# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 6gsvA 217 2.11e-01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1h6zA 913 2.21e-01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1tbmA 326 2.87e-01 a.211.1.2 106744 1ihp 438 3.27e-01 1ihp c.60.1.2 33993 1efcA 393 4.07e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1bd8 156 4.35e-01 1bd8 d.211.1.1 19157 1efuA 385 4.76e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1myo 118 4.83e-01 2myo d.211.1.1 19174 2myo 118 5.08e-01 2myo d.211.1.1 19175 1sz2A 332 6.31e-01 2furA 209 6.75e-01 1q18A 332 7.75e-01 c.55.1.7,c.55.1.7 104470,104471 1ufaA 520 8.98e-01 a.8.3.3,c.6.2.4 99329,99330 1zd3A 555 1.13e+00 1eemA 241 1.29e+00 1eemA a.45.1.1,c.47.1.5 17717,33011 1cr6B 554 1.37e+00 1cr6B c.69.1.11,c.108.1.2 34688,43338 1zejA 293 1.57e+00 1jpaA 312 1.68e+00 d.144.1.7 67011 1vj5A 555 1.75e+00 c.108.1.2,c.69.1.11 100799,100800 1p4dA 330 1.76e+00 d.89.1.5 94101 1m98A 317 1.77e+00 a.175.1.1,d.17.4.6 78866,78867 1xw5A 217 1.91e+00 1w1oA 534 1.93e+00 d.58.32.4,d.145.1.1 109071,109072 1kblA 873 1.93e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1qrjB 199 1.98e+00 1qrjB a.28.3.1 16952 2c4jA 218 2.11e+00 1x1fA 149 2.12e+00 1etu 394 2.42e+00 1efcA c.37.1.8 64737 1qfxA 460 2.46e+00 1qfxA c.60.1.2 33994 1x6vA 630 2.61e+00 1y3nA 490 2.97e+00 1ni3A 392 3.14e+00 c.37.1.8,d.15.10.2 80531,80532 1b4pA 217 3.65e+00 a.45.1.1,c.47.1.5 83158,83159 1zv1A 65 3.81e+00 1fsu 492 4.28e+00 1auk c.76.1.2 35032 1sszA 34 4.34e+00 j.35.1.1 105999 2mev2 256 4.37e+00 1aym2 2afwA 329 4.51e+00 1s6lA 212 4.76e+00 2fiyA 309 4.93e+00 1z2nX 324 5.40e+00 1n1jA 93 5.86e+00 a.22.1.3 79813 1b8aA 438 6.07e+00 1b8aA b.40.4.1,d.104.1.1 25244,40765 2fh1A 344 6.68e+00 1nd7A 374 6.71e+00 d.148.1.1 91817 2es9A 115 6.87e+00 1p8xA 344 6.99e+00 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1zboA 210 7.02e+00 1jb0I 38 7.10e+00 1jb0I f.23.17.1 62826 2fu4A 83 7.10e+00 1br1B 150 7.22e+00 1wdcC a.39.1.5 17309 1jhdA 396 7.50e+00 b.122.1.3,c.26.1.5 66712,66713 2b1eA 564 8.16e+00 1dik 874 8.49e+00 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1im5A 180 8.73e+00 c.33.1.3 66211 1ycsB 239 8.80e+00 1ycsB d.211.1.1,b.34.2.1 19155,24553 1x74A 360 8.89e+00 1hdiA 413 9.26e+00 16pk c.86.1.1 60964 1d5wC 126 9.35e+00 1dbwA c.23.1.1 31101 1r6uA 437 9.37e+00 c.26.1.1 97163 1h3nA 878 9.69e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1gewA 356 9.78e+00 1gewA c.67.1.1 60470 2iu5A 195 9.90e+00 1v1rA 400 1.05e+01 c.36.1.11 108272 1ohfA 644 1.07e+01 b.121.4.8 93014 1d0nA 729 1.07e+01 1d0nA d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1 40834,40835,40836,40837,40838,40839 1v9jA 113 1.09e+01 d.52.6.1 100542 1zq9A 285 1.15e+01 1z6uA 150 1.16e+01 1mzbA 136 1.22e+01 a.4.5.42 91497 1qwoA 442 1.22e+01 c.60.1.2 104620 1t1uA 639 1.36e+01 1i9gA 280 1.40e+01 c.66.1.13 62090 1h2vC 771 1.41e+01 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 1qmzB 259 1.41e+01 1vin a.74.1.1,a.74.1.1 18338,18339 2ccmA 191 1.49e+01 1n2fA 142 1.52e+01 d.227.1.1 79853 2fqmA 75 1.52e+01 1k6iA 352 1.54e+01 c.2.1.2 68223 1vi0A 206 1.57e+01 a.4.1.9,a.121.1.1 100720,100721 1sq5A 308 1.59e+01 c.37.1.6 105882 1whrA 124 1.60e+01 1qd9A 124 1.60e+01 1qu9A d.79.1.1 39758 1yw0A 276 1.61e+01 1q87A 221 1.64e+01 e.47.1.1 96192 2esnA 310 1.64e+01 1dd5A 185 1.65e+01 1dd5A d.67.3.1 39564 2ewcA 126 1.68e+01 1fhuA 320 1.70e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 2f96A 224 1.71e+01 1gcqC 70 1.72e+01 1gcpA b.34.2.1 60436 1llmC 88 1.76e+01 g.37.1.1,g.37.1.1 91059,91060 1ppjF 110 1.77e+01 f.27.1.1 104262 1trrA 107 1.78e+01 1jhgA a.4.12.1 19017 1m3uA 264 1.78e+01 c.1.12.8 84784 1tkeA 224 1.79e+01 2bbrA 195 1.81e+01 3mhtA 327 1.86e+01 6mhtA c.66.1.26 34234 1fg7A 356 1.89e+01 1gewA c.67.1.1 59819 2cchB 260 1.96e+01 1cn4C 166 1.99e+01 1eerA a.26.1.2 16847 1hmy 327 2.02e+01 6mhtA c.66.1.26 34229 1ad3A 452 2.02e+01 1ad3A c.82.1.1 35335 1zbfA 142 2.04e+01 1z00B 84 2.05e+01 1p4cA 380 2.06e+01 c.1.4.1 94100 1huvA 380 2.07e+01 c.1.4.1 61277 1no1A 126 2.12e+01 a.179.1.1 85913 1x91A 153 2.13e+01 1kpsB 171 2.13e+01 a.118.12.1 68787 1de6A 426 2.14e+01 1de5A c.1.15.2 29398 2gsvA 80 2.16e+01 1dbwA 126 2.19e+01 1dbwA c.23.1.1 31095 2b7aA 293 2.30e+01 2wrpR 107 2.30e+01 1jhgA a.4.12.1 19010 1ds1A 324 2.31e+01 1drtA b.82.2.2 28127 1hp5A 512 2.34e+01 1hp4A c.1.8.6,d.92.2.1 61113,61114 1dryA 324 2.34e+01 1drtA b.82.2.2 28128 1x7yA 400 2.36e+01 1im8A 244 2.38e+01 c.66.1.14 66212 1n3gA 113 2.39e+01 d.204.1.1 79962 1d8wA 426 2.41e+01 1de5A c.1.15.2 29394 1jhgA 101 2.44e+01 1jhgA a.4.12.1 19009 1mgpA 313 2.53e+01 c.119.1.1 79098 1s7jA 262 2.53e+01 d.21.1.2 98647 1jmtB 28 2.64e+01 1fjxA 327 2.67e+01 6mhtA c.66.1.26 34228 1okcA 297 2.76e+01 f.42.1.1 93248 1n0qA 93 2.76e+01 k.37.1.1 79754 2g6tA 306 2.80e+01 1qh4A 380 2.81e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 2csbA 519 2.82e+01 1jk8B 190 2.84e+01 1iakB b.1.1.2,d.19.1.1 63147,63148 1e08A 371 2.84e+01 i.4.1.1 45914 1f7uA 607 2.84e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1m6kA 251 2.87e+01 e.3.1.1 78695 1dckA 126 2.88e+01 1dbwA c.23.1.1 31097 1rcsA 105 2.88e+01 1jhgA a.4.12.1 19025 1hy3A 294 2.90e+01 c.37.1.5 71090 1g3mA 294 2.96e+01 c.37.1.5 83268 2f1sA 186 2.96e+01 1kk6A 209 3.01e+01 b.81.1.3 68657 8ohm 435 3.08e+01 1heiA c.37.1.14,c.37.1.14 32469,32470 1ewqA 765 3.08e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1n1fA 159 3.10e+01 a.26.1.3 79803 1bgp 309 3.14e+01 1bgp a.93.1.1 18690 1vin 268 3.17e+01 1vin a.74.1.1,a.74.1.1 18354,18355 1ap7 168 3.19e+01 1bd8 d.211.1.1 19170 1ihbA 162 3.19e+01 1bd8 d.211.1.1 19161 1jae 471 3.22e+01 1smd b.71.1.1,c.1.8.1 27773,28760 2c7pA 327 3.22e+01 1tqyB 415 3.23e+01 c.95.1.1,c.95.1.1 107247,107248 2fmcA 82 3.24e+01 1mr7A 209 3.26e+01 b.81.1.3 91430 1noyA 388 3.26e+01 1clqA c.55.3.5 33713 1hbzA 498 3.30e+01 1cf9A e.5.1.1 60937 1fehA 574 3.31e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1umgA 362 3.44e+01 d.280.1.1 107956 6mhtA 327 3.45e+01 6mhtA c.66.1.26 34226 1t92A 116 3.45e+01 1zxkA 98 3.53e+01 1bquA 215 3.56e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 1de5A 426 3.58e+01 1de5A c.1.15.2 29402 2gdjA 264 3.60e+01 1uohA 226 3.63e+01 d.211.1.1 99690 1buyA 166 3.64e+01 1eerA a.26.1.2 16848 1sra 151 3.66e+01 1sra a.39.1.3 17190 1gweA 503 3.67e+01 e.5.1.1 70667 1xgkA 352 3.71e+01 1d6gA 47 3.78e+01 1d6gA g.33.1.1 44976 1ddzA 496 3.85e+01 1ddzA c.53.2.1,c.53.2.1 33372,33373 1hp4A 512 3.90e+01 1hp4A c.1.8.6,d.92.2.1 61111,61112 1zrzA 364 3.91e+01 1jakA 512 3.94e+01 c.1.8.6,d.92.2.1 66472,66473 2cygA 312 3.95e+01 2fgtA 417 3.97e+01 1skf 262 4.02e+01 1skf e.3.1.1 42684 1xmeA 568 4.06e+01 1rh9A 373 4.07e+01 1v9mA 323 4.10e+01 f.40.1.1 100543 1sheA 103 4.18e+01 d.274.1.1 105551 1esiA 262 4.20e+01 1skf e.3.1.1 42682 1es5A 262 4.23e+01 1skf e.3.1.1 42679 1ufzA 83 4.27e+01 a.5.9.1 107821 1ordA 730 4.28e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31274,34503,41124 1qwyA 291 4.33e+01 b.84.3.2 96509 1n1jB 97 4.36e+01 a.22.1.3 79814 1z6gA 218 4.37e+01 1ut7A 171 4.40e+01 b.143.1.1 99906 2lefA 86 4.46e+01 2lefA a.21.1.1 16433 1axdA 209 4.52e+01 1gnwA a.45.1.1,c.47.1.5 17730,33024 2b33A 140 4.53e+01 1us5A 314 4.60e+01 c.94.1.1 99856 1j3gA 187 4.65e+01 d.118.1.1 77075 1h9eA 56 4.65e+01 1h9eA a.140.1.1 60825 1m6jA 261 4.68e+01 c.1.1.1 78693 1g7oA 215 4.68e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 2ac5A 316 4.69e+01 1bdg 451 4.76e+01 1qhaA c.55.1.3,c.55.1.3 33461,33462 1iw7C 1119 4.81e+01 e.29.1.1 71474 1aab 83 4.85e+01 1cktA a.21.1.1 16420 1ituA 369 4.87e+01 c.1.9.7 71423 1kfuS 184 4.89e+01 a.39.1.8 68574 1yozA 116 4.95e+01 2fb6A 117 4.96e+01 1a1w 91 4.96e+01 1a1z a.77.1.4 18425 1mp8A 281 4.97e+01 d.144.1.7 91384 1ba1 386 4.99e+01 1ba1 c.55.1.1,c.55.1.1 33387,33388 1yy7A 213 5.02e+01 1kplA 473 5.06e+01 f.20.1.1 68782 1s72W 154 5.12e+01 d.59.1.1 105342 2aheA 267 5.16e+01 2fk8A 318 5.18e+01 1r4wA 226 5.18e+01 c.47.1.13 97050 1heiA 451 5.20e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1jj2V 154 5.20e+01 1ffkT d.59.1.1 63107 1aquA 297 5.22e+01 1aquA c.37.1.5 31942 1e6iA 121 5.22e+01 1b91A a.29.2.1 16969 1pq1A 196 5.22e+01 f.1.4.1 94986 1zvdA 380 5.23e+01 1sphA 88 5.24e+01 1ptf d.94.1.1 40544 1fxtA 149 5.34e+01 d.20.1.1 65055 1ogsA 497 5.38e+01 b.71.1.2,c.1.8.3 86997,86998 1tqxA 227 5.40e+01 3crxA 343 5.44e+01 4crxA a.60.9.1,d.163.1.1 18101,42161 2ch0A 133 5.47e+01 1x6iA 91 5.52e+01 1ffkT 154 5.55e+01 1ffkT d.59.1.1 39527 1nkl 78 5.56e+01 1nkl a.64.1.1 18140 1jeqA 609 5.59e+01 1jeqA a.140.2.1,b.131.1.1,c.62.1.3 64748,90366,90367 1hfeL 421 5.59e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 1qu9A 128 5.68e+01 1qu9A d.79.1.1 39755 1qu9C 128 5.68e+01 1qu9A d.79.1.1 39757 2c5rA 67 5.68e+01 1fi2A 201 5.70e+01 1fi2A b.82.1.2 59845 1r6wA 322 5.78e+01 c.1.11.2,d.54.1.1 97165,97166 1o5hA 214 5.87e+01 a.191.1.1 92497 1nykA 165 5.87e+01 b.33.1.1 86408 1nozA 388 5.88e+01 1clqA c.55.3.5 33715 1vrtA 560 5.91e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1pa7A 130 5.92e+01 a.40.1.1 94410 1aijS 301 5.95e+01 6prcM f.26.1.1 43465 1ynfA 458 5.97e+01 1ugpA 203 5.97e+01 d.149.1.1 107831 2dfkA 402 5.98e+01 1y88A 199 6.00e+01 1m48A 133 6.02e+01 a.26.1.2 74443 1z3eB 73 6.04e+01 1ireA 204 6.05e+01 d.149.1.1 76769 4crxA 322 6.07e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1es2A 262 6.09e+01 1skf e.3.1.1 42680 2fpmA 322 6.10e+01 1fk9A 543 6.14e+01 1rthA c.55.3.1,e.8.1.2 33607,43080 1syyA 346 6.14e+01 a.25.1.2 106126 1w07A 659 6.15e+01 1mhyB 395 6.20e+01 1mtyB a.25.1.2 16781 1lghA 56 6.21e+01 1lghA f.3.1.1 43733 1mo2A 294 6.25e+01 c.69.1.22 79331 1acf 125 6.28e+01 3nul d.110.1.1 40882 1g2fC 90 6.32e+01 k.12.1.1 60222 1gdeA 389 6.32e+01 c.67.1.1 60456 1xl7A 612 6.35e+01 1b0xA 94 6.36e+01 1b4fA a.60.1.2 17933 1c52 131 6.36e+01 1c52 a.3.1.1 15810 1r5zA 323 6.39e+01 f.40.1.1 97135 1hzfA 367 6.48e+01 a.102.4.4 76731 1vqoW 154 6.50e+01 1ze3D 125 6.53e+01 1gqeA 365 6.55e+01 e.38.1.1 70351 2c31A 568 6.57e+01 1myf 153 6.59e+01 1a6m a.1.1.2 15147 1u5tC 202 6.59e+01 a.4.5.54,a.4.5.54 107688,107689 1wm5A 208 6.60e+01 2et1A 201 6.60e+01 1eyvA 156 6.66e+01 1eyvA a.79.1.1 18446 1ozhA 566 6.72e+01 c.31.1.3,c.36.1.5,c.36.1.9 93833,93834,93835 1hh8A 213 6.78e+01 1e96B a.118.8.1 61042 2occH 85 6.86e+01 2occH a.51.1.1 17796 2adoA 196 6.88e+01 1aj5A 173 6.89e+01 1alvA a.39.1.8 17367 2etxA 209 6.90e+01 1zc6A 305 6.90e+01 2grrB 170 6.90e+01 1atr 386 6.92e+01 1ba1 c.55.1.1,c.55.1.1 33421,33422 1m93B 245 6.93e+01 1wr7A 41 7.00e+01 1u6rA 380 7.04e+01 1x54A 434 7.06e+01 1kbuA 349 7.07e+01 a.60.9.1,d.163.1.1 72284,72285 1drtA 324 7.13e+01 1drtA b.82.2.2 28130 1l1jA 239 7.15e+01 b.47.1.1 84516 1jeyA 609 7.16e+01 1jeqA b.131.1.1,c.62.1.3 90370,90371 1xfsA 178 7.18e+01 d.129.3.5 109589 1irl 133 7.19e+01 3inkC a.26.1.2 16883 1n45A 233 7.19e+01 a.132.1.1 79981 2bnfB 241 7.23e+01 1y8qA 346 7.28e+01 1i7dA 659 7.35e+01 1d6mA e.10.1.1 61886 2gwhA 298 7.37e+01 1otsA 465 7.38e+01 f.20.1.1 87415 1a1iA 90 7.39e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 44998,44999,45000 1crxA 322 7.39e+01 4crxA a.60.9.1,d.163.1.1 18097,42157 1uw4B 248 7.42e+01 a.118.1.14 100072 1ry6A 360 7.44e+01 c.37.1.9 98090 1b06A 210 7.46e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 2masA 314 7.49e+01 2masA c.70.1.1 34810 1uayA 242 7.52e+01 c.2.1.2 88390 1gd9A 389 7.56e+01 c.67.1.1 60454 1kbqA 273 7.57e+01 c.23.5.3 68391 2aplA 157 7.61e+01 1a1vA 476 7.62e+01 1heiA c.37.1.14,c.37.1.14 32467,32468 2fj6A 82 7.63e+01 1tq4A 413 7.66e+01 c.37.1.8 107201 1nw3A 416 7.69e+01 c.66.1.31 86288 2b1xA 470 7.69e+01 2beiA 170 7.70e+01 1cem 363 7.73e+01 1cem a.102.1.2 18826 1be3F 110 7.78e+01 1be3F f.27.1.1 43668 1e2kA 331 7.82e+01 1qhiA c.37.1.1 31854 1s5lX 50 7.88e+01 1scfA 273 7.91e+01 1exzA a.26.1.2 16873 1oyjA 231 7.93e+01 a.45.1.1,c.47.1.5 87597,87598 1rthA 560 7.99e+01 1rthA c.55.3.1,e.8.1.2 33576,43028 1vquA 374 8.01e+01 1jajA 174 8.03e+01 d.218.1.2 66471 1qcrF 103 8.07e+01 1be3F f.27.1.1 43676 1hpm 386 8.10e+01 1ba1 c.55.1.1,c.55.1.1 33381,33382 1zvzA 279 8.17e+01 2atjA 308 8.22e+01 1bgp a.93.1.1 18675 1alvA 173 8.22e+01 1alvA a.39.1.8 17370 1vjrA 271 8.26e+01 c.108.1.14 100832 1bupA 386 8.27e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1jqjC 343 8.33e+01 a.80.1.1,c.37.1.20 67097,67098 1adjA 421 8.43e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1zvnA 99 8.60e+01 1m56B 264 8.60e+01 b.6.1.2,f.17.2.1 74472,74473 1ybdA 239 8.62e+01 1b35A 260 8.66e+01 1b35A b.121.4.1 23333 1qahA 136 8.67e+01 d.79.1.1 96338 1u9yA 284 8.68e+01 1xo0A 324 8.75e+01 1vjkA 98 8.76e+01 d.15.3.1 108631 1aihA 170 8.78e+01 1aihA d.163.1.1 42149 2cvdA 198 8.83e+01 1ka9H 200 8.83e+01 c.23.16.1 77308 1suwA 249 8.88e+01 e.52.1.1 106027 1oi1A 221 8.92e+01 b.34.9.3,b.34.9.3 87037,87038 1jgjA 217 8.95e+01 1c3wA f.13.1.1 62952 1t01A 255 9.00e+01 a.24.9.1,a.24.9.1 106188,106189