# List of top-scoring protein chains for T0279.t2k-w0.5 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 1jr2A 286 2.18e-24 c.113.1.1 67111 1ru3A 732 2.89e-01 e.26.1.3 -12021 1jscA 630 9.00e-01 c.31.1.3 67224 c.36.1.5 67225 c.36.1.9 67226 1n0hA 677 9.33e-01 c.31.1.3 79734 c.36.1.5 79735 c.36.1.9 79736 1tib 269 1.12e+00 3tgl c.69.1.17 34738 1ixrA 191 1.13e+00 a.60.2.1 76925 b.40.4.2 76926 1gt6A 269 1.33e+00 c.69.1.17 76342 1m72A 272 1.94e+00 c.17.1.1 -7927 1n82A 331 2.24e+00 c.1.8.3 -5306 1pt7A 437 2.55e+00 c.123.1.1 -8762 1fjhA 257 2.55e+00 1fjhB c.2.1.2 29870 1mgtA 174 2.87e+00 1mgtA a.4.2.1 16078 c.55.7.1 33753 1dliA 402 2.90e+00 1dliA a.100.1.4 18809 c.2.1.6 30213 c.26.3.1 31622 1typA 487 3.38e+00 3grs c.3.1.5 30509 c.3.1.5 30510 d.87.1.1 40186 1q7eA 428 3.50e+00 c.123.1.1 -8768 1oaoC 729 3.56e+00 e.26.1.3 86746 1mjgM 729 3.61e+00 e.26.1.3 79204 1tytB 486 3.74e+00 3grs c.3.1.5 30515 c.3.1.5 30516 d.87.1.1 40189 1tytA 487 3.74e+00 3grs c.3.1.5 30513 c.3.1.5 30514 d.87.1.1 40188 2tprA 490 3.87e+00 3grs c.3.1.5 30505 c.3.1.5 30506 d.87.1.1 40184 1fecA 490 3.87e+00 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1edoA 244 3.89e+00 1ybvA c.2.1.2 29896 1uc8A 280 4.41e+00 unknown_sccs -6718 unknown_sccs -11230 1uc9A 280 4.53e+00 unknown_sccs -6720 unknown_sccs -11232 1kp0A 402 4.74e+00 c.55.2.1 72834 d.127.1.1 72835 1d8lA 149 4.99e+00 1hjp a.60.2.1 17948 b.40.4.2 25267 1k44A 136 5.09e+00 d.58.6.1 72033 1v4lB 125 5.15e+00 d.169.1.1 -11630 1hjp 203 5.30e+00 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1cuk 203 5.31e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1m54A 363 5.57e+00 c.79.1.1 74463 1jbqA 435 5.62e+00 1oasA c.79.1.1 62850 1o94A 729 5.75e+00 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1djqA 729 5.76e+00 2tmdA c.1.4.1 28614 c.3.1.1 30315 c.4.1.1 30600 1q14A 361 5.91e+00 c.31.1.5 -6777 1o99A 511 6.31e+00 c.105.1.1 81235 c.76.1.3 81236 1o98A 511 6.40e+00 c.105.1.1 86684 c.76.1.3 86685 1o1xA 155 6.63e+00 c.121.1.1 86553 1mjhA 162 6.86e+00 1mjhA c.26.2.4 31639 1dljA 402 7.01e+00 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1gz5A 456 7.48e+00 c.87.1.6 76406 1ko7A 314 7.49e+00 c.98.2.1 72797 c.91.1.2 72798 1n2zA 245 7.53e+00 c.92.2.2 79865 1b7yA 350 7.57e+00 1pysA d.104.1.1 40776 1n4aA 252 7.58e+00 c.92.2.2 85317 1b1cA 181 7.63e+00 1amoA c.23.5.2 31212 1i60A 278 7.71e+00 c.1.15.4 71118 1uqtA 482 8.11e+00 c.87.1.6 -8593 1iukA 140 8.11e+00 c.2.1.8 83712 1t3zA 427 8.16e+00 1t4cB 427 8.28e+00 1b8kA 119 8.39e+00 1bndA g.17.1.3 44795 1vgqA 427 9.19e+00 1auoA 218 9.21e+00 1auoA c.69.1.14 34716 1isiA 265 9.22e+00 e.4.1.1 71394 1hkuA 358 9.37e+00 c.2.1.4 83557 c.23.12.1 83558 1gvnB 287 9.45e+00 c.37.1.21 76354 1t3nA 388 9.49e+00 1mkp 144 9.61e+00 1vhrA c.45.1.1 32654 1p5hA 428 9.96e+00 c.123.1.1 87802 1pg4A 652 1.02e+01 e.23.1.1 88067 1fs0G 230 1.09e+01 1fs0G c.49.2.1 59999 1jflA 228 1.09e+01 c.78.2.1 71656 c.78.2.1 71657 1omiA 248 1.11e+01 a.4.5.4 87079 b.82.3.3 87080 1nnwA 252 1.15e+01 d.159.1.5 80674 1jzwA 140 1.16e+01 c.47.1.12 67883 1j9bA 141 1.16e+01 c.47.1.12 66459 1t4cA 427 1.18e+01 1mx3A 347 1.19e+01 c.2.1.4 79638 c.23.12.1 79639 1ngvA 534 1.19e+01 c.111.1.2 85698 1xyzA 347 1.21e+01 1taxA c.1.8.3 28804 1r4mA 529 1.21e+01 c.111.1.2 -8276 1cliA 345 1.25e+01 1cliA d.79.4.1 39816 d.139.1.1 41459 1p3jA 217 1.25e+01 c.37.1.1 -6996 g.41.2.1 -12769 1o3uA 135 1.26e+01 a.24.16.3 86615 1thtA 305 1.27e+01 1thtA c.69.1.13 34711 1vgrA 427 1.30e+01 1uch 230 1.31e+01 1uch d.3.1.6 37129 1i6uA 130 1.35e+01 d.140.1.1 61850 1be1 137 1.39e+01 1be1 c.23.6.1 31237 1qr2A 230 1.44e+01 1d4aA c.23.5.3 31231 1cg2A 393 1.45e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1jud 232 1.47e+01 1qq5A c.108.1.1 43325 1bndB 119 1.50e+01 1bndA g.17.1.3 44794 1onfA 500 1.52e+01 c.3.1.5 87141 c.3.1.5 87142 d.87.1.1 87143 1g1yA 585 1.52e+01 1bvzA b.1.18.2 60210 b.71.1.1 60211 c.1.8.1 60212 1d2mA 665 1.53e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1c4oA 664 1.53e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1hzjA 348 1.57e+01 1xel c.2.1.2 61450 1jf6A 585 1.58e+01 b.1.18.2 71650 b.71.1.1 71651 c.1.8.1 71652 1ji2A 585 1.60e+01 b.1.18.2 71672 b.71.1.1 71673 c.1.8.1 71674 1s96A 219 1.63e+01 c.37.1.1 -6972 1qoxA 449 1.64e+01 c.1.8.4 28965 1pr9A 244 1.72e+01 c.2.1.2 -5791 1jl8A 585 1.74e+01 b.1.18.2 63163 b.71.1.1 63164 c.1.8.1 63165 1jvbA 347 1.77e+01 b.35.1.2 77181 c.2.1.1 77182 1ntoA 347 1.79e+01 b.35.1.2 -3669 c.2.1.1 -5693 1v47A 349 1.79e+01 b.122.1.3 -5127 c.26.1.5 -6622 1r6xA 395 1.81e+01 b.122.1.3 -5125 c.26.1.5 -6620 1jf5A 585 1.86e+01 b.1.18.2 71644 b.71.1.1 71645 c.1.8.1 71646 1b00A 127 1.87e+01 3chy c.23.1.1 31122 1i9dA 141 1.93e+01 c.47.1.12 66098 2gfbA 214 1.94e+01 b.1.1.1 19992 b.1.1.2 21046 1ja1A 622 1.95e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1cdwA 179 1.95e+01 1ytbA d.129.1.1 41212 d.129.1.1 41213 1kqpA 271 1.97e+01 c.26.2.1 72883 1ja0A 620 1.99e+01 1amoA b.43.4.1 62798 c.23.5.2 62799 c.25.1.4 62800 1j9zA 622 1.99e+01 1amoA b.43.4.1 62792 c.23.5.2 62793 c.25.1.4 62794 1rxiA 131 1.99e+01 1amoA 615 2.02e+01 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1nf1A 333 2.04e+01 1nf1A a.116.1.2 19110 1mzbA 136 2.05e+01 unknown_sccs -266 1p6gD 205 2.07e+01 i.1.1.1 87822 1r61A 207 2.11e+01 unknown_sccs -6086 1pnuM 111 2.16e+01 i.1.1.1 88210 1nwyM 113 2.17e+01 i.1.1.2 86357 1nkwM 114 2.17e+01 i.1.1.2 80598 1lufA 343 2.22e+01 d.144.1.7 78223 1jg5A 83 2.25e+01 d.205.1.1 66666 1is8K 84 2.26e+01 d.205.1.1 66331 1jecA 510 2.27e+01 b.122.1.3 66595 c.26.1.5 66596 c.37.1.15 66597 1j70A 514 2.28e+01 b.122.1.3 84118 c.26.1.5 84119 c.37.1.15 84120 1nvpA 181 2.31e+01 d.129.1.1 -11002 d.129.1.1 -11003 1dxqA 273 2.31e+01 1d4aA c.23.5.3 31213 1jfiC 185 2.33e+01 1ytbA d.129.1.1 62938 d.129.1.1 62939 1tghA 185 2.34e+01 1ytbA d.129.1.1 41214 d.129.1.1 41215 2dldA 337 2.35e+01 1dxy c.2.1.4 30099 c.23.12.1 31359 1c9bB 180 2.40e+01 1ytbA d.129.1.1 41216 d.129.1.1 41217 1ni9A 338 2.41e+01 e.7.1.2 85739 1udc 338 2.45e+01 1xel c.2.1.2 29785 1kvu 338 2.47e+01 1xel c.2.1.2 29794 1l7bA 92 2.48e+01 c.15.1.2 -6301 1d4fA 431 2.50e+01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1uslA 170 2.51e+01 c.121.1.1 -6682 1npyA 271 2.54e+01 c.2.1.7 85995 c.58.1.5 85996 1p85M 117 2.58e+01 i.1.1.1 87882 1dxy 333 2.59e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 1b7gO 340 2.59e+01 1b7gO c.2.1.3 29992 d.81.1.1 39907 1eno 312 2.70e+01 1enp c.2.1.2 29905 1d4gA 430 2.72e+01 1b3rA c.2.1.4 30114 c.23.12.3 31374 1t6t1 118 2.76e+01 1jcfA 344 2.79e+01 c.55.1.1 62878 c.55.1.1 62879 1g8fA 511 2.80e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1b3rA 431 2.85e+01 1b3rA c.2.1.4 30106 c.23.12.3 31366 1qorA 327 2.86e+01 1qorA b.35.1.2 24766 c.2.1.1 29782 1f4jA 527 2.88e+01 1cf9A e.5.1.1 42798 1fe0A 68 2.91e+01 1cc8A d.58.17.1 39345 1j4aA 333 2.92e+01 c.2.1.4 71502 c.23.12.1 71503 1lrkA 338 2.93e+01 c.2.1.2 74225 1udb 338 2.95e+01 1xel c.2.1.2 29787 1j49A 333 2.96e+01 c.2.1.4 71498 c.23.12.1 71499 1i9cA 137 2.99e+01 c.23.6.1 71136 1dgnA 89 3.00e+01 1dgnA a.77.1.3 18436 1p9lA 245 3.02e+01 c.2.1.3 -5891 d.81.1.3 -10474 1kvr 338 3.12e+01 1xel c.2.1.2 29793 1q7bA 244 3.14e+01 c.2.1.2 -5826 1ek6A 348 3.15e+01 1xel c.2.1.2 29800 1lci 550 3.16e+01 1lci e.23.1.1 43349 1a9y 338 3.17e+01 1xel c.2.1.2 29789 1q7cA 244 3.22e+01 c.2.1.2 -5830 1uzbA 516 3.23e+01 c.82.1.1 -8552 1auz 116 3.23e+01 1auz c.13.2.1 30883 1akeA 214 3.25e+01 1zin c.37.1.1 31905 g.41.2.1 45185 1dn0B 232 3.27e+01 1igtB b.1.1.1 19831 b.1.1.2 20935 1crzA 403 3.33e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1i3kA 348 3.35e+01 1xel c.2.1.2 61595 1lk0A 131 3.36e+01 c.44.1.1 73948 1pw5A 253 3.41e+01 unknown_sccs -6852 1i2sA 282 3.42e+01 e.3.1.1 71104 1pgvA 197 3.43e+01 c.10.1.1 88073 1pu2A 371 3.44e+01 1fh1A 92 3.46e+01 1fh1A i.11.1.1 46014 1qlrB 232 3.46e+01 1igtB b.1.1.1 19835 b.1.1.2 20939 1qftA 175 3.50e+01 1qftA b.60.1.1 27151 1dgfA 497 3.54e+01 1cf9A e.5.1.1 42782 1dghA 498 3.54e+01 1cf9A e.5.1.1 42790 1uf9A 203 3.55e+01 c.37.1.1 -7014 1dghB 498 3.55e+01 1cf9A e.5.1.1 42791 1fbvA 388 3.56e+01 2cblA a.39.1.7 17384 a.48.1.1 17778 d.93.1.1 40532 g.44.1.1 45321 1j8iA 93 3.58e+01 d.9.1.1 66438 1kvq 338 3.59e+01 1xel c.2.1.2 29797 1mut 129 3.60e+01 1tum d.113.1.1 40921 1e85A 127 3.60e+01 1bbhA a.24.3.2 16549 1nwhA 371 3.61e+01 c.2.1.3 -5885 d.81.1.1 -10468 1jl3A 139 3.61e+01 c.44.1.1 66826 1p6qA 129 3.61e+01 1d4xA 375 3.63e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1j5vA 351 3.64e+01 c.72.1.1 71585 1d7oA 297 3.65e+01 1enp c.2.1.2 29907 1jhcA 137 3.65e+01 b.87.1.1 63054 1c5kA 439 3.67e+01 1crzA b.68.4.1 27630 c.51.2.1 33212 1a9z 338 3.68e+01 1xel c.2.1.2 29795 1nfvA 179 3.70e+01 a.25.1.1 85642 1dqwA 267 3.71e+01 1dqwA c.1.2.3 28551 1e4vA 214 3.77e+01 1zin c.37.1.1 31903 g.41.2.1 45183 1b1a 137 3.78e+01 1be1 c.23.6.1 31242 1q2xA 371 3.79e+01 1jchA 551 3.83e+01 b.101.1.1 66491 b.110.1.1 66492 h.4.9.1 66493 1th8B 116 3.85e+01 1ig8A 486 3.91e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 2bnh 457 3.93e+01 1a4yA c.10.1.1 30850