l92 d.2.1.3 36681 1ylkA 172 5.26e+01 1xrkA 124 5.26e+01 1li5A 461 5.26e+01 a.27.1.1,c.26.1.1 73912,73913 139l 164 5.27e+01 1l92 d.2.1.3 36643 162l 164 5.28e+01 1l92 d.2.1.3 36749 161l 164 5.32e+01 1l92 d.2.1.3 36636 1zclA 180 5.32e+01 1efuB 282 5.33e+01 1efuB d.43.1.1,a.5.2.2,d.43.1.1 38677,58975,58976 1x24A 180 5.34e+01 141l 164 5.35e+01 1l92 d.2.1.3 36863 131l 164 5.36e+01 1l92 d.2.1.3 36685 160l 164 5.37e+01 1l92 d.2.1.3 36748 115l 164 5.39e+01 1l92 d.2.1.3 36700 197l 164 5.43e+01 1l92 d.2.1.3 36911 1muyA 225 5.49e+01 1mun a.96.1.2 18745 168lA 164 5.52e+01 1l92 d.2.1.3 36975 1vi9A 299 5.54e+01 c.72.1.5 100750 171l 164 5.54e+01 1l92 d.2.1.3 36962 1aq6A 253 5.54e+01 1qq5A c.108.1.1 43331 147l 164 5.70e+01 1l92 d.2.1.3 36864 1u9cA 224 5.73e+01 170l 164 5.73e+01 1l92 d.2.1.3 36968 111l 164 5.74e+01 1l92 d.2.1.3 36661 198l 164 5.83e+01 1l92 d.2.1.3 36785 1zckA 154 5.88e+01 1jbwA 428 5.89e+01 c.59.1.2,c.72.2.2 62860,62861 1v1aA 309 5.93e+01 c.72.1.1 100249 122l 164 5.94e+01 1l92 d.2.1.3 36667 2b6hA 192 6.01e+01 114l 164 6.05e+01 1l92 d.2.1.3 36663 1moh 142 6.08e+01 1flp a.1.1.2 15012 1jbiA 100 6.13e+01 d.209.1.1 66481 173l 164 6.16e+01 1l92 d.2.1.3 36728 1jf3A 147 6.17e+01 a.1.1.2 71642 149l 164 6.20e+01 1l92 d.2.1.3 36959 172l 164 6.20e+01 1l92 d.2.1.3 36905 1f48A 589 6.23e+01 1f48A c.37.1.10,c.37.1.10 32280,32281 1snyA 267 6.31e+01 c.2.1.2 105833 2cg4A 152 6.34e+01 1xqsA 280 6.36e+01 156l 164 6.38e+01 1l92 d.2.1.3 36709 1uvjA 664 6.44e+01 e.8.1.6 100045 1qjbA 245 6.48e+01 1qjaA a.118.7.1 19202 1m1hA 248 6.51e+01 b.114.1.1,d.58.42.1 78415,78416 113l 164 6.54e+01 1l92 d.2.1.3 36678 118l 164 6.54e+01 1l92 d.2.1.3 36642 1g0cA 364 6.57e+01 7a3hA c.1.8.3 60165 1tam 132 6.59e+01 1hiwA a.61.1.1 18128 108l 164 6.64e+01 1l92 d.2.1.3 36669 142l 164 6.65e+01 1l92 d.2.1.3 36874 1l2lA 457 6.71e+01 c.72.1.3 77656 140l 164 6.72e+01 1l92 d.2.1.3 36891 125l 164 6.73e+01 1l92 d.2.1.3 36672 1l92 164 6.76e+01 1l92 d.2.1.3 36629 169lA 164 6.91e+01 1l92 d.2.1.3 36963 1xqrA 296 6.93e+01 1aye 401 6.94e+01 1aye c.56.5.1,d.58.3.1 33824,39065 1hg3A 225 7.01e+01 1hg3A c.1.1.1 61025 2occE 109 7.01e+01 2occE a.118.11.1 19224 2ezxA 89 7.05e+01 1qckA a.60.5.1 17978 195l 164 7.07e+01 1l92 d.2.1.3 36841 145l 164 7.12e+01 1l92 d.2.1.3 36860 159l 164 7.23e+01 1l92 d.2.1.3 36682 1puoA 170 7.26e+01 a.101.1.1,a.101.1.1 95134,95135 1dtdA 303 7.28e+01 1aye c.56.5.1 33823 1tr9A 341 7.37e+01 1qckA 89 7.40e+01 1qckA a.60.5.1 17976 1v54E 109 7.41e+01 a.118.11.1 100326 189l 164 7.42e+01 1l92 d.2.1.3 36960 1fnc 314 7.46e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1hiwA 133 7.48e+01 1hiwA a.61.1.1 18122 1g01A 364 7.48e+01 7a3hA c.1.8.3 60161 199l 164 7.53e+01 1l92 d.2.1.3 36855 1aisA 182 7.70e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1liuA 528 7.74e+01 b.58.1.1,c.1.12.1,c.49.1.1 77970,77971,77972 1fnd 314 7.78e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1dc7A 124 7.78e+01 1dbwA c.23.1.1 31093 1wxcA 281 7.80e+01 129l 164 7.82e+01 1l92 d.2.1.3 36660 146l 164 7.83e+01 1l92 d.2.1.3 36763 1inzA 148 7.94e+01 1eduA a.118.9.1 62610 107l 164 8.00e+01 1l92 d.2.1.3 36690 2d9iA 96 8.03e+01 1flp 142 8.10e+01 1flp a.1.1.2 15011 1sx7A 164 8.12e+01 1rxdA 159 8.13e+01 2a6hA 315 8.18e+01 1bjnA 360 8.22e+01 1bjnA c.67.1.4 34469 110l 164 8.27e+01 1l92 d.2.1.3 36684 1b6iA 164 8.33e+01 1l92 d.2.1.3 36945 1bjoA 360 8.34e+01 1bjnA c.67.1.4 34471 2minA 491 8.40e+01 1qguA c.92.2.3 35609 1brwA 433 8.45e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1qupA 222 8.48e+01 1qupA b.1.8.1,d.58.17.1 22301,39352 1hurA 180 8.55e+01 1hurA c.37.1.8 32052 1bb3A 130 8.63e+01 3lzt d.2.1.2 36544 1pwhA 327 8.70e+01 c.79.1.1 95224 1mun 225 8.72e+01 1mun a.96.1.2 18744 1qh8A 478 8.77e+01 1qguA c.92.2.3 35633 128l 164 8.79e+01 1l92 d.2.1.3 36634 1twuA 139 8.81e+01 d.32.1.8 107413 1qahA 136 8.87e+01 d.79.1.1 96338 1vkmA 297 8.93e+01 c.138.1.1 108670 1pq4A 291 8.98e+01 c.92.2.2 94995