# 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 1ihrA 76 1.79e-13 1ihrA d.212.1.2 62392 1lr0A 129 2.19e-06 d.212.1.1 74213 1obpA 159 2.20e-02 1obpA b.60.1.1 27092 1hn2A 159 2.37e-02 b.60.1.1 65890 1gt1A 159 2.37e-02 b.60.1.1 -4436 1aisA 182 7.67e-02 1ytbA d.129.1.1 41288 d.129.1.1 41289 1ffkI 194 1.38e-01 1ffkI d.12.1.2 37494 1mp9A 198 3.82e-01 a.74.1.2 -1127 a.74.1.2 -1128 1udsA 255 3.96e-01 d.14.1.4 -9055 d.101.1.1 -10745 1n8jA 186 5.68e-01 c.47.1.10 85401 1f5mA 180 5.85e-01 1f5mB d.110.2.1 40895 1f5mB 180 6.05e-01 1f5mB d.110.2.1 40896 1a99A 344 1.26e+00 1pot c.94.1.1 35812 1h77A 605 1.60e+00 1b6sA 355 1.86e+00 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1ri6A 343 1.93e+00 unknown_sccs -4621 1iow 306 2.23e+00 1iow c.30.1.2 31713 d.142.1.1 41481 1llwA 1520 2.35e+00 b.80.4.1 74017 c.1.4.1 74018 d.153.1.1 74019 2dln 306 2.47e+00 1iow c.30.1.2 31715 d.142.1.1 41483 1mogA 67 2.60e+00 d.230.2.1 85034 1gu7A 364 3.18e+00 b.35.1.2 83321 c.2.1.1 83322 1qmvA 197 3.35e+00 1qq2A c.47.1.10 33066 1qq2A 199 3.40e+00 1qq2A c.47.1.10 33064 1kk1A 410 3.50e+00 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1js3A 486 3.78e+00 c.67.1.6 67215 1b6rA 355 3.94e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 5croA 66 4.02e+00 1orc a.35.1.2 17044 1pmmA 466 4.04e+00 c.67.1.6 -8159 1vkdA 338 4.25e+00 1tuhA 156 4.38e+00 1ospO 257 4.78e+00 1ospO b.76.1.1 27971 1orc 71 5.15e+00 1orc a.35.1.2 17054 1lrzA 426 5.20e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1vk8A 106 5.55e+00 1jwyB 315 5.70e+00 c.37.1.8 67401 1p4kA 295 6.14e+00 d.153.1.5 87772 1e25A 282 6.60e+00 1e25A e.3.1.1 42731 1dgsA 667 6.99e+00 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1a78A 134 7.02e+00 1c1lA b.29.1.3 24212 1iwgA 1053 7.28e+00 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1q48A 134 7.73e+00 unknown_sccs -9776 1hi9A 274 8.48e+00 1hi9A c.99.1.1 61063 1o1zA 234 8.64e+00 c.1.18.3 86555 1oyeA 1049 9.17e+00 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1lci 550 9.24e+00 1lci e.23.1.1 43349 4bcl 366 9.43e+00 4bcl b.75.1.1 27968 1iba 101 9.51e+00 1iba d.95.1.1 40567 1quqB 121 9.56e+00 1quqB b.40.4.3 25305 1h8uA 117 9.82e+00 1h8uA d.169.1.1 60793 1a0i 348 9.85e+00 1a0i b.40.4.6 25363 d.142.2.1 41577 1n6zA 105 9.95e+00 unknown_sccs 85369 1rcuA 195 1.02e+01 unknown_sccs -7279 1jx2B 315 1.13e+01 c.37.1.8 67404 1h3iA 293 1.14e+01 b.76.2.1 76635 b.85.7.1 76636 1h7zA 194 1.17e+01 1qhvA b.21.1.1 60733 1jj2L 194 1.19e+01 1ffkI d.12.1.2 63097 1bfg 146 1.23e+01 1bfg b.42.1.1 25485 1o0sA 605 1.25e+01 c.2.1.7 86540 c.58.1.3 86541 1f0kA 364 1.26e+01 1f0kA c.87.1.2 35465 4fgf 146 1.26e+01 1bfg b.42.1.1 25486 2fgf 146 1.27e+01 1bfg b.42.1.1 25487 1lw6E 281 1.34e+01 c.41.1.1 74293 1copD 66 1.36e+01 1orc a.35.1.2 17058 1bla 155 1.44e+01 1bfg b.42.1.1 25502 1h16A 759 1.47e+01 c.7.1.1 76462 1h91A 180 1.48e+01 b.60.1.1 60805 1dkzA 219 1.51e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1pv5A 264 1.55e+01 unknown_sccs -10182 1dfaA 454 1.59e+01 1vdeA b.86.1.2 28375 d.95.2.2 40575 d.95.2.2 40576 1ofdA 1520 1.60e+01 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1gt8A 1025 1.61e+01 a.1.2.2 70418 c.1.4.1 70419 c.3.1.1 70420 c.4.1.1 70421 d.58.1.5 70422 1n2eA 300 1.63e+01 c.26.1.4 85268 1mopA 300 1.63e+01 c.26.1.4 85035 1qb5D 99 1.63e+01 b.40.2.1 88357 1xgsA 295 1.65e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 3cox 507 1.68e+01 1b8sA c.3.1.2 30332 d.16.1.1 37863 1coy 507 1.69e+01 1b8sA c.3.1.2 30333 d.16.1.1 37864 119l 164 1.75e+01 1l92 d.2.1.3 36622 1l92 164 1.77e+01 1l92 d.2.1.3 36629 1ghhA 81 1.78e+01 1ghhA d.57.1.1 38940 1dkxA 219 1.80e+01 1dkzA unknown_sccs -446 unknown_sccs -3061 1crzA 403 1.82e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1gmuA 143 1.86e+01 b.107.1.1 65335 d.58.38.1 65336 2pflA 759 1.87e+01 1cm5A c.7.1.1 30675 1tiiD 99 1.89e+01 1tiiD b.40.2.1 24965 2bc2B 227 1.90e+01 1a7tA d.157.1.1 42032 1eqnA 321 1.92e+01 1dd9A e.13.1.1 43256 1qb0A 211 1.92e+01 1c25 c.46.1.1 32699 3pflA 759 1.93e+01 1cm5A c.7.1.1 30673 1st9A 143 1.94e+01 c.47.1.10 -7503 1dd9A 338 1.95e+01 1dd9A e.13.1.1 43254 1l58 164 1.95e+01 1l92 d.2.1.3 36635 1amp 291 1.98e+01 1amp c.56.5.4 33837 2bc2A 227 1.98e+01 1a7tA d.157.1.1 42031 1pvmA 184 2.03e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1cm5A 759 2.03e+01 1cm5A c.7.1.1 30671 1rvgA 305 2.03e+01 c.1.10.2 -5500 1a3yA 149 2.11e+01 1obpA b.60.1.1 27110 1bpr 191 2.16e+01 1dkzA unknown_sccs 43319 1mqoA 227 2.18e+01 1necA 216 2.19e+01 1vfrA d.90.1.1 40249 1i4uA 181 2.19e+01 b.60.1.1 61732 1efdN 266 2.23e+01 1efdN c.92.2.1 35597 1k1xA 659 2.24e+01 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1g8sA 230 2.25e+01 c.66.1.3 -8047 1l5wA 796 2.25e+01 c.87.1.4 73605 1gmwA 143 2.26e+01 b.107.1.1 65347 d.58.38.1 65348 1kqfA 1015 2.27e+01 b.52.2.2 72871 c.81.1.1 72872 1v25A 541 2.27e+01 1jofA 365 2.29e+01 b.69.10.1 71775 1g0cA 364 2.30e+01 7a3hA c.1.8.3 60165 1ts3A 194 2.33e+01 1aw7A b.40.2.2 25168 d.15.6.1 37757 1s9aA 257 2.38e+01 1fbnA 230 2.40e+01 1fbnA c.66.1.3 34181 1e8uA 454 2.41e+01 1e8tA b.68.1.1 59389 1c3kA 147 2.49e+01 1jotA b.77.3.1 27984 1c3mA 147 2.50e+01 1jotA b.77.3.1 27983 1dkuA 317 2.55e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1feuA 206 2.61e+01 1feuA b.53.1.1 59801 1cnuA 137 2.65e+01 1cof d.109.1.2 40862 1bh9B 89 2.66e+01 1bh9B a.22.1.3 16485 1vlbA 907 2.72e+01 1hlrA 907 2.73e+01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1gthB 1025 2.73e+01 a.1.2.2 70488 c.1.4.1 70489 c.3.1.1 70490 c.4.1.1 70491 d.58.1.5 70492 1gsoA 431 2.76e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1icrA 217 2.76e+01 1vfrA d.90.1.1 62274 1eaxA 241 2.78e+01 b.47.1.2 64889 1gt8B 1025 2.79e+01 a.1.2.2 70423 c.1.4.1 70424 c.3.1.1 70425 c.4.1.1 70426 d.58.1.5 70427 1dgjA 907 2.81e+01 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 1n9lA 109 2.83e+01 d.110.3.6 85468 1mt6A 280 2.86e+01 b.76.2.1 79446 b.85.7.1 79447 1ihmA 530 2.93e+01 1ihmA b.121.4.3 62385 9gafA 295 2.97e+01 1apyA d.153.1.5 42008 1pfo 500 2.97e+01 1pfo f.9.1.1 43826 1hm5A 558 3.11e+01 c.80.1.2 76717 1l1jA 239 3.15e+01 b.47.1.1 84516 1dqrA 557 3.22e+01 1dqrA c.80.1.2 35305 1rboC 123 3.24e+01 1rboC d.73.1.1 39634 1o0xA 262 3.26e+01 d.127.1.1 80755 1gt8D 1025 3.31e+01 a.1.2.2 70433 c.1.4.1 70434 c.3.1.1 70435 c.4.1.1 70436 d.58.1.5 70437 8rucI 123 3.34e+01 1rboC d.73.1.1 39629 1pylA 97 3.34e+01 1cx4A 305 3.35e+01 b.82.3.2 59099 b.82.3.2 59100 1fchA 368 3.39e+01 1fchA a.118.8.1 19212 1ayyA 151 3.42e+01 1apyA d.153.1.5 42016 2occF 98 3.48e+01 2occF g.41.5.3 45256 1lkzA 219 3.48e+01 unknown_sccs 73991 d.58.40.1 73992 1st0A 337 3.49e+01 unknown_sccs -9014 unknown_sccs -9474 1ii7A 333 3.49e+01 1ii7A d.159.1.4 62415 1dkrA 317 3.50e+01 1dkuA c.61.1.2 34114 c.61.1.2 34115 1vcbC 160 3.51e+01 1vcbC b.3.3.1 22535 1i1nA 226 3.66e+01 c.66.1.7 71102 1ugxA 133 3.75e+01 1rtqA 299 3.78e+01 c.56.5.4 -7864 1f3yA 165 3.80e+01 d.113.1.1 59635 1m40A 263 3.83e+01 e.3.1.1 74437 1no5A 114 3.86e+01 unknown_sccs -9785 1dmhA 311 3.86e+01 1dmhA b.3.6.1 22633 1fwqA 123 3.88e+01 1fwqA b.88.1.1 28394 1p32C 209 3.90e+01 1p32A d.25.1.1 38381 1mgrA 99 3.92e+01 d.1.1.2 79106 2sxl 88 3.94e+01 1b7fA d.58.7.1 39179 1usrA 454 3.95e+01 b.68.1.1 -4569 1fnmA 691 4.00e+01 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303