# List of top-scoring protein chains for t04-100-30-alpha-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 1vj5A 555 1.37e-01 c.108.1.2,c.69.1.11 100799,100800 1d8wA 426 1.87e-01 1de5A c.1.15.2 29394 1zd3A 555 2.23e-01 1jpaA 312 2.64e-01 d.144.1.7 67011 1jhgA 101 2.80e-01 1jhgA a.4.12.1 19009 1y3nA 490 6.04e-01 1ihp 438 7.03e-01 1ihp c.60.1.2 33993 1q18A 332 8.61e-01 c.55.1.7,c.55.1.7 104470,104471 1tbmA 326 9.85e-01 a.211.1.2 106744 1sz2A 332 1.01e+00 1ad3A 452 1.03e+00 1ad3A c.82.1.1 35335 1h6zA 913 1.05e+00 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1zv1A 65 1.80e+00 2gsfA 373 2.33e+00 1yzxA 226 2.56e+00 2a9iA 113 2.95e+00 1kblA 873 3.02e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1r4wA 226 3.14e+00 c.47.1.13 97050 1fsu 492 3.17e+00 1auk c.76.1.2 35032 1x7yA 400 3.49e+00 1m48A 133 4.32e+00 a.26.1.2 74443 1dik 874 4.39e+00 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 2ccmA 191 4.62e+00 3inkC 133 4.82e+00 3inkC a.26.1.2 16881 1v1rA 400 4.89e+00 c.36.1.11 108272 2fiyA 309 5.12e+00 2aheA 267 5.12e+00 1jakA 512 5.29e+00 c.1.8.6,d.92.2.1 66472,66473 2fqmA 75 5.29e+00 1jb0I 38 5.44e+00 1jb0I f.23.17.1 62826 1xioA 261 5.72e+00 1qu9A 128 5.74e+00 1qu9A d.79.1.1 39755 1x6vA 630 6.01e+00 1qd9A 124 6.66e+00 1qu9A d.79.1.1 39758 1hp5A 512 6.76e+00 1hp4A c.1.8.6,d.92.2.1 61113,61114 2b05A 246 7.00e+00 1ufaA 520 7.02e+00 a.8.3.3,c.6.2.4 99329,99330 2b7aA 293 7.65e+00 2ctoA 93 7.82e+00 1z2nX 324 7.87e+00 2fu4A 83 7.89e+00 1h2vC 771 8.07e+00 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 2bemA 170 8.78e+00 1bd8 156 9.07e+00 1bd8 d.211.1.1 19157 2gsvA 80 9.17e+00 1x91A 153 9.21e+00 1m93B 245 9.65e+00 1jmtB 28 9.81e+00 1w1oA 534 9.93e+00 d.58.32.4,d.145.1.1 109071,109072 1qfxA 460 1.01e+01 1qfxA c.60.1.2 33994 1ssqA 267 1.02e+01 b.81.1.6 105993 2fmcA 82 1.07e+01 1mzbA 136 1.09e+01 a.4.5.42 91497 1ewfA 456 1.11e+01 1bp1 d.83.1.1,d.83.1.1 40024,40025 1es5A 262 1.14e+01 1skf e.3.1.1 42679 1im5A 180 1.23e+01 c.33.1.3 66211 1cojA 212 1.23e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1jhdA 396 1.29e+01 b.122.1.3,c.26.1.5 66712,66713 1esiA 262 1.32e+01 1skf e.3.1.1 42682 2bjqA 345 1.37e+01 1kpsB 171 1.40e+01 a.118.12.1 68787 1v4aA 440 1.45e+01 a.24.16.4,d.218.1.9 108350,108351 2afwA 329 1.50e+01 1x1fA 149 1.56e+01 1tzvA 142 1.60e+01 a.79.1.1 107526 1mvlA 209 1.63e+01 c.34.1.1 85146 1i9gA 280 1.63e+01 c.66.1.13 62090 2furA 209 1.63e+01 1whrA 124 1.70e+01 1jk8B 190 1.75e+01 1iakB b.1.1.2,d.19.1.1 63147,63148 1zq9A 285 1.77e+01 2fikA 287 1.78e+01 1bkcI 256 1.83e+01 1bkcA d.92.1.10 40334 1sszA 34 1.86e+01 j.35.1.1 105999 1dciA 275 1.89e+01 1dciA c.14.1.3 30918 1z6uA 150 1.89e+01 1wr7A 41 1.90e+01 2iu5A 195 1.92e+01 2gdjA 264 1.93e+01 1m2kA 249 1.94e+01 c.31.1.5 84754 1w07A 659 1.96e+01 1zxcA 263 1.96e+01 1bkcE 256 1.97e+01 1bkcA d.92.1.10 40333 2fpmA 322 1.97e+01 1ngzA 213 1.99e+01 b.1.1.1,b.1.1.2 80500,80501 1rypH 205 1.99e+01 d.153.1.4 41876 1iqcA 308 2.02e+01 a.3.1.5,a.3.1.5 66266,66267 1tqxA 227 2.08e+01 1n2fA 142 2.12e+01 d.227.1.1 79853 1x6oA 174 2.19e+01 b.34.5.2,b.40.4.5 109493,109494 1m98A 317 2.22e+01 a.175.1.1,d.17.4.6 78866,78867 1p4cA 380 2.27e+01 c.1.4.1 94100 1q4mA 221 2.29e+01 a.132.1.3 95805 2mtaC 147 2.29e+01 2mtaC a.3.1.1 15908 1v9jA 113 2.32e+01 d.52.6.1 100542 1jmxA 494 2.34e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 2bnkA 67 2.35e+01 1azsB 212 2.39e+01 1azsA d.58.29.1 39423 1x23A 155 2.43e+01 1nd7A 374 2.48e+01 d.148.1.1 91817 2f2gA 221 2.52e+01 2g19A 244 2.55e+01 1fpoA 171 2.57e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1vls 146 2.58e+01 1vls a.24.2.1 16532 1sheA 103 2.60e+01 d.274.1.1 105551 1dbwA 126 2.62e+01 1dbwA c.23.1.1 31095 1iuhA 198 2.67e+01 d.61.1.2 83711 2ddfA 257 2.67e+01 1ppjF 110 2.80e+01 f.27.1.1 104262 1m6jA 261 2.89e+01 c.1.1.1 78693 1z2uA 150 2.90e+01 1alvA 173 2.94e+01 1alvA a.39.1.8 17370 1tueA 212 2.99e+01 c.37.1.20 107323 1v96A 149 3.03e+01 1x8vA 455 3.12e+01 1r6wA 322 3.12e+01 c.1.11.2,d.54.1.1 97165,97166 2f2mA 113 3.14e+01 2fupA 168 3.15e+01 1rkd 309 3.15e+01 1rkd c.72.1.1 34928 1ab8A 220 3.15e+01 1azsA d.58.29.1 39414 1p8xA 344 3.18e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 2b1eA 564 3.25e+01 2fgtA 417 3.35e+01 2fh1A 344 3.37e+01 1t8kA 77 3.41e+01 a.28.1.1 106666 2c4jA 218 3.42e+01 1p2fA 220 3.42e+01 a.4.6.1,c.23.1.1 87720,87721 2br9A 234 3.46e+01 2f8mA 244 3.54e+01 1f0cA 305 3.55e+01 1c8oA e.1.1.1 42676 1zanL 214 3.56e+01 1e9xA 455 3.58e+01 1ea1A a.104.1.1 18969 1jy2N 53 3.58e+01 h.1.8.1 67440 1h5zA 455 3.66e+01 a.104.1.1 90622 1x6iA 91 3.68e+01 2akrA 285 3.68e+01 1zboA 210 3.70e+01 1wnlA 235 3.72e+01 2b33A 140 3.73e+01 2ewcA 126 3.75e+01 1u13A 455 3.87e+01 a.104.1.1 107578 1z5lA 285 3.87e+01 1sphA 88 3.90e+01 1ptf d.94.1.1 40544 1im8A 244 3.91e+01 c.66.1.14 66212 6gsvA 217 3.92e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1zwwA 256 3.97e+01 1zy9A 564 4.03e+01 1rzsA 61 4.09e+01 a.35.1.2 105139 1u5tC 202 4.10e+01 a.4.5.54,a.4.5.54 107688,107689 1uxtA 501 4.13e+01 c.82.1.1 108125 1tn6A 382 4.17e+01 1wmmA 145 4.17e+01 1h3nA 878 4.17e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1nddA 76 4.18e+01 1ubi d.15.1.1 37599 1m3uA 264 4.19e+01 c.1.12.8 84784 1c5cL 214 4.19e+01 32c2A b.1.1.1,b.1.1.2 20474,21438 1j8mF 297 4.20e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1jae 471 4.20e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1t4gA 322 4.22e+01 a.60.4.1,c.37.1.11 106418,106419 1t92A 116 4.23e+01 2c2nA 339 4.31e+01 1d8dA 377 4.35e+01 1ft1A a.118.6.1 19185 2bfdA 400 4.37e+01 2cqsA 842 4.42e+01 1h99A 224 4.51e+01 a.142.1.1,a.142.1.1 60814,60815 1hfeL 421 4.53e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 1um5L 219 4.55e+01 1rx0A 393 4.57e+01 a.29.3.1,e.6.1.1 98007,98008 1g7oA 215 4.64e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1no1A 126 4.65e+01 a.179.1.1 85913 1jgjA 217 4.69e+01 1c3wA f.13.1.1 62952 1tqyB 415 4.70e+01 c.95.1.1,c.95.1.1 107247,107248 2cvlA 124 4.71e+01 1mg2D 155 4.85e+01 a.3.1.1 79062 1q6hA 224 4.92e+01 d.26.1.1 95975 1wqwA 235 4.93e+01 1hdiA 413 4.97e+01 16pk c.86.1.1 60964 1t8sA 484 4.99e+01 c.56.2.1 106679 1n0xL 215 5.06e+01 b.1.1.1,b.1.1.2 91532,91533 2bnfB 241 5.27e+01 1d2mA 665 5.27e+01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1gjjA 168 5.29e+01 a.140.1.1,a.140.1.1 83291,83292 1olsA 400 5.29e+01 c.36.1.11 93331 7atjA 308 5.40e+01 1bgp a.93.1.1 18673 1n5dA 288 5.42e+01 c.2.1.2 80030 1hu4A 288 5.42e+01 1hu4A 1gwuA 309 5.43e+01 a.93.1.1 83351 1thg 544 5.44e+01 1thg c.69.1.17 34763 1z6gA 218 5.49e+01 1xfsA 178 5.52e+01 d.129.3.5 109589 1aq0A 306 5.56e+01 1aq0A c.1.8.3 28842 1t6uA 117 5.57e+01 a.24.22.1 106584 1mp8A 281 5.58e+01 d.144.1.7 91384 1p1mA 406 5.59e+01 b.92.1.4,c.1.9.9 87696,87697 1z83A 196 5.67e+01 1ld8A 382 5.69e+01 a.118.6.1 73838 1dp7P 76 5.73e+01 1dp7P a.4.5.20 16159 1fc3A 120 5.75e+01 1fc3A a.4.6.3 16237 2c5rA 67 5.75e+01 1deeG 54 5.75e+01 1fc2C a.8.1.1 16343 2f02A 323 5.78e+01 1zoyC 140 5.81e+01 1vi0A 206 5.83e+01 a.4.1.9,a.121.1.1 100720,100721 1xw5A 217 5.84e+01 1pgjA 478 5.87e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 1u5dA 108 5.88e+01 1hlvA 131 5.89e+01 a.4.1.7,a.4.1.7 65854,65855 2dg5A 366 5.90e+01 2a2pA 129 5.93e+01 2bneA 241 6.01e+01 2givA 295 6.07e+01 1eyhA 144 6.12e+01 1eduA a.118.9.1 19214 1qh4A 380 6.17e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1y5iC 225 6.20e+01 1i37A 260 6.21e+01 1a28A a.123.1.1 61583 1sqgA 429 6.22e+01 a.79.1.3,c.66.1.38 105912,105913 2cwyA 94 6.25e+01 1mgpA 313 6.26e+01 c.119.1.1 79098 1m2oA 768 6.27e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1u04A 771 6.30e+01 b.34.14.1,c.55.3.10 107539,107540 2a7mA 250 6.34e+01 1c52 131 6.43e+01 1c52 a.3.1.1 15810 1x4tA 92 6.45e+01 1g8fA 511 6.50e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1rypI 222 6.50e+01 d.153.1.4 41877 4hb1 108 6.50e+01 4hb1 k.8.1.1 46414 2fb6A 117 6.50e+01 2et1A 201 6.53e+01 2awdA 323 6.56e+01 2f96A 224 6.57e+01 1fi2A 201 6.62e+01 1fi2A b.82.1.2 59845 1nvpD 108 6.64e+01 a.32.1.1,b.56.1.1 92213,92214 1otsA 465 6.66e+01 f.20.1.1 87415 1dfwA 25 6.68e+01 j.35.1.1 46255 1jmmA 377 6.72e+01 b.30.6.1 71749 1wmaA 276 6.96e+01 1t7rA 269 6.97e+01 a.123.1.1 106635 1ux5A 411 6.99e+01 a.207.1.1 100144 1sq5A 308 7.17e+01 c.37.1.6 105882 1afrA 345 7.17e+01 1afrA a.25.1.2 16805 1y2kA 349 7.24e+01 1sr2A 116 7.29e+01 1j8yF 297 7.30e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1adjA 421 7.38e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 2gboA 104 7.39e+01 1e3pA 757 7.45e+01 1e3hA a.4.9.1,b.40.4.5,d.14.1.4,d.14.1.4,d.52.3.1,d.101.1.1,d.101.1.1 16258,25328,37574,37575,38811,40697,40698 1pa7A 130 7.46e+01 a.40.1.1 94410 1rmg 422 7.48e+01 1rmg b.80.1.3 28029 1q0gA 117 7.50e+01 a.24.22.1 104428 1xqrA 296 7.59e+01 1y82A 157 7.61e+01 1zhcA 76 7.66e+01 1m1nB 522 7.72e+01 c.92.2.3 78418 1j6pA 418 7.75e+01 b.92.1.4,c.1.9.9 77089,77090 1h2sA 225 7.77e+01 f.13.1.1 76578 1vjkA 98 7.85e+01 d.15.3.1 108631 1uvzA 119 7.91e+01 1li5B 461 7.99e+01 a.27.1.1,c.26.1.1 73914,73915 1w4vA 119 8.06e+01 2an3A 289 8.09e+01 1tbbA 332 8.09e+01 a.211.1.2 106741 1x1nA 524 8.12e+01 1w34A 304 8.13e+01 1p3jA 217 8.14e+01 c.37.1.1,g.41.2.1 94022,94023 1bpoA 494 8.17e+01 1bpoA a.118.1.4,b.69.6.1 19143,27670 1v73A 342 8.22e+01 1zbfA 142 8.24e+01 1j3gA 187 8.25e+01 d.118.1.1 77075 1x8yA 86 8.36e+01 1wjgA 137 8.38e+01 1xorA 349 8.48e+01 2pia 321 8.50e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1uwdA 103 8.55e+01 1pn0A 665 8.56e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1eyeA 280 8.63e+01 1aj2 c.1.21.1 29672 2d0tA 406 8.75e+01 1xb4A 202 8.77e+01 1mjuL 219 8.82e+01 b.1.1.1,b.1.1.2 91304,91305 1qjbA 245 8.83e+01 1qjaA a.118.7.1 19202 1h7wA 1025 8.85e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1v54J 59 8.87e+01 f.23.4.1 100331 1ln4A 104 8.88e+01 d.68.4.1 74043