# 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 1bkjA 240 8.64e-25 1bkjA d.90.1.1 40243 1f5vA 240 4.34e-24 1bkjA d.90.1.1 40255 1nox 205 4.27e-16 1nox d.90.1.1 40242 1icrA 217 3.43e-10 1vfrA d.90.1.1 62274 1vfrA 218 1.66e-05 1vfrA d.90.1.1 40247 1n81A 186 3.02e-02 a.185.1.1 85388 1ig8A 486 5.43e-02 2yhx c.55.1.3 64746 c.55.1.3 64747 1qyaA 307 6.03e-02 1b8fA 509 7.48e-02 1b8fA a.127.1.2 19434 1gkmA 509 9.74e-02 a.127.1.2 70228 1dqaA 467 2.28e-01 1dqaA d.58.20.1 39364 d.179.1.1 42585 1nijA 318 2.48e-01 c.37.1.10 85741 d.237.1.1 85742 1qo7A 394 3.40e-01 1qo7A c.69.1.11 34697 1sdjA 310 4.29e-01 d.21.1.2 -9420 d.21.1.2 -9421 1vizA 240 5.91e-01 c.1.4.1 -5212 1brwA 433 1.11e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1oaoA 674 1.16e+00 e.26.1.2 86744 1hrdA 449 1.25e+00 1k89 c.2.1.7 30219 c.58.1.1 33867 1dozA 309 1.42e+00 1ak1 c.92.1.1 35592 1gqeA 365 1.50e+00 e.38.1.1 70351 1fts 295 1.63e+00 1ng1 a.24.13.1 16968 c.37.1.10 32279 1e7uA 961 1.76e+00 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1bgvA 449 1.79e+00 1k89 c.2.1.7 30217 c.58.1.1 33865 1ks8A 433 1.81e+00 a.102.1.2 77519 1qs0A 407 1.95e+00 1qs0A c.36.1.11 31829 1vk3A 615 2.08e+00 d.79.4.1 -10416 d.79.4.1 -10417 d.139.1.1 -11154 d.139.1.1 -11155 1kjqA 391 2.13e+00 b.84.2.1 72616 c.30.1.1 72617 d.142.1.2 72618 1auk 489 2.78e+00 1auk c.76.1.2 35030 1k3eA 156 2.90e+00 d.198.1.1 68103 1e25A 282 3.00e+00 1e25A e.3.1.1 42731 1ddgA 374 3.13e+00 1amoA b.43.4.1 25671 c.25.1.4 31559 1to6A 371 3.52e+00 1eyzA 392 3.86e+00 1ez1A b.84.2.1 28246 c.30.1.1 31653 d.142.1.2 41498 1bgc 174 4.66e+00 1bgc a.26.1.1 16822 1q7lA 198 4.74e+00 c.56.5.4 -7886 1i50A 1733 4.81e+00 e.29.1.2 61754 1nf2A 268 4.93e+00 c.108.1.10 -6842 1edt 271 4.95e+00 2ebn c.1.8.5 28993 1f0kA 364 5.00e+00 1f0kA c.87.1.2 35465 1lzlA 323 5.62e+00 c.69.1.2 78306 1l2uA 245 5.64e+00 c.1.2.3 73516 1i19A 561 5.92e+00 1i19A d.58.32.3 61522 d.145.1.1 61523 1d0qA 103 6.04e+00 1d0qA g.41.3.2 45208 1m1nB 522 6.04e+00 c.92.2.3 78418 1j9bA 141 6.18e+00 c.47.1.12 66459 1aq0A 306 6.31e+00 1aq0A c.1.8.3 28842 1uanA 227 6.55e+00 unknown_sccs -8129 1nqkA 381 7.23e+00 c.1.16.4 -5607 1otgA 125 7.75e+00 1otgA d.80.1.2 39831 1a8q 274 7.78e+00 1brt c.69.1.12 34702 1g8iA 190 7.85e+00 1rec a.39.1.5 60363 1f3mC 297 7.93e+00 1hcl d.144.1.7 41677 1iatA 557 7.99e+00 1dqrA c.80.1.2 62123 1ni4B 341 8.44e+00 c.36.1.7 85729 c.48.1.2 85730 1ayl 541 8.50e+00 1ayl c.91.1.1 64718 c.109.1.1 64719 1rg9A 383 8.76e+00 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1lucB 324 9.31e+00 1lucA c.1.16.1 29548 1pvtA 238 9.65e+00 c.74.1.1 -8444 1eg7A 557 1.00e+01 1eg7A c.37.1.10 32241 1iu4A 331 1.02e+01 d.3.1.8 71430 1jnyA 435 1.04e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1uu1A 335 1.11e+01 c.67.1.1 -8146 1h6zA 913 1.14e+01 c.1.12.2 70906 c.8.1.1 70907 d.142.1.5 70908 1n0wA 243 1.15e+01 c.37.1.11 79772 1r72A 211 1.16e+01 unknown_sccs -215 unknown_sccs -5981 1f5aA 513 1.19e+01 1fa0B a.160.1.1 75835 d.218.1.3 75836 d.58.16.1 39337 1j0aA 325 1.21e+01 c.79.1.1 83871 1ei6A 406 1.26e+01 unknown_sccs -8436 1i2aA 219 1.29e+01 e.24.1.1 -12012 1s7jA 262 1.31e+01 d.21.1.2 -9424 1j9yA 385 1.35e+01 1j9yA c.1.8.3 62791 1m5wA 243 1.35e+01 c.1.24.1 84836 1id1A 153 1.37e+01 1id1A c.2.1.9 62286 1qr0A 228 1.37e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1fds 327 1.38e+01 1fds c.2.1.2 29838 1rthA 560 1.39e+01 1rthA c.55.3.1 33576 e.8.1.2 43028 1ojrA 274 1.40e+01 c.74.1.1 -8441 1tafB 70 1.48e+01 1tafB a.22.1.3 16482 1n08A 163 1.53e+01 b.43.5.1 79730 2yhx 457 1.53e+01 2yhx i.12.1.1 46024 1dp4A 435 1.53e+01 1dp4A c.93.1.1 35710 1mml 265 1.60e+01 1mml e.8.1.2 43015 1otjA 283 1.61e+01 b.82.2.5 -4893 1vrtA 560 1.76e+01 1rthA c.55.3.1 33574 e.8.1.2 43023 1odzA 386 1.80e+01 c.1.8.3 86889 1dcfA 136 1.83e+01 1dcfA c.23.1.2 31124 1s9rA 410 1.84e+01 unknown_sccs -10989 1snnA 227 1.85e+01 1f8rA 498 1.86e+01 1f8rA c.3.1.2 30410 d.16.1.5 37974 1a7j 290 1.88e+01 1a7j c.37.1.6 31952 2gsaA 432 1.89e+01 2gsaA c.67.1.4 34446 1o5zA 442 1.89e+01 c.59.1.2 -7939 c.72.2.2 -8418 1rylA 167 1.97e+01 1eb7A 323 1.98e+01 1eb7A a.3.1.5 59404 a.3.1.5 59405 1cfzA 162 2.01e+01 1cfzA c.56.1.1 33754 1bcpD 110 2.01e+01 1bcpD b.40.2.1 25132 1ld8B 437 2.03e+01 a.102.4.3 73839 1o17A 345 2.11e+01 a.46.2.1 80765 c.27.1.1 80766 1gp6A 356 2.12e+01 b.82.2.1 65441 1pvyA 227 2.14e+01 d.115.1.2 -10937 1gs5A 258 2.17e+01 c.73.1.2 70395 1ekjA 221 2.24e+01 1ekjB c.53.2.1 33364 1o0uA 429 2.26e+01 c.118.1.1 80743 1fmjA 351 2.26e+01 c.37.1.5 59879 1o4uA 285 2.29e+01 c.1.17.1 86624 d.41.2.1 86625 1g8pA 350 2.36e+01 1g8pA c.37.1.20 60376 1gdhA 320 2.45e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 1ojxA 263 2.48e+01 c.1.10.1 -5445 1ho1A 242 2.54e+01 1ho1A c.1.24.1 61097 1lwjA 441 2.67e+01 b.71.1.1 74303 c.1.8.1 74304 1e8aA 91 2.68e+01 1b4cA a.39.1.2 17188 1k0rA 366 2.68e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1hc7A 477 2.69e+01 1hc7A c.51.1.1 60938 d.68.5.1 60940 d.104.1.1 60939 1on3A 523 2.72e+01 c.14.1.4 87107 c.14.1.4 87108 2shpA 525 2.74e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1utcA 363 2.78e+01 a.118.1.4 -1568 b.69.6.1 -4612 1h2wA 710 2.81e+01 b.69.7.1 76596 c.69.1.4 76597 1b7yB 785 2.82e+01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1ia8A 289 2.85e+01 1ia8A d.144.1.7 62112 1szoA 257 2.95e+01 1jkmB 361 2.98e+01 1jkmA c.69.1.2 34634 1dik 874 3.00e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1ml4A 308 3.06e+01 c.78.1.1 79255 c.78.1.1 79256 1nnvA 110 3.07e+01 unknown_sccs -9309 1d02A 202 3.08e+01 1d02A c.52.1.8 33313 1vimA 200 3.13e+01 c.80.1.3 -8532 1ll2A 333 3.13e+01 c.68.1.14 74005 1dd9A 338 3.17e+01 1dd9A e.13.1.1 43254 1e0tA 470 3.18e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1gd7A 109 3.20e+01 b.40.4.4 60441 1qr6A 584 3.21e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 1n46A 258 3.23e+01 a.123.1.1 85315 1a9xA 1058 3.23e+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 1qfmA 710 3.23e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1uz5A 402 3.25e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1j3bA 529 3.26e+01 c.91.1.1 77071 c.109.1.1 77072 1ea7A 310 3.31e+01 c.41.1.1 70086 1sqhA 312 3.32e+01 unknown_sccs -10812 1kblA 873 3.32e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1rhs 296 3.33e+01 1rhs c.46.1.2 32703 c.46.1.2 32704 1n0uA 842 3.38e+01 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1i0rA 169 3.41e+01 1i0rA b.45.1.2 61489 1rypJ 204 3.44e+01 d.153.1.4 41878 1q4rA 112 3.45e+01 d.58.4.4 -9943 2lbp 346 3.46e+01 2liv c.93.1.1 35709 1v4eA 299 3.49e+01 a.128.1.1 -1781 1acc 735 3.54e+01 1acc f.11.1.1 43828 1nx8A 273 3.55e+01 b.82.2.8 86374 1v3wA 173 3.55e+01 b.81.1.5 -4815 1uroA 367 3.56e+01 1uroA c.1.22.1 29675 1e79H 146 3.57e+01 1e79H a.2.10.1 15721 b.93.1.1 28438 1esmA 316 3.63e+01 1esmA c.37.1.6 31953 1dpgA 485 3.68e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1lhpA 312 3.69e+01 c.72.1.5 77960 1g71A 347 3.73e+01 1g71A unknown_sccs 43268 1e8yA 966 3.75e+01 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1i0sA 169 3.77e+01 1i0rA b.45.1.2 61491 1rec 201 3.83e+01 1rec a.39.1.5 17326 1adjA 421 3.84e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 1lm4A 194 3.85e+01 d.167.1.1 84626 1sfsA 240 3.86e+01 c.1.8.8 -5407 1jbwA 428 3.90e+01 c.59.1.2 62860 c.72.2.2 62861 1ng6A 148 3.95e+01 a.182.1.1 85670 1h09A 338 3.96e+01 b.109.1.1 83420 c.1.8.8 83421 2tysA 268 3.96e+01 2tysA c.1.2.4 28572 1ex2A 189 3.97e+01 1ex2A c.51.4.2 33225 1p3wA 404 3.97e+01 c.67.1.3 87752 1p0hA 318 3.99e+01 d.108.1.1 -10802 1f75A 249 4.00e+01 1f75A c.101.1.1 59662