# List of top-scoring protein chains for t04-100-30-str2 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 1qk8A 146 4.24e-05 1ewxA c.47.1.10 33061 1o8xA 146 5.77e-05 c.47.1.10 86681 1i5gA 144 9.31e-05 1ewxA c.47.1.10 61784 1v6fA 151 2.05e-03 1v58A 241 2.12e-03 1lu4A 136 1.14e-02 c.47.1.10 -7509 1r26A 125 2.63e-02 c.47.1.1 -7389 1osdA 72 3.70e-02 1bed 181 4.12e-02 1fvkA unknown_sccs -7444 1eejA 216 2.73e-01 1eejA c.47.1.9 33057 d.17.3.1 38071 2acy 98 3.43e-01 2acy d.58.10.1 39298 1josA 128 4.15e-01 d.52.7.1 84191 1nw2A 105 4.66e-01 c.47.1.1 -7380 1erv 105 4.91e-01 1erv c.47.1.1 32743 1ctn 540 6.00e-01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1faaA 124 6.65e-01 1erv c.47.1.1 32738 1kmqA 184 7.23e-01 c.37.1.8 84412 1f7sA 139 7.43e-01 1cof d.109.1.2 40857 1rro 108 7.84e-01 1a75A a.39.1.4 17195 1a8l 226 8.13e-01 1a8l c.47.1.2 32777 c.47.1.2 32778 1aiu 105 8.59e-01 1erv c.47.1.1 32746 1fb6A 105 9.17e-01 1thx c.47.1.1 32739 1f9mA 112 9.34e-01 1erv c.47.1.1 32736 1a7tA 232 1.04e+00 1a7tA d.157.1.1 42041 1tx4B 178 1.04e+00 1ctqA c.37.1.8 32045 1j08A 226 1.07e+00 c.47.1.2 83855 c.47.1.2 83856 1edqA 540 1.13e+00 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1hd2A 161 1.13e+00 c.47.1.10 60962 1eemA 241 1.17e+00 1eemA a.45.1.1 17717 c.47.1.5 33011 1thx 115 1.26e+00 1thx c.47.1.1 32732 1h8mA 140 1.41e+00 1h8mA d.110.4.1 60782 1jfuA 186 1.45e+00 c.47.1.10 62940 1j5pA 253 1.48e+00 c.2.1.3 83092 d.81.1.3 71577 1e0bA 68 1.51e+00 1e0bA b.34.13.2 37476 1grx 85 1.89e+00 1kte c.47.1.1 32766 1fvkA 189 2.05e+00 1fvkA unknown_sccs -7419 1st9A 143 2.11e+00 c.47.1.10 -7503 1acvA 189 2.33e+00 1fvkA unknown_sccs -7428 1f46A 140 2.75e+00 1f46A d.129.4.1 59643 1uc2A 481 2.84e+00 unknown_sccs -11725 1dozA 309 2.88e+00 1ak1 c.92.1.1 35592 1v0wA 506 2.94e+00 1t95A 240 3.30e+00 1at3A 247 3.35e+00 1at3A b.57.1.1 27021 2ptd 298 3.64e+00 2plc c.1.18.2 29605 2trxA 108 3.66e+00 1thx c.47.1.1 32719 1ako 268 3.74e+00 1ako d.151.1.1 41779 1h9sA 140 3.80e+00 1b9mA b.40.6.2 60843 b.40.6.2 60844 1f0iA 504 4.50e+00 1f0iA d.136.1.2 59566 d.136.1.2 59567 1ci3M 249 4.66e+00 1hcz b.2.6.1 22480 b.84.2.2 28266 1iyrA 111 4.68e+00 a.164.1.1 76973 1cc8A 73 4.88e+00 1cc8A d.58.17.1 39343 1b9mA 265 5.09e+00 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1k3sA 113 5.45e+00 d.198.1.1 68120 1uwvA 433 5.53e+00 unknown_sccs -3950 unknown_sccs -8107 1qpcA 279 6.29e+00 1fgkA d.144.1.7 41685 1dpe 507 6.34e+00 1dpe c.94.1.1 35799 1cl8A 276 6.35e+00 1ckqA c.52.1.1 33230 1bn7A 294 6.36e+00 1bn6A c.69.1.8 34677 1iloA 77 6.57e+00 c.47.1.1 66205 1nvmB 312 6.71e+00 c.2.1.3 86251 d.81.1.1 86252 1fp3A 402 7.08e+00 1fp3A a.102.1.3 18842 1gx1A 160 7.48e+00 d.79.5.1 70675 1kte 105 7.55e+00 1kte c.47.1.1 32771 1dmhA 311 8.05e+00 1dmhA b.3.6.1 22633 1seiA 130 8.31e+00 1seiA d.140.1.1 41463 1gudA 288 8.50e+00 c.93.1.1 83326 1tib 269 1.00e+01 3tgl c.69.1.17 34738 1ed5A 444 1.04e+01 1nseA d.174.1.1 42530 1fvgA 199 1.05e+01 1fvaA d.58.28.1 39408 1huqA 164 1.07e+01 1byuA c.37.1.8 32020 1gt6A 269 1.07e+01 c.69.1.17 76342 1lxiA 139 1.09e+01 g.17.1.2 84735 1e8gA 560 1.10e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1ermA 263 1.12e+01 1btl e.3.1.1 42690 1btl 263 1.12e+01 1btl e.3.1.1 42691 1drw 273 1.18e+01 1drw c.2.1.3 30057 d.81.1.3 39972 1oz9A 150 1.19e+01 unknown_sccs -10588 1p49A 562 1.22e+01 c.76.1.2 -8432 1kid 203 1.22e+01 1derA c.8.5.1 30771 1qmvA 197 1.24e+01 1qq2A c.47.1.10 33066 1odkA 235 1.25e+01 c.56.2.1 86863 7a3hA 303 1.25e+01 7a3hA c.1.8.3 28817 1ek6A 348 1.35e+01 1xel c.2.1.2 29800 1d1vA 444 1.37e+01 1nseA d.174.1.1 59101 1d0cA 444 1.37e+01 d.174.1.1 64769 1ccwB 483 1.37e+01 1cb7B c.1.19.2 29646 1dvoA 152 1.39e+01 1dvoA a.136.1.1 19623 1g2oA 268 1.39e+01 1b8oA c.56.2.1 60228 1i52A 236 1.41e+01 1i52A c.68.1.13 61767 1rpjA 288 1.47e+01 2dri c.93.1.1 35656 1sdjA 310 1.51e+01 d.21.1.2 -9420 d.21.1.2 -9421 1edzA 320 1.52e+01 1ee9A c.2.1.7 30287 c.58.1.2 33935 1cjxA 357 1.55e+01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1qlaB 239 1.58e+01 1qlaB a.1.2.1 15679 d.15.4.2 37707 1i1qB 192 1.58e+01 1qdlB c.23.16.1 61544 1mwyA 73 1.59e+01 d.58.17.1 79616 2pil 159 1.62e+01 2pil d.24.1.1 38376 1mfmA 153 1.62e+01 1mfmA b.1.8.1 22246 1ek0A 170 1.62e+01 1ctqA c.37.1.8 32076 3rubS 123 1.64e+01 1rboC d.73.1.1 39616 1ojrA 274 1.66e+01 c.74.1.1 -8441 1p9qC 256 1.72e+01 1aqb 183 1.73e+01 1aqb b.60.1.1 27084 1oapA 109 1.77e+01 unknown_sccs -10428 1dkuA 317 1.81e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1gpmA 525 1.82e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1hjrA 158 1.85e+01 1hjrA c.55.3.6 33727 1o0pA 104 1.89e+01 d.58.7.1 86535 1bouB 302 1.90e+01 1bouB c.56.6.1 33859 1k38A 254 1.91e+01 e.3.1.1 84303 1ug6A 431 1.92e+01 c.1.8.4 88490 1fcdA 401 2.00e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1rj9A 304 2.05e+01 a.24.13.1 -631 c.37.1.10 -7129 1a48 306 2.08e+01 1a48 d.143.1.1 41590 1fjnA 39 2.08e+01 1fjnA g.3.7.3 44171 1nffA 260 2.11e+01 c.2.1.2 80457 1pa4A 116 2.13e+01 d.52.7.1 -9780 1jclA 260 2.14e+01 c.1.10.1 66501 1kl1A 419 2.15e+01 c.67.1.4 72663 1em2A 229 2.15e+01 1em2A d.129.3.2 41321 1c0eA 157 2.15e+01 1dg9A c.44.1.1 32638 1ky3A 182 2.17e+01 c.37.1.8 73193 1xxaA 78 2.20e+01 1xxaA d.74.2.1 39700 1cb0A 283 2.20e+01 1cb0A c.56.2.1 33790 1p1xA 260 2.21e+01 1nukA 183 2.21e+01 1nukA b.18.1.4 23721 1om4A 422 2.26e+01 d.174.1.1 87067 1urrA 102 2.30e+01 1obdA 306 2.32e+01 d.143.1.1 86767 1q45A 391 2.34e+01 c.1.4.1 -5199 1dg9A 157 2.40e+01 1dg9A c.44.1.1 32637 1nxuA 333 2.41e+01 c.122.1.1 86389 1jksA 294 2.43e+01 d.144.1.7 71710 1lci 550 2.48e+01 1lci e.23.1.1 43349 1p65A 73 2.49e+01 unknown_sccs -10331 1ceo 343 2.49e+01 1ceo c.1.8.3 28808 1jyoA 130 2.51e+01 d.198.1.1 67483 1cwvA 492 2.59e+01 1cwvA b.1.14.1 22373 b.1.14.1 22374 b.1.14.1 22375 b.1.14.1 22376 d.169.1.3 42442 1qsgA 265 2.61e+01 1eny c.2.1.2 29935 1m40A 263 2.64e+01 e.3.1.1 74437 1b5tA 275 2.71e+01 1b5tA c.1.23.1 29676 1auk 489 2.75e+01 1auk c.76.1.2 35030 1om1A 332 2.86e+01 d.144.1.7 -11318 1mo9A 523 2.87e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1l3iA 192 2.89e+01 c.66.1.22 77676 1kt6A 183 2.91e+01 b.60.1.1 84466 1fhgA 154 3.00e+01 1tlk b.1.1.4 21706 1rwiA 270 3.13e+01 unknown_sccs -4603 1sh0A 510 3.15e+01 e.8.1.4 -11949 1tlk 154 3.16e+01 1tlk b.1.1.4 21707 1vknA 351 3.17e+01 1q08A 99 3.22e+01 a.6.1.3 -381 1dyr 206 3.23e+01 1aoeA c.71.1.1 34916 1bia 321 3.24e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1oyc 400 3.34e+01 1oyc c.1.4.1 28603 1m2rA 327 3.35e+01 d.144.1.7 84760 1vhh 162 3.36e+01 1vhh d.65.1.2 39550 1ua4A 455 3.37e+01 c.72.1.3 -8416 1dzfA 215 3.38e+01 1dzfA c.52.3.1 33344 d.78.1.1 39753 1jhdA 396 3.43e+01 b.122.1.3 66712 c.26.1.5 66713 1tfr 305 3.46e+01 1tfr a.60.7.1 18081 c.120.1.2 33351 1sxjE 354 3.51e+01 1mwpA 96 3.53e+01 1mwpA d.170.2.1 42453 1kgyA 181 3.56e+01 b.18.1.4 72449 1r2qA 170 3.57e+01 c.37.1.8 -7071 1itxA 419 3.58e+01 c.1.8.5 71425 d.26.3.1 71426 1oe9A 795 3.60e+01 b.34.3.1 -3581 c.37.1.9 -7103 1ush 550 3.64e+01 1ush d.114.1.1 40923 d.159.1.2 42079 1knb 196 3.68e+01 1qhvA b.21.1.1 23841 1iujA 106 3.69e+01 unknown_sccs -9953 1cruA 454 3.73e+01 1c9uA b.68.2.1 27617 1j1hA 144 3.75e+01 b.111.1.1 77056 1euvA 221 3.75e+01 1euvA d.3.1.7 37133 1q7bA 244 3.83e+01 c.2.1.2 -5826 1fsz 372 3.83e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1hh8A 213 3.88e+01 1e96B a.118.8.1 61042 1ne9A 335 3.91e+01 d.108.1.4 -10805 d.108.1.4 -10806 1rgxA 114 3.94e+01 1ltlA 279 3.95e+01 b.40.4.11 84701 1b7gO 340 3.95e+01 1b7gO c.2.1.3 29992 d.81.1.1 39907