# List of top-scoring protein chains for t04-100-30-bys 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 1nt4A 391 1.53e-01 c.60.1.2 -7942 1rvkA 382 2.85e-01 c.1.11.2 -5568 d.54.1.1 -9826 1bj7 156 1.13e+00 1bj7 b.60.1.1 27113 1r1dA 247 1.20e+00 unknown_sccs -8335 1q48A 134 1.73e+00 unknown_sccs -9776 1kk8B 139 1.86e+00 a.39.1.5 77430 1hf8A 289 1.98e+00 1hg5A unknown_sccs -399 unknown_sccs -1628 1fsz 372 2.47e+00 1fsz c.32.1.1 31750 d.79.2.1 39802 1btl 263 2.52e+00 1btl e.3.1.1 42691 1tvxA 75 2.72e+00 1tvxA d.9.1.1 37441 1yrnB 83 2.83e+00 1akhB a.4.1.1 15986 1jpmA 366 2.88e+00 c.1.11.2 67031 d.54.1.1 67032 1c7qA 445 3.29e+00 2pgi c.80.1.2 35307 1ec7A 446 3.41e+00 1bqg c.1.11.2 29218 d.54.1.1 38862 1n9bA 265 3.63e+00 e.3.1.1 85463 1r71A 178 4.11e+00 1k61A 60 4.20e+00 a.4.1.1 77270 2mnr 357 4.27e+00 2mnr c.1.11.2 29245 d.54.1.1 38889 1lshB 319 4.53e+00 f.7.1.1 74245 1k1vA 41 4.76e+00 a.37.1.1 71999 1ad3A 452 5.15e+00 1ad3A c.82.1.1 35335 1ki1B 352 5.45e+00 a.87.1.1 72497 b.55.1.1 72498 1mdl 359 5.48e+00 2mnr c.1.11.2 29247 d.54.1.1 38891 1ermA 263 5.48e+00 1btl e.3.1.1 42690 1eyvA 156 5.68e+00 1eyvA a.79.1.1 18446 1g40A 244 6.31e+00 1e5gA g.18.1.1 44823 g.18.1.1 44824 g.18.1.1 44825 g.18.1.1 44826 1mj5A 302 6.76e+00 c.69.1.8 -8326 1cpcA 162 7.06e+00 1cpcA a.1.1.3 15643 1dozA 309 7.25e+00 1ak1 c.92.1.1 35592 1o08A 221 7.78e+00 c.108.1.6 86525 1nu5A 370 8.70e+00 c.1.11.2 -5565 d.54.1.1 -9823 1q6hA 224 8.93e+00 d.26.1.1 -9487 1wdcB 156 9.01e+00 1wdcB a.39.1.5 17302 1gln 468 9.05e+00 1gln a.97.1.1 18752 c.26.1.1 31588 1j09A 468 9.22e+00 a.97.1.1 77025 c.26.1.1 77026 2trcP 217 9.31e+00 1b9yC c.47.1.6 33051 1bia 321 9.41e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1o6dA 163 9.63e+00 c.116.1.3 -6689 2kinA 238 9.67e+00 1bg2 c.37.1.9 32190 1ewqA 765 9.84e+00 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1gt1A 159 1.00e+01 b.60.1.1 -4436 1dgwX 79 1.04e+01 1caxB b.82.1.2 28091 2kfnA 605 1.05e+01 1xwl c.55.3.5 33682 e.8.1.1 42975 1on2A 142 1.09e+01 a.4.5.24 87103 a.76.1.1 87104 1cv2A 296 1.11e+01 1bn6A c.69.1.8 34680 1hn2A 159 1.14e+01 b.60.1.1 65890 1i6iA 366 1.18e+01 1bg2 c.37.1.9 61844 1r5zA 323 1.24e+01 unknown_sccs -12289 1pfvA 551 1.25e+01 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1f4lA 551 1.27e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1o20A 427 1.27e+01 c.82.1.1 86556 1h8pA 109 1.31e+01 g.14.1.2 70916 g.14.1.2 70917 1ka2A 499 1.34e+01 d.92.1.5 77305 1o9iA 266 1.42e+01 unknown_sccs -698 1k32A 1045 1.43e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1h0pA 182 1.45e+01 b.62.1.1 76450 1e2uA 553 1.49e+01 1e1dA e.26.1.1 43362 1jkvA 266 1.55e+01 unknown_sccs 71719 1dkzA 219 1.58e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1zymA 258 1.59e+01 1zymA a.60.10.1 18110 c.8.1.2 30705 1gntA 553 1.60e+01 e.26.1.1 70290 1o04A 500 1.61e+01 c.82.1.1 86508 1m40A 263 1.61e+01 e.3.1.1 74437 1mgtA 174 1.66e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1jj2I 145 1.67e+01 1ffkG c.21.1.1 63094 1moq 368 1.75e+01 1moq c.80.1.1 35302 1v8fA 276 1.77e+01 c.26.1.4 -6618 1vi9A 299 1.79e+01 c.72.1.5 -8393 1d2eA 397 1.83e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1ukz 203 1.84e+01 1zin c.37.1.1 31840 1f44A 324 1.84e+01 a.60.9.1 64982 d.163.1.1 64983 1q1hA 110 1.91e+01 unknown_sccs -262 1kq3A 376 1.95e+01 e.22.1.2 68790 1c6vX 81 2.00e+01 1ihvA b.34.7.1 24641 1okrA 123 2.04e+01 unknown_sccs -235 1ujnA 348 2.08e+01 e.22.1.1 -11998 1do6A 124 2.08e+01 1do6A b.1.13.1 22361 1phnA 162 2.14e+01 1cpcA a.1.1.3 15641 1b0b 142 2.19e+01 2fal a.1.1.2 15010 1ecmA 109 2.21e+01 1ecmA a.130.1.1 19492 1nxuA 333 2.24e+01 c.122.1.1 86389 1jboA 162 2.25e+01 a.1.1.3 84150 1a9xA 1058 2.28e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1ns5A 155 2.29e+01 c.116.1.3 80705 1ny6A 267 2.29e+01 c.37.1.20 -7221 1p3dA 475 2.32e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1v9yA 167 2.40e+01 1bx4A 345 2.41e+01 1bx4A c.72.1.1 34935 1obpA 159 2.42e+01 1obpA b.60.1.1 27092 1rthA 560 2.45e+01 1rthA c.55.3.1 33576 e.8.1.2 43028 1n81A 186 2.47e+01 a.185.1.1 85388 1fkmA 396 2.50e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1jq5A 370 2.51e+01 e.22.1.2 67084 1vimA 200 2.54e+01 c.80.1.3 -8532 6paxA 133 2.57e+01 6paxA a.4.1.5 64758 a.4.1.5 64759 1nlfA 279 2.57e+01 c.37.1.11 85850 1f8rA 498 2.57e+01 1f8rA c.3.1.2 30410 d.16.1.5 37974 1qb5D 99 2.58e+01 b.40.2.1 88357 1qydA 313 2.59e+01 c.2.1.2 -5786 1ua4A 455 2.59e+01 c.72.1.3 -8416 1g8yA 279 2.64e+01 1g8yA c.37.1.11 32302 1v9mA 323 2.70e+01 unknown_sccs -12292 1i4jA 110 2.72e+01 d.55.1.1 76734 1jx4A 352 2.74e+01 unknown_sccs -10188 unknown_sccs -11898 1iz5A 249 2.75e+01 d.131.1.2 83834 d.131.1.2 83835 1djxB 624 2.78e+01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1lt5D 103 2.82e+01 3chbD b.40.2.1 24875 1hq1A 105 2.84e+01 1dulA a.36.1.1 17120 1khiA 176 2.85e+01 b.34.5.2 77408 b.40.4.5 77409 1p9oA 313 2.87e+01 unknown_sccs -8423 1quqA 129 2.90e+01 1quqA b.40.4.3 25303 1e3oC 160 2.93e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1kit 757 2.93e+01 1kit b.29.1.8 24272 b.29.1.8 24273 b.68.1.1 27616 1n9lA 109 3.00e+01 d.110.3.6 85468 1maz 221 3.04e+01 1maz f.1.4.1 43393 1vypX 364 3.04e+01 1bxeA 113 3.06e+01 1bxeA d.55.1.1 38898 1ubi 76 3.07e+01 1ubi d.15.1.1 37584 1q44A 326 3.10e+01 c.37.1.5 -7037 1a70 97 3.11e+01 1awd d.15.4.1 37678 1bh9B 89 3.11e+01 1bh9B a.22.1.3 16485 1d2zB 153 3.15e+01 1d2zB a.77.1.2 18439 1dp4A 435 3.20e+01 1dp4A c.93.1.1 35710 1t0yA 122 3.20e+01 d.15.1.1 -9151 1dd9A 338 3.20e+01 1dd9A e.13.1.1 43254 1ezfA 340 3.22e+01 1ezfA a.128.1.2 19440 1hm6A 346 3.24e+01 1avc a.65.1.1 18147 1j27A 102 3.27e+01 unknown_sccs -10116 1k4mA 213 3.31e+01 c.26.1.3 77258 1dm5A 315 3.35e+01 1avc a.65.1.1 18186 1cd31 152 3.35e+01 1cd31 1vyrA 364 3.35e+01 1reoA 486 3.36e+01 c.3.1.2 -5997 d.16.1.5 -9217 1dqiA 124 3.41e+01 1do6A b.1.13.1 22357 1gw0A 559 3.42e+01 b.6.1.3 70623 b.6.1.3 70624 b.6.1.3 70625 1g2oA 268 3.46e+01 1b8oA c.56.2.1 60228 1q08A 99 3.47e+01 a.6.1.3 -381 1eemA 241 3.55e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 1n1jA 93 3.58e+01 a.22.1.3 79813 1h1oA 183 3.58e+01 a.3.1.4 83454 a.3.1.4 83455 1oz9A 150 3.59e+01 unknown_sccs -10588 1d2zA 108 3.61e+01 1d2zA a.77.1.2 18437 1dqsA 393 3.63e+01 1dqsA e.22.1.1 43347 4pfk 319 3.71e+01 3pfk c.89.1.1 35582 1ut9A 609 3.71e+01 a.102.1.2 -1326 b.1.18.2 -2710 1qusA 322 3.84e+01 1ltm d.2.1.6 36991 1anv 356 3.85e+01 1anv a.54.1.1 17890 g.51.1.1 45365 g.51.1.1 45371 1eguA 731 3.92e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.5.2 24423 1rkuA 206 3.94e+01 unknown_sccs -6823 1a73A 163 3.99e+01 1a73A d.4.1.3 37145