# List of top-scoring protein chains for t04-100-30-stride-ebghtl-scores 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 1vjqA 79 4.79e-03 k.43.1.1 100830 1zhvA 134 5.28e-02 1xppA 115 4.00e-01 1yj7A 171 4.04e-01 1hdoA 206 4.72e-01 1he2A c.2.1.2 60965 1obpA 159 6.63e-01 1obpA b.60.1.1 27092 1dzkA 157 7.27e-01 1obpA b.60.1.1 27096 1hn2A 159 7.64e-01 b.60.1.1 65890 1kwmA 402 7.66e-01 c.56.5.1,d.58.3.1 73079,73080 1gt1A 159 7.68e-01 b.60.1.1 90515 1pba 81 7.75e-01 1pytA d.58.3.1 39067 1mkzA 172 8.47e-01 c.57.1.1 84998 1ve1A 304 1.08e+00 1bvoA 175 1.19e+00 1a3qA b.2.5.3 22457 1eexB 224 1.26e+00 1dioB c.51.3.1 33213 1x31C 206 1.37e+00 2cg4A 152 1.69e+00 1rp0A 284 1.81e+00 1umgA 362 2.15e+00 d.280.1.1 107956 1j7xA 302 2.34e+00 c.14.1.2 66425 1gh9A 71 2.57e+00 1gh9A g.41.6.1 45266 1dp4A 435 2.58e+00 1dp4A c.93.1.1 35710 1gnkA 112 2.63e+00 2pii d.58.5.1 39073 1n71A 180 2.78e+00 d.108.1.1 85370 2pii 112 2.84e+00 2pii d.58.5.1 39071 1jd1A 129 3.53e+00 1qu9A d.79.1.1 62890 1s2oA 244 3.66e+00 2f06A 144 3.81e+00 1b87A 181 3.84e+00 1b87A d.108.1.1 40797 2a4nA 182 3.87e+00 1e4yA 214 4.42e+00 1zin c.37.1.1,g.41.2.1 31901,45181 2fqxA 318 4.46e+00 1v8eA 224 4.49e+00 1yqhA 109 4.56e+00 1vd6A 224 4.63e+00 1qd9A 124 4.66e+00 1qu9A d.79.1.1 39758 1b65A 375 5.23e+00 1b65A d.154.1.1 42020 1zvpA 133 5.26e+00 1rtxA 123 5.27e+00 a.1.1.1 97827 1erzA 303 5.54e+00 1erzA d.160.1.2 59498 1w30A 201 5.63e+00 1s69A 124 5.89e+00 a.1.1.1 105305 1p3jA 217 5.90e+00 c.37.1.1,g.41.2.1 94022,94023 1omzA 293 6.30e+00 c.68.1.15 87093 1oo0A 147 6.30e+00 d.232.1.1 87182 1ble 163 6.35e+00 1ble c.38.1.1 32475 1g61A 228 6.50e+00 1g61A d.126.1.1 41126 1cmbA 104 6.54e+00 1cmbA a.43.1.5 17460 1gmuA 143 6.78e+00 b.107.1.1,d.58.38.1 65335,65336 1ea9C 583 6.90e+00 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 2ct8A 497 7.31e+00 2c60A 111 7.61e+00 1rz3A 201 7.63e+00 c.37.1.6 98132 2g0dA 409 7.82e+00 1ta3B 303 8.11e+00 c.1.8.3 106732 1uf5A 303 8.17e+00 d.160.1.2 107808 1nn5A 215 8.44e+00 c.37.1.1 85892 1e2gA 215 8.85e+00 3tmkA c.37.1.1 59165 1lngA 87 9.07e+00 d.201.1.1 74045 1imbA 277 9.09e+00 1imbA e.7.1.1 42957 2hhmA 276 9.13e+00 1imbA e.7.1.1 42955 1e2fA 215 9.48e+00 3tmkA c.37.1.1 59164 1od8A 313 9.69e+00 c.1.8.3 86838 1e0wA 313 9.76e+00 1taxA c.1.8.3 59150 2d1uA 104 9.76e+00 1avoA 60 9.84e+00 1avoA a.24.8.1 16619 1k1xA 659 1.01e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1xhfA 123 1.02e+01 1jyeA 349 1.04e+01 c.93.1.1 67455 1v0lA 313 1.05e+01 c.1.8.3 108207 1mucA 373 1.07e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 1yqtA 538 1.08e+01 2bjiA 277 1.08e+01 2g76A 335 1.09e+01 1ewsA 32 1.10e+01 1ewsA g.9.1.1 59534 1kdgA 546 1.12e+01 c.3.1.2,d.16.1.1 77337,77338 1ukuA 102 1.13e+01 d.58.5.2 99533 2gukA 120 1.19e+01 1oz9A 150 1.20e+01 d.92.1.15 93808 1kfuL 699 1.20e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1e12A 253 1.20e+01 1c3wA f.13.1.1 43428 1tlfA 301 1.21e+01 1tlfA c.93.1.1 35687 1xcbA 211 1.22e+01 a.4.5.38,c.2.1.12 109552,109553 1mzhA 225 1.22e+01 c.1.10.1 79698 1kwgA 645 1.27e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 2ax4A 198 1.28e+01 1jbeA 128 1.28e+01 3chy c.23.1.1 62845 1yrrA 382 1.30e+01 1r1qA 100 1.36e+01 d.93.1.1 104763 1nrwA 288 1.39e+01 c.108.1.10 86128 1m7xA 617 1.39e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1f2tB 148 1.42e+01 1f2tB 1ho1A 242 1.42e+01 1ho1A c.1.24.1 61097 1wdyA 285 1.44e+01 1pytA 94 1.45e+01 1pytA d.58.3.1 39064 1yfnA 118 1.45e+01 1ug8A 87 1.46e+01 d.68.7.1 107825 1sgwA 214 1.47e+01 c.37.1.12 105541 3chy 128 1.52e+01 3chy c.23.1.1 31038 1us5A 314 1.56e+01 c.94.1.1 99856 1k1eA 180 1.61e+01 c.108.1.5 67995 1iqzA 81 1.69e+01 d.58.1.4 66281 1njrA 284 1.70e+01 c.50.1.2 103858 1wd7A 261 1.72e+01 2f6rA 281 1.72e+01 2cvlA 124 1.73e+01 1h6hA 143 1.73e+01 d.189.1.1 65681 1v7rA 186 1.77e+01 c.51.4.1 100482 1oxkB 134 1.86e+01 c.23.1.1 93691 2f8lA 344 1.87e+01 1meoA 209 1.91e+01 c.65.1.1 79035 1s7hA 200 1.92e+01 d.58.48.2 105349 2f60K 64 1.96e+01 1wi6A 88 2.04e+01 1s99A 200 2.05e+01 1x9zA 188 2.05e+01 2gaxA 135 2.06e+01 1w25A 459 2.10e+01 1xiyA 182 2.11e+01 1wcwA 261 2.12e+01 1sxgA 280 2.15e+01 1u5tC 202 2.18e+01 a.4.5.54,a.4.5.54 107688,107689 1jfrA 262 2.18e+01 1jfrA c.69.1.16 34724 1fcjA 322 2.19e+01 1oasA c.79.1.1 35289 1w78A 422 2.24e+01 1m5wA 243 2.27e+01 c.1.24.1 84836 1bupA 386 2.33e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1gpeA 587 2.37e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 2fclA 169 2.38e+01 1wr8A 231 2.43e+01 1e3dA 266 2.45e+01 2frvA e.19.1.1 59188 1kay 381 2.47e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1yxmA 303 2.47e+01 1xb4A 202 2.50e+01 1qu9A 128 2.50e+01 1qu9A d.79.1.1 39755 1ylkA 172 2.51e+01 1vixA 420 2.52e+01 c.56.5.4,d.58.19.1 100777,100778 1eemA 241 2.60e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1fkqA 124 2.66e+01 3lzt d.2.1.2 36601 2basA 431 2.72e+01 1io1A 398 2.75e+01 1io1A e.32.1.1 62611 1cy5A 97 2.87e+01 1cy5A a.77.1.3 18430 1wexA 104 3.01e+01 1y81A 138 3.13e+01 2ewrA 170 3.17e+01 1w8iA 156 3.19e+01 1oewA 329 3.27e+01 b.50.1.2 86924 1y1oA 203 3.30e+01 2d27A 149 3.30e+01 1oxxK 353 3.31e+01 b.40.6.3,c.37.1.12 93715,93716 1ypqA 135 3.35e+01 2er7E 330 3.35e+01 2er7E b.50.1.2 26779 2bnjA 303 3.36e+01 1jofA 365 3.43e+01 b.69.10.1 71775 1rzrA 332 3.50e+01 1vpkA 378 3.51e+01 1ctf 74 3.52e+01 1ctf d.45.1.1 38759 1i1wA 303 3.53e+01 c.1.8.3 76732 1b16A 254 3.53e+01 1b16A c.2.1.2 29875 1ezwA 349 3.57e+01 1ezwA c.1.16.3 29558 1fnoA 417 3.57e+01 d.58.19.1,c.56.5.4 70145,75841 1sbyA 254 3.59e+01 2a5dA 175 3.61e+01 1rf6A 427 3.65e+01 d.68.2.2 97366 1mh9A 197 3.66e+01 c.108.1.8 79118 1vmaA 306 3.70e+01 a.24.13.1,c.37.1.10 108887,108888 1xewY 172 3.71e+01 1vfjA 116 3.71e+01 1wu7A 434 3.73e+01 1io0A 185 3.76e+01 c.10.1.1 76753 1j6wA 175 3.80e+01 1j98A d.185.1.2 62663 1cmcA 104 3.81e+01 1cmbA a.43.1.5 17462 1oxsC 353 3.82e+01 b.40.6.3,c.37.1.12 87519,87520 1v3rA 116 3.84e+01 1ospO 257 3.88e+01 1ospO b.76.1.1 27971 1ve4A 206 3.94e+01 1q92A 197 3.99e+01 c.108.1.8 96250 1zin 217 3.99e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1xd7A 145 4.03e+01 a.4.5.55 109566 1xp8A 366 4.14e+01 1jpmA 366 4.16e+01 c.1.11.2,d.54.1.1 67031,67032 1rybA 212 4.21e+01 c.56.3.1 98098 1kamA 194 4.27e+01 c.26.1.3 72254 1hh2P 344 4.36e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 1wgzA 510 4.37e+01 1lf7A 182 4.40e+01 b.60.1.1 73878 2bepA 159 4.41e+01 1ss9A 311 4.43e+01 c.68.1.4 105978 1x6vA 630 4.45e+01 1dkuA 317 4.48e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1qtnA 164 4.51e+01 1pauA c.17.1.1 30999 1id1A 153 4.51e+01 1id1A c.2.1.9 62286 1m40A 263 4.60e+01 e.3.1.1 74437 1pjqA 457 4.62e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1q1oA 98 4.64e+01 d.15.2.2 95596 1nm2A 317 4.65e+01 c.19.1.1,d.58.23.1 80654,80655 1ii5A 233 4.67e+01 c.94.1.1 62412 2f1kA 279 4.69e+01 1yioA 208 4.70e+01 1qyrA 252 4.70e+01 c.66.1.24 104657 2a8lA 420 4.81e+01 1ermA 263 4.84e+01 1btl e.3.1.1 42690 1tzaA 134 4.93e+01 b.1.23.1 107468 1v6sA 390 4.94e+01 c.86.1.1 100424 1ga8A 311 5.02e+01 1ga8A c.68.1.4 34516 1yzhA 214 5.03e+01 1k0eA 453 5.06e+01 d.161.1.1 67938 1itxA 419 5.11e+01 c.1.8.5,d.26.3.1 71425,71426 1bu8A 452 5.15e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1pjr 724 5.17e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 2fwuA 157 5.22e+01 1fgs 428 5.23e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 1l1qA 186 5.24e+01 c.61.1.1 77653 1dq3A 454 5.25e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1bg4 302 5.25e+01 1taxA c.1.8.3 28806 1w8kA 447 5.26e+01 1chd 203 5.30e+01 1chd c.40.1.1 32478 1qysA 106 5.35e+01 k.41.1.1 96603 1y5eA 169 5.36e+01 2bwnA 401 5.37e+01 1vloA 381 5.56e+01 b.44.2.1,d.250.1.1 108838,108839 1m7vA 363 5.58e+01 d.174.1.1 78748 1f7dA 136 5.63e+01 1dun b.85.4.1 28353 1wxdA 263 5.67e+01 2gbp 309 5.68e+01 1gca c.93.1.1 35657 1gz2A 142 5.75e+01 d.169.1.1 83392 1qahA 136 5.79e+01 d.79.1.1 96338 1hywA 68 5.81e+01 1hywA d.186.1.1 61425 1z3iX 644 5.88e+01 1v8cA 168 6.04e+01 d.15.3.1,d.129.5.1 100495,100496 1vdwA 254 6.07e+01 e.7.1.1 100569 2a5hA 416 6.08e+01 1k7kA 221 6.19e+01 c.51.4.1 72104 1whbA 157 6.27e+01 1wdxA 69 6.27e+01 1nksA 194 6.32e+01 1nksA c.37.1.1 31886 1w1oA 534 6.34e+01 d.58.32.4,d.145.1.1 109071,109072 1btl 263 6.39e+01 1btl e.3.1.1 42691 1a4iA 301 6.44e+01 1a4iA c.2.1.7,c.58.1.2 30278,33926 1vapA 123 6.46e+01 1poa a.133.1.2 19548 1w3oA 216 6.62e+01 1yzyA 413 6.63e+01 1iow 306 6.70e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1sfe 180 6.70e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 2ci1A 275 6.70e+01 1n1cA 217 6.72e+01 a.184.1.1 85254 1e9lA 377 6.72e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1h75A 81 6.78e+01 1h75A c.47.1.1 60716 1ug1A 92 6.82e+01 b.34.2.1 99360 2fiuA 99 6.84e+01 2c36A 285 6.87e+01 1tg0A 68 6.90e+01 2cbzA 237 6.99e+01 2a8mA 420 7.01e+01 1fvuB 125 7.02e+01 1ixxB d.169.1.1 42346 2d5cA 263 7.02e+01 1wb9A 800 7.05e+01 1v5xA 203 7.13e+01 c.1.2.4 100377 1atlA 202 7.16e+01 1atlA d.92.1.9 40322 1wi0A 113 7.26e+01 1idrA 136 7.31e+01 1dlyA a.1.1.1 62301 1xyzA 347 7.36e+01 1taxA c.1.8.3 28804 1nwzA 125 7.40e+01 d.110.3.1 86370 2cy0A 263 7.40e+01 3pyp 125 7.43e+01 3pyp d.110.3.1 40897 1y0hA 105 7.44e+01 1z7lA 276 7.45e+01 1gdvA 85 7.46e+01 1ctj a.3.1.1 60458 1w1hA 151 7.46e+01 2adbA 148 7.53e+01 1e3mA 800 7.59e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1d0qA 103 7.60e+01 1d0qA g.41.3.2 45208 1c0pA 363 7.60e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1lrv 244 7.70e+01 1lrv a.118.1.5 19146 1ccwA 137 7.85e+01 1be1 c.23.6.1 31238 1edg 380 7.86e+01 1edg c.1.8.3 28807 1vp2A 208 7.90e+01 1nr3A 122 7.96e+01 d.236.1.1 86092 1bywA 110 7.98e+01 1bywA d.110.3.6 40912 2g84A 197 7.99e+01 1ogdA 131 8.02e+01 c.133.1.1 92893 1cwxA 44 8.02e+01 1cwxA j.54.1.1 46338 1ogsA 497 8.04e+01 b.71.1.2,c.1.8.3 86997,86998 1fjgP 88 8.05e+01 1emwA d.27.1.1 38444 1mfmA 153 8.06e+01 1mfmA b.1.8.1 22246 1twfJ 70 8.07e+01 2f5tX 233 8.10e+01 2f5uA 447 8.13e+01 1t1vA 93 8.17e+01 c.47.1.14 106278 1r5mA 425 8.19e+01 1yavA 159 8.22e+01 1v2xA 194 8.34e+01 c.116.1.1 100274 1l2tA 235 8.40e+01 c.37.1.12 73514 1bob 320 8.42e+01 1bob d.108.1.1 40816 1f1xA 322 8.42e+01 d.32.1.3,d.32.1.3 83208,83209 2a7mA 250 8.50e+01 1lupA 31 8.65e+01 g.3.6.2 74258 1w27A 714 8.66e+01 1xiwB 79 8.72e+01 1pv5A 264 8.73e+01 d.251.1.1 95150 1v84A 253 8.76e+01 c.68.1.7 108419 1lb2B 84 8.78e+01 a.60.3.1 77871 1n0qA 93 8.89e+01 k.37.1.1 79754