# List of top-scoring protein chains for t2k-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 1ucsA 64 2.40e-03 b.85.1.1 88466 1msi 70 6.31e-03 1msi b.85.1.1 28281 1hg7A 66 7.79e-03 1msi b.85.1.1 28280 1c89A 134 7.66e-02 1msi b.85.1.1 28314 b.85.1.1 28315 1ozjA 144 1.11e+00 d.164.1.1 -11537 1svy 114 1.71e+00 1svy d.109.1.1 40831 2kauA 100 1.88e+00 1ubpA d.8.1.1 37335 1ejxA 100 1.92e+00 d.8.1.1 83182 1fwcA 100 1.92e+00 1ubpA d.8.1.1 37331 1jk7A 323 1.95e+00 1auiA d.159.1.3 63144 1a8h 500 2.27e+00 1a8h a.27.1.1 16922 c.26.1.1 31589 1fjmA 330 2.93e+00 1auiA d.159.1.3 42082 1svq 114 3.05e+00 1svy d.109.1.1 40832 1aim 215 3.59e+00 1cs8A d.3.1.1 37044 1bf2 750 3.73e+00 1bf2 b.1.18.2 21860 b.71.1.1 27787 c.1.8.1 28774 1svr 114 3.83e+00 1svy d.109.1.1 40833 1g1eB 89 3.83e+00 1g1eB a.59.1.1 17931 1mwwA 128 4.06e+00 unknown_sccs -10451 1pne 140 4.11e+00 1pne d.110.1.1 40866 1p4wA 99 4.42e+00 a.4.6.2 87783 1mhdA 132 4.47e+00 1mhdA d.164.1.1 42175 1ka2A 499 4.95e+00 d.92.1.5 77305 1di1A 300 5.03e+00 1di1A a.128.1.4 19446 1fuxA 166 5.07e+00 1fjjA b.17.1.2 60034 1ji0A 240 5.14e+00 c.37.1.12 71665 1vjeA 166 5.35e+00 d.185.1.2 -10261 1innA 166 5.50e+00 1j98A d.185.1.2 62608 1l6pA 125 6.45e+00 b.1.17.1 73626 1eb7A 323 6.48e+00 1eb7A a.3.1.5 59404 a.3.1.5 59405 1asu 162 6.56e+00 1cxqA c.55.3.2 33626 1efcA 393 6.97e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1lj5A 379 7.32e+00 e.1.1.1 73928 1oahA 519 7.84e+00 a.138.1.3 86736 1mai 131 7.99e+00 1mai b.55.1.1 26951 1fil 139 8.75e+00 1pne d.110.1.1 40869 1fuiA 591 8.80e+00 1fuiA b.43.2.1 25674 c.85.1.1 35444 1mgtA 174 8.91e+00 1mgtA a.4.2.1 16078 c.55.7.1 33753 2tmkA 216 8.97e+00 3tmkA c.37.1.1 31928 1me3A 215 9.02e+00 d.3.1.1 79022 1rl2A 137 9.10e+00 1rl2A b.34.5.3 24610 b.40.4.5 25342 1theB 260 9.56e+00 1theB d.3.1.1 37057 1ml9A 302 9.57e+00 b.85.7.1 79282 1theA 260 9.64e+00 1theB d.3.1.1 37056 1vpt 348 9.68e+00 3mag c.66.1.25 34207 1ef8A 261 9.70e+00 1ef8A c.14.1.3 30921 1jpeA 151 9.83e+00 b.1.17.1 77146 1f2aA 215 9.94e+00 1cs8A d.3.1.1 37040 1me4A 215 1.01e+01 d.3.1.1 79023 1fr2B 134 1.05e+01 d.4.1.1 83257 1emvB 134 1.05e+01 1bxiB d.4.1.1 37135 1v5xA 203 1.07e+01 c.1.2.4 -5169 1iu9A 111 1.09e+01 c.78.2.1 -8500 1q16A 1247 1.09e+01 b.52.2.2 -4337 c.81.1.1 -8547 1ao0A 459 1.10e+01 1ecfB c.61.1.1 34049 d.153.1.1 41816 1a7cA 379 1.11e+01 1sek e.1.1.1 42660 1jraA 117 1.16e+01 a.24.15.1 67117 1rypD 241 1.16e+01 1rypD d.153.1.4 41935 1bh9A 45 1.17e+01 1bh9A a.22.1.3 16483 1csbB 205 1.17e+01 1theB 1bxiB 134 1.18e+01 1bxiB d.4.1.1 37136 1rqlA 267 1.18e+01 c.108.1.3 -6814 1b0uA 262 1.22e+01 1b0uA c.37.1.12 32370 1im5A 180 1.26e+01 unknown_sccs 66211 1f37A 110 1.27e+01 1f37A c.47.1.11 33088 1nftA 329 1.27e+01 1nnt c.94.1.2 35881 1jr8A 117 1.27e+01 a.24.15.1 67115 1ile 821 1.29e+01 1ile a.27.1.1 16924 b.51.1.1 26889 c.26.1.1 31591 1p8xA 344 1.29e+01 d.109.1.1 -10813 d.109.1.1 -10814 d.109.1.1 -10815 1iejA 332 1.32e+01 1nnt c.94.1.2 62328 1vybA 238 1.39e+01 1egiA 147 1.39e+01 1eggA d.169.1.1 42331 1uae 419 1.40e+01 1uae d.68.2.2 39574 1hev 43 1.40e+01 1hev g.3.1.1 44060 1pfl 139 1.41e+01 1pne d.110.1.1 40877 1ku2A 241 1.42e+01 a.4.13.1 83096 a.177.1.1 83097 1cxqA 162 1.45e+01 1cxqA c.55.3.2 33621 1r13A 148 1.46e+01 d.169.1.1 -11646 h.1.1.1 -12895 1jflA 228 1.49e+01 c.78.2.1 71656 c.78.2.1 71657 1o0xA 262 1.51e+01 d.127.1.1 80755 1eggA 147 1.51e+01 1eggA d.169.1.1 42333 1omrA 201 1.57e+01 a.39.1.5 -854 3bifA 468 1.58e+01 1bif c.37.1.7 31962 c.60.1.4 34008 2bifA 469 1.58e+01 1bif c.37.1.7 31963 c.60.1.4 34009 8ohm 435 1.59e+01 1heiA c.37.1.14 32469 c.37.1.14 32470 1d3vA 323 1.60e+01 1d3vA c.42.1.1 32559 1kyqA 274 1.61e+01 c.2.1.11 73281 e.37.1.1 73282 1f8gA 384 1.62e+01 1sayA c.2.1.4 59695 c.23.12.2 59696 1l7dA 384 1.62e+01 c.2.1.4 77774 c.23.12.2 77775 1q4rA 112 1.66e+01 d.58.4.4 -9943 1f1sA 814 1.69e+01 a.102.3.2 64928 b.1.18.2 64929 b.24.1.1 64930 b.30.5.2 64931 1anxA 319 1.70e+01 1avc a.65.1.1 18161 1gmyA 261 1.70e+01 d.3.1.1 76236 1bif 469 1.75e+01 1bif c.37.1.7 31961 c.60.1.4 34003 1lba 146 1.76e+01 1lba d.118.1.1 41062 1q9bA 43 1.76e+01 g.3.1.1 -12392 1h6oA 204 1.76e+01 a.146.1.1 60689 1a6dA 545 1.79e+01 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1d0nA 729 1.79e+01 1d0nA d.109.1.1 40834 d.109.1.1 40835 d.109.1.1 40836 d.109.1.1 40837 d.109.1.1 40838 d.109.1.1 40839 1k5dC 386 1.84e+01 c.10.1.2 68170 1oaoA 674 1.86e+01 e.26.1.2 86744 1mlwA 301 1.88e+01 d.178.1.1 79289 1kcqA 104 1.89e+01 d.109.1.1 68449 1ni9A 338 1.91e+01 e.7.1.2 85739 1f4qA 165 1.99e+01 1alvA a.39.1.8 17360 1m1eB 81 2.11e+01 a.161.1.1 78400 1wdcC 156 2.12e+01 1wdcC a.39.1.5 17317 1tqyA 424 2.15e+01 1kkhA 317 2.16e+01 d.14.1.5 72645 d.58.26.3 72646 1tfaA 329 2.22e+01 1nnt c.94.1.2 35880 1ckqA 276 2.22e+01 1ckqA c.52.1.1 33229 1vsd 152 2.22e+01 1cxqA c.55.3.2 33625 1q53A 112 2.23e+01 d.58.4.4 -9944 1i8nA 126 2.25e+01 1i8nA g.10.1.2 61976 1m2aA 110 2.27e+01 c.47.1.11 78472 1e4cP 215 2.27e+01 2fua c.74.1.1 34969 1cl8A 276 2.28e+01 1ckqA c.52.1.1 33230 1m2bA 110 2.30e+01 c.47.1.11 78474 1b71A 191 2.31e+01 1ryt a.25.1.1 16647 g.41.5.1 45246 1dvbA 191 2.31e+01 1ryt a.25.1.1 16645 g.41.5.1 45244 1ryt 190 2.32e+01 1ryt a.25.1.1 16646 g.41.5.1 45245 1lizA 136 2.35e+01 1k94A 165 2.36e+01 a.39.1.8 68333 1m2dA 110 2.37e+01 c.47.1.11 78476 1rpxA 230 2.42e+01 1rpxA c.1.2.2 28536 1gzwA 134 2.44e+01 b.29.1.3 -3412 2fua 215 2.48e+01 2fua c.74.1.1 34977 1nd4A 264 2.51e+01 d.144.1.6 -11381 1fua 215 2.52e+01 2fua c.74.1.1 34973 1a23 189 2.55e+01 1fvkA unknown_sccs -7441 1jdqA 98 2.55e+01 d.68.3.3 66559 1dekA 241 2.59e+01 1dekA c.37.1.1 31842 1tedA 393 2.60e+01 1qqiA 104 2.62e+01 1opc a.4.6.1 16233 1cf2O 337 2.66e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1uheA 97 2.68e+01 1yrgB 385 2.68e+01 1yrgA c.10.1.2 30855 1br2A 791 2.73e+01 1lvk b.34.3.1 24558 c.37.1.9 32155 3tgl 269 2.76e+01 3tgl c.69.1.17 34733 1a4iA 301 2.76e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1r2zA 274 2.85e+01 a.156.1.2 -370 b.113.1.1 -5094 g.39.1.8 -12748 1oohA 126 2.87e+01 a.39.2.1 -884 1f47B 144 2.87e+01 1f46A d.129.4.1 59645 1jbuL 63 2.93e+01 1hcgB g.3.11.1 62857 1pxfA 111 2.95e+01 b.40.4.4 88341 1gxqA 106 2.95e+01 a.4.6.1 70721 1bf5A 545 3.02e+01 1bg1A a.47.1.1 17766 b.2.5.5 22460 d.93.1.1 40526 1k82A 268 3.02e+01 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 1f46A 140 3.02e+01 1f46A d.129.4.1 59643 1squA 155 3.05e+01 unknown_sccs -10229 1euaA 213 3.06e+01 1fwrA c.1.10.1 29155 1wgtA 186 3.11e+01 9wgaA g.3.1.1 44008 g.3.1.1 44009 g.3.1.1 44010 g.3.1.1 44011 2mysB 166 3.12e+01 1wdcB a.39.1.5 17308 1gdoA 240 3.16e+01 1gdoA d.153.1.1 41804 3tmkA 216 3.17e+01 3tmkA c.37.1.1 31920 3pvaA 335 3.17e+01 3pvaA d.153.1.3 41854 1fvkA 189 3.20e+01 1fvkA unknown_sccs -7419 1l1zA 274 3.21e+01 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1k8tA 510 3.22e+01 e.41.1.1 68316 1btmA 252 3.23e+01 1amk c.1.1.1 28513 1ffkS 70 3.26e+01 1ffkS a.2.2.1 15692 1mpgA 282 3.27e+01 1mpgA a.96.1.3 18747 d.129.1.2 41296 1acvA 189 3.27e+01 1fvkA unknown_sccs -7428 3mag 307 3.36e+01 3mag c.66.1.25 34205 1dsbA 189 3.39e+01 1fvkA unknown_sccs -7423 1dlc 584 3.41e+01 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1v39 322 3.42e+01 3mag c.66.1.25 34206 1vp9 322 3.42e+01 3mag c.66.1.25 34210 1kgbA 231 3.43e+01 f.13.1.1 68581 1rec 201 3.47e+01 1rec a.39.1.5 17326 1qpsA 261 3.50e+01 1ckqA c.52.1.1 33234 4rhv3 236 3.51e+01 1aym3 1rlaA 323 3.55e+01 1d3vA c.42.1.1 32561 1ithA 141 3.56e+01 1ithA a.1.1.2 15623 1c3wA 222 3.58e+01 1c3wA f.13.1.1 43405 1nekC 129 3.61e+01 f.21.2.2 80431 1jr1A 514 3.64e+01 c.1.5.1 63241 d.37.1.1 63242 d.37.1.1 63243 1yrgA 385 3.65e+01 1yrgA c.10.1.2 30854 1griA 217 3.67e+01 1griA b.34.2.1 24531 b.34.2.1 24532 d.93.1.1 40473 1r7lA 110 3.67e+01 1oapA 109 3.68e+01 unknown_sccs -10428 1rh5B 74 3.71e+01 unknown_sccs -12198 2pvaA 345 3.71e+01 3pvaA d.153.1.3 41850 1fokA 568 3.72e+01 2fokA a.4.5.12 16137 a.4.5.12 16138 a.4.5.12 16139 c.52.1.12 33325 1ogpA 393 3.72e+01 b.1.18.6 -2744 d.176.1.1 -11708 9wgaA 171 3.76e+01 9wgaA g.3.1.1 44000 g.3.1.1 44001 g.3.1.1 44002 g.3.1.1 44003 1diaA 306 3.83e+01 1a4iA c.2.1.7 30280 c.58.1.2 33928 1ee8A 266 3.89e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1qgrA 876 3.94e+01 1qgrA a.118.1.1 19119