# List of top-scoring protein chains for t04-100-30-dssp-ebghstl 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 1nb8A 353 4.71e-48 d.3.1.9 80385 1ogwA 76 7.96e-05 d.15.1.1 87001 1ubi 76 1.02e-04 1ubi d.15.1.1 37584 1bt0A 76 1.04e-03 1ubi d.15.1.1 37607 1vcbA 118 2.66e-03 1vcbA d.15.1.1 37603 1lm8B 118 3.67e-03 d.15.1.1 74033 1nddA 76 4.35e-03 1ubi d.15.1.1 37599 1hleA 345 1.22e-01 1ovaA e.1.1.1 42618 1euvB 86 2.37e-01 1a5r d.15.1.1 37598 1uhgA 385 2.93e-01 e.1.1.1 88491 1f83A 425 2.93e-01 1f82A d.92.1.7 40306 1ovaA 386 2.99e-01 1ovaA e.1.1.1 42619 1d1vA 444 3.22e-01 1nseA d.174.1.1 59101 1d0cA 444 3.49e-01 d.174.1.1 64769 1ift 263 4.11e-01 1mrj d.165.1.1 42211 1ed5A 444 5.40e-01 1nseA d.174.1.1 42530 1rwzA 245 8.21e-01 d.131.1.2 -11106 d.131.1.2 -11107 1k6kA 143 9.17e-01 a.174.1.1 77274 1ltlA 279 9.40e-01 b.40.4.11 84701 1dbhA 354 9.72e-01 1awe a.87.1.1 18514 b.55.1.1 26967 1t0yA 122 1.00e+00 d.15.1.1 -9151 1uq5A 263 1.04e+00 d.165.1.1 -11555 1a7cA 379 1.09e+00 1sek e.1.1.1 42660 1exrA 148 1.40e+00 1cll a.39.1.5 17299 1lj5A 379 1.64e+00 e.1.1.1 73928 1rpa 342 1.66e+00 1cviA c.60.1.2 33983 1f2rI 100 1.67e+00 1c9fA d.15.2.1 37641 1cqxA 403 1.79e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1s6cA 183 1.81e+00 a.39.1.5 -858 1uurA 473 2.10e+00 a.47.1.1 -968 b.2.5.5 -2904 d.93.1.1 -10632 1gg3A 279 2.16e+00 1ef1A a.11.2.1 16372 b.55.1.5 27007 d.15.1.4 37615 1ef1A 294 2.34e+00 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1hkfA 122 2.41e+00 b.1.1.1 83553 1q1aA 289 2.48e+00 c.31.1.5 -6781 1epwA 1290 2.83e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1jrrA 382 2.98e+00 e.1.1.1 63256 1oglA 283 3.36e+00 unknown_sccs -1512 1khvA 516 3.64e+00 e.8.1.4 68627 1avsA 90 3.67e+00 1cll a.39.1.5 17226 1n62A 166 3.86e+00 a.56.1.1 80090 d.15.4.2 80091 1scfA 273 4.13e+00 1exzA a.26.1.2 16873 1f9vA 347 4.40e+00 1bg2 c.37.1.9 59745 1kk1A 410 5.25e+00 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1fnnA 389 5.35e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1nzjA 298 5.43e+00 c.26.1.1 -6600 1o7nB 194 5.56e+00 d.17.4.4 81164 1i6iA 366 6.04e+00 1bg2 c.37.1.9 61844 1khdA 345 6.05e+00 a.46.2.1 77400 c.27.1.1 77401 1eg9B 194 6.26e+00 1ndoB d.17.4.4 38120 1psrA 100 6.39e+00 1psrA a.39.1.2 17180 1mtpA 323 6.96e+00 e.1.1.1 85107 1ni3A 392 7.15e+00 c.37.1.8 80531 d.15.10.2 80532 1egaA 301 7.36e+00 1egaA c.37.1.8 32150 d.52.3.1 38836 1p4xA 250 7.44e+00 a.4.5.28 87784 a.4.5.28 87785 1j1vA 94 7.76e+00 a.4.12.2 83981 1hq3C 136 7.80e+00 1aoiA a.22.1.1 16454 2cblA 305 8.15e+00 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1mrj 247 8.54e+00 1mrj d.165.1.1 42177 1j55A 95 8.81e+00 a.39.1.2 77078 1qwzA 235 9.15e+00 b.100.1.1 -4543 1vjoA 393 9.28e+00 c.67.1.3 -8173 1j8uA 325 9.56e+00 d.178.1.1 71611 1kk8B 139 1.06e+01 a.39.1.5 77430 1lfdA 87 1.06e+01 1lfdA d.15.1.5 37622 1qmyA 167 1.08e+01 1qmyA d.3.1.2 37094 1nzyA 269 1.09e+01 1nzyA c.14.1.3 30903 1h3nA 878 1.10e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1a32 88 1.10e+01 1a32 a.16.1.2 16384 1bgc 174 1.11e+01 1bgc a.26.1.1 16822 1g5hA 454 1.11e+01 1g5hA c.51.1.1 60270 d.104.1.1 60271 1dixA 208 1.21e+01 1bk7A d.124.1.1 41122 1fvuB 125 1.23e+01 1ixxB d.169.1.1 42346 2hpaA 342 1.25e+01 1cviA c.60.1.2 33985 1qpaA 345 1.32e+01 1arv a.93.1.1 18585 1guzA 310 1.33e+01 c.2.1.5 65586 d.162.1.1 65587 4pah 308 1.38e+01 4pah d.178.1.1 42576 1eg3A 261 1.38e+01 1eg3A a.39.1.7 17376 a.39.1.7 17377 b.72.1.1 27805 1jmtA 104 1.40e+01 d.58.7.3 63180 1rvgA 305 1.42e+01 c.1.10.2 -5500 2ng1 293 1.44e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1ig8A 486 1.45e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1wdcB 156 1.45e+01 1wdcB a.39.1.5 17302 1qxfA 66 1.46e+01 g.41.8.4 -12822 1ggzA 148 1.49e+01 a.39.1.5 70176 1rdg 53 1.50e+01 1rb9 g.41.5.1 45221 1bq9A 54 1.56e+01 1rb9 g.41.5.1 45238 1spxA 278 1.57e+01 c.2.1.2 -5870 1qb2A 109 1.60e+01 1qb2A a.36.1.1 17125 1k5nA 276 1.60e+01 b.1.1.2 77266 d.19.1.1 77267 1fiy 883 1.62e+01 1fiy c.1.12.3 29307 1brfA 53 1.63e+01 1rb9 g.41.5.1 45236 1itg 166 1.64e+01 1b9dA c.55.3.2 33661 1jqnA 883 1.72e+01 c.1.12.3 77159 1uch 230 1.72e+01 1uch d.3.1.6 37129 1hekA 131 1.82e+01 a.61.1.5 65818 1fp2A 352 1.82e+01 1fpxA a.4.5.29 59941 c.66.1.12 59942 2cb5A 453 1.83e+01 3gcb d.3.1.1 37035 1ru8A 232 1.84e+01 c.26.2.1 -6635 1mu5A 471 1.85e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1i5pA 633 1.87e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1t2aA 375 1.90e+01 c.2.1.2 -5764 1v2yA 105 1.90e+01 d.15.1.1 -9148 1abrA 251 1.98e+01 1mrj d.165.1.1 42196 1thtA 305 2.09e+01 1thtA c.69.1.13 34711 1uroA 367 2.09e+01 1uroA c.1.22.1 29675 1mzbA 136 2.10e+01 unknown_sccs -266 1jfmA 174 2.14e+01 d.19.1.1 66640 1sqgA 429 2.22e+01 1c1yB 77 2.27e+01 1c1yB d.15.1.5 37618 1mg7A 417 2.32e+01 d.14.1.6 84954 d.58.26.6 84955 1vjuA 309 2.32e+01 unknown_sccs -9594 1cjbA 231 2.33e+01 1qk3A c.61.1.1 34079 1r0wA 286 2.33e+01 c.37.1.12 -7158 1auiB 169 2.38e+01 1auiB a.39.1.5 17325 1ls1A 295 2.43e+01 a.24.13.1 78170 c.37.1.10 78171 1k9uA 78 2.46e+01 a.39.1.10 84348 1fds 327 2.47e+01 1fds c.2.1.2 29838 1mho 88 2.48e+01 1b4cA a.39.1.2 17171 1a4pA 96 2.50e+01 1b4cA a.39.1.2 17176 1kx5A 135 2.56e+01 a.22.1.1 77593 1jb0D 138 2.58e+01 1jb0D d.187.1.1 62823 1vjhA 122 2.58e+01 d.129.3.1 -11037 1g66A 207 2.62e+01 1bs9 unknown_sccs 31329 1e4fT 419 2.63e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1f5nA 592 2.64e+01 1dg3A a.114.1.1 19077 c.37.1.8 32152 1r3sA 367 2.68e+01 c.1.22.1 -5648 1o5xA 248 2.69e+01 c.1.1.1 -5157 1i37A 260 2.70e+01 1a28A a.123.1.1 61583 1pbwA 216 2.72e+01 1pbwA a.116.1.1 19103 1lyxA 248 2.74e+01 c.1.1.1 78304 1ov3A 138 2.77e+01 b.34.2.1 87451 b.34.2.1 87452 1bgp 309 2.79e+01 1bgp a.93.1.1 18690 1id0A 152 2.82e+01 d.122.1.3 66111 1oktA 211 2.83e+01 a.45.1.1 -942 c.47.1.5 -7467 1s5dA 240 2.84e+01 d.166.1.1 -11563 1nw3A 416 2.86e+01 c.66.1.31 86288 1d3yA 301 2.87e+01 1d3yA e.12.1.1 43252 1mijA 152 2.91e+01 a.4.1.1 79150 1el4A 195 3.02e+01 1ej3A a.39.1.5 59453 1mlwA 301 3.04e+01 d.178.1.1 79289 1foeA 377 3.09e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1nvpD 108 3.11e+01 a.32.1.1 -782 b.56.1.1 -4386 1rp4A 389 3.14e+01 1jflA 228 3.22e+01 c.78.2.1 71656 c.78.2.1 71657 1ryt 190 3.33e+01 1ryt a.25.1.1 16646 g.41.5.1 45245 1b71A 191 3.35e+01 1ryt a.25.1.1 16647 g.41.5.1 45246 1lt3A 240 3.44e+01 1lt3A d.166.1.1 42230 1zrn 232 3.54e+01 1qq5A c.108.1.1 43323 1ig5A 75 3.55e+01 4icb a.39.1.1 62363 1a7j 290 3.58e+01 1a7j c.37.1.6 31952 1jtvA 327 3.65e+01 c.2.1.2 84230 1cmiA 85 3.66e+01 1cmiA d.39.1.1 38551 1dhkB 223 3.69e+01 1led b.29.1.1 24157 1uvqB 198 3.72e+01 b.1.1.2 -2659 d.19.1.1 -9348 1d8dA 377 3.72e+01 1ft1A a.118.6.1 19185 1kx5B 102 3.72e+01 a.22.1.1 77594 1dvkA 173 3.75e+01 1dvkA a.72.1.1 18319 1v2dA 381 3.77e+01 6rxn 46 3.81e+01 1rb9 g.41.5.1 45222 1jofA 365 3.85e+01 b.69.10.1 71775 1dazC 99 3.85e+01 1hvc b.50.1.1 26501 1sctB 151 3.86e+01 3sdhA a.1.1.2 15003 2gsaA 432 3.88e+01 2gsaA c.67.1.4 34446 1ppa 121 3.94e+01 1poa a.133.1.2 19550 1sdwA 314 3.98e+01 b.121.1.2 -3024 b.121.1.2 -3025 1gvjA 146 3.99e+01 a.4.5.21 -293