# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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 2gfgA 193 2.22e-01 1y2qA 143 3.46e-01 1vpjA 192 3.84e-01 1ckv 141 8.05e-01 1ckv d.137.1.1 41452 1vmbA 140 8.64e-01 1mp9A 198 9.25e-01 d.129.1.1,d.129.1.1 91385,91386 1u94A 356 1.68e+00 c.37.1.11,d.48.1.1 107743,107744 2reb 352 1.78e+00 2reb c.37.1.11,d.48.1.1 32282,38767 1vljA 407 2.23e+00 e.22.1.2 108832 1e2uA 553 2.56e+00 1e1dA e.26.1.1 43362 1gntA 553 2.56e+00 e.26.1.1 70290 1vetB 125 2.63e+00 d.110.7.1 108554 1atiA 505 3.28e+00 1atiA c.51.1.1,d.104.1.1 33196,40745 1ofuA 320 3.75e+00 c.32.1.1,d.79.2.1 86972,86973 1skoB 130 4.30e+00 d.110.7.1 105677 1ockA 412 4.50e+00 c.117.1.1 86802 1nx8A 273 4.57e+00 b.82.2.8 86374 1ufkA 254 4.83e+00 c.66.1.39 99340 1s69A 124 4.89e+00 a.1.1.1 105305 1dlyA 164 5.54e+00 1dlyA a.1.1.1 14983 1g6hA 257 5.62e+00 1gajA c.37.1.12 60318 1rtxA 123 5.72e+00 a.1.1.1 97827 1y0uA 96 6.36e+00 1gnlA 544 6.73e+00 e.26.1.1 70287 1tzjA 338 7.22e+00 1xqaA 113 7.69e+00 1wqaA 455 7.81e+00 1v6tA 255 7.95e+00 1sesA 421 8.20e+00 1sesA a.2.7.1,d.104.1.1 15710,40710 1aisA 182 8.59e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1u14A 172 8.59e+00 c.51.4.3 107579 1oz9A 150 8.63e+00 d.92.1.15 93808 1dtwB 342 9.21e+00 1qs0B c.36.1.7,c.48.1.2 31828,33102 1wy7A 207 9.37e+00 1jl0A 334 9.41e+00 1jenA d.156.1.1 63155 1gwyA 175 1.02e+01 b.97.1.1 83356 1obbA 480 1.04e+01 c.2.1.5,d.162.1.2 86760,86761 2acvA 463 1.09e+01 2ci1A 275 1.11e+01 1xxlA 239 1.14e+01 1kyqA 274 1.16e+01 c.2.1.11,e.37.1.1 73281,73282 1fx2A 235 1.18e+01 1fx2A d.58.29.1 39430 1x7yB 342 1.25e+01 1fm0E 150 1.28e+01 1fmaE d.41.5.1 38629 1v1rB 342 1.28e+01 c.36.1.7,c.48.1.2 108273,108274 1m55A 197 1.29e+01 d.89.1.3 74469 1qhtA 775 1.29e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1fyeA 229 1.31e+01 1fyeA c.23.16.4 31477 1nv8A 284 1.33e+01 c.66.1.30 86224 2bfdB 345 1.34e+01 1olsB 342 1.37e+01 c.36.1.7,c.48.1.2 93332,93333 1tikA 213 1.37e+01 c.23.5.3 107003 1us5A 314 1.39e+01 c.94.1.1 99856 1j8yF 297 1.42e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1vdxA 184 1.42e+01 1qtoA 122 1.46e+01 1bylA d.32.1.2 38494 1ubeA 349 1.49e+01 c.37.1.11,d.48.1.1 88412,88413 1vhoA 346 1.49e+01 b.49.3.1,c.56.5.4 100694,100695 1n3yA 198 1.50e+01 c.62.1.1 79976 2abwA 227 1.54e+01 1ka1A 357 1.57e+01 e.7.1.1 68369 1j98A 157 1.57e+01 1j98A d.185.1.2 62755 1vgjA 184 1.57e+01 1qgxA 357 1.57e+01 1qgxA e.7.1.1 42973 1u7iA 136 1.58e+01 d.32.1.7 107724 1xmxA 385 1.61e+01 1eziA 228 1.68e+01 1eyrA c.68.1.13 34512 1v5vA 401 1.71e+01 1pvgA 418 1.76e+01 d.14.1.3,d.122.1.2 95161,95162 1cliA 345 1.81e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1t5bA 201 1.81e+01 c.23.5.3 106433 1gx5A 536 1.85e+01 e.8.1.4 70682 1vhwA 253 1.90e+01 c.56.2.1 100706 2a35A 215 1.96e+01 1xsnA 335 2.03e+01 1e8pA 46 2.03e+01 g.55.1.1 59385 1jv1A 505 2.07e+01 c.68.1.5 71892 1q9jA 422 2.15e+01 c.43.1.2,c.43.1.2 104590,104591 1tv8A 340 2.16e+01 c.1.28.3 107352 1gudA 288 2.26e+01 c.93.1.1 83326 2g7zA 282 2.30e+01 1cc8A 73 2.33e+01 1cc8A d.58.17.1 39343 1rp4A 389 2.34e+01 a.227.1.1 105027 1tqjA 230 2.38e+01 c.1.2.2 107228 1qqcA 773 2.48e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1wvcA 259 2.48e+01 1xx1A 285 2.55e+01 1tzfA 259 2.56e+01 c.68.1.13 107476 1twuA 139 2.57e+01 d.32.1.8 107413 1kg0C 136 2.59e+01 d.169.1.1 72445 2bkqA 212 2.60e+01 1nf8A 207 2.62e+01 c.33.1.3 85630 1dosA 358 2.69e+01 1dosA c.1.10.2 29175 1nm2A 317 2.71e+01 c.19.1.1,d.58.23.1 80654,80655 1o59A 355 2.73e+01 b.18.1.22,b.18.1.22 92495,92496 1r89A 437 2.75e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1z4rA 168 2.76e+01 1pv9A 348 2.76e+01 c.55.2.1,d.127.1.1 95157,95158 1xa3A 437 2.78e+01 1wwhA 119 2.87e+01 1svy 114 2.91e+01 1svy d.109.1.1 40831 1wryA 121 2.91e+01 1b5eA 246 2.99e+01 1b5eA d.117.1.1 41056 2fgeA 995 3.03e+01 1o2dA 371 3.03e+01 e.22.1.2 86591 2bcqA 335 3.03e+01 1b24A 188 3.04e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1oltA 457 3.23e+01 c.1.28.2 93334 2bvfA 459 3.25e+01 1jsxA 207 3.26e+01 c.66.1.20 71846 1c2pA 576 3.26e+01 1quvA e.8.1.4 43117 1a73A 163 3.29e+01 1a73A d.4.1.3 37145 2bkrA 212 3.31e+01 2b4gA 317 3.33e+01 1yvkA 163 3.34e+01 1nf9A 207 3.37e+01 c.33.1.3 85631 1fjgI 128 3.38e+01 1fjfI d.14.1.1 37559 1tljA 213 3.45e+01 d.282.1.1 107126 2gf6A 135 3.45e+01 1tk9A 188 3.61e+01 c.80.1.3 107082 1ii7A 333 3.63e+01 1ii7A d.159.1.4 62415 2bb6A 414 3.70e+01 1fvuB 125 3.72e+01 1ixxB d.169.1.1 42346 1t3kA 152 3.73e+01 c.46.1.1 106357 1rztA 331 3.73e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1xhvA 257 3.74e+01 c.52.1.19 109597 1vr6A 350 3.75e+01 1wy2A 351 3.79e+01 2asfA 137 3.85e+01 1nvmB 312 3.88e+01 c.2.1.3,d.81.1.1 86251,86252 5abp 306 3.89e+01 8abp c.93.1.1 35651 1vm8A 534 3.98e+01 1v37A 177 3.99e+01 1uwdA 103 4.05e+01 1v60A 123 4.07e+01 1rpxA 230 4.17e+01 1rpxA c.1.2.2 28536 1qycA 308 4.17e+01 c.2.1.2 96581 2audA 257 4.18e+01 1r85A 379 4.31e+01 c.1.8.3 104839 1kc6A 257 4.31e+01 c.52.1.19 68419 1ylxA 103 4.32e+01 1vdmA 153 4.42e+01 1luaA 287 4.43e+01 c.2.1.7,c.58.1.4 78216,78217 1xp8A 366 4.45e+01 1jyhA 157 4.48e+01 d.60.1.3 71956 1avyA 74 4.52e+01 1avyB h.1.17.1 45656 1ivnA 190 4.55e+01 c.23.10.5 83719 1vkhA 273 4.56e+01 c.69.1.32 108662 1gxjA 186 4.57e+01 d.215.1.1 70707 1u9iA 519 4.59e+01 1lqpA 135 4.63e+01 d.32.1.2 78151 1nkiA 135 4.63e+01 d.32.1.2 91941 1ekgA 127 4.69e+01 1dlxA d.82.2.1 40021 1rzmA 338 4.73e+01 c.1.10.4 105137 2pia 321 4.84e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1rpjA 288 4.85e+01 2dri c.93.1.1 35656 1lc5A 364 4.90e+01 c.67.1.1 73827 1gheA 177 4.90e+01 d.108.1.1 76222 2gdjA 264 4.92e+01 1kv7A 488 4.94e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1zczA 464 4.96e+01 2bjiA 277 4.96e+01 1jg5A 83 5.02e+01 d.205.1.1 66666 1evxA 162 5.04e+01 1a73A d.4.1.3 37149 1twiA 434 5.07e+01 b.49.2.3,c.1.6.1 107399,107400 1tufA 434 5.08e+01 b.49.2.3,c.1.6.1 107335,107336 1lssA 140 5.15e+01 c.2.1.9 74246 1d7yA 408 5.32e+01 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1jenA 267 5.34e+01 1jenA 1a8p 258 5.40e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1q5qA 259 5.45e+01 d.153.1.4 95904 1ow1A 195 5.49e+01 b.131.1.3 93625 8abp 306 5.51e+01 8abp c.93.1.1 35647 1qs0B 338 5.57e+01 1qs0B c.36.1.7,c.48.1.2 31830,33103 2b5iD 217 5.65e+01 1xznA 179 5.65e+01 1i50A 1733 5.66e+01 e.29.1.2 61754 1lfpA 249 5.69e+01 e.39.1.1 73885 2c8vA 288 5.82e+01 1gy7A 125 5.86e+01 d.17.4.2 70738 1w1iE 357 5.90e+01 c.1.9.1 109051 1p5fA 189 6.01e+01 c.23.16.2 94142 2aalA 131 6.02e+01 1iae 200 6.03e+01 1iae d.92.1.8 40311 1cg2A 393 6.11e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1iab 200 6.12e+01 1iae d.92.1.8 40312 1qnaA 200 6.20e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1jx6A 342 6.22e+01 c.93.1.1 67406 1rz3A 201 6.24e+01 c.37.1.6 98132 1x13A 401 6.31e+01 1zetA 388 6.36e+01 1m0dA 138 6.41e+01 c.52.1.17 74354 1wd3A 482 6.52e+01 b.29.1.21,b.42.8.1 109233,109234 1vixA 420 6.53e+01 c.56.5.4,d.58.19.1 100777,100778 1knyA 253 6.63e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 2fuvA 549 6.65e+01 1fjgD 209 6.66e+01 1c05A d.66.1.2 39553 1wu7A 434 6.68e+01 1z92B 219 6.71e+01 1usgA 346 6.75e+01 c.93.1.1 99864 1vjqA 79 6.87e+01 k.43.1.1 100830 1nonA 179 6.92e+01 c.61.1.1 103868 2d1uA 104 6.95e+01 1n9lA 109 7.06e+01 d.110.3.6 85468 1ffa 214 7.08e+01 1cex c.69.1.30 31289 1r8eA 278 7.10e+01 a.6.1.3,d.60.1.1 104843,104844 1ayaA 101 7.10e+01 1qadA d.93.1.1 40460 1fzrA 138 7.22e+01 1fzrA c.52.1.17 33336 1fnoA 417 7.32e+01 d.58.19.1,c.56.5.4 70145,75841 1xzoA 174 7.38e+01 1t95A 240 7.45e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1vhiA 142 7.51e+01 1b3tA d.58.8.1 39230 1mjhA 162 7.57e+01 1mjhA c.26.2.4 31639 1qfjA 232 7.65e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 2lbp 346 7.65e+01 2liv c.93.1.1 35709 2bsaA 303 7.68e+01 1go2A 304 7.69e+01 b.43.4.2,c.25.1.1 76243,76244 1s9rA 410 7.80e+01 d.126.1.4 98758 1fts 295 7.90e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 1ujmA 342 7.92e+01 1xviA 275 7.92e+01 2a2kA 175 7.95e+01 1pysA 350 8.00e+01 1pysA d.104.1.1 40775 1za7A 165 8.10e+01 1rsgA 516 8.12e+01 1v7pC 200 8.13e+01 c.62.1.1 108408 1fsz 372 8.20e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1fjhA 257 8.25e+01 1fjhB c.2.1.2 29870 1vq3A 94 8.28e+01 1wdxA 69 8.28e+01 1y1pA 342 8.29e+01 1d9tA 289 8.29e+01 1deaA 1tg0A 68 8.29e+01 1pk6B 132 8.31e+01 b.22.1.1 94802 1que 303 8.32e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1rcf 169 8.38e+01 1rcf c.23.5.1 31170 1ymkA 175 8.42e+01 1qysA 106 8.43e+01 k.41.1.1 96603 1vquA 374 8.43e+01 1w34A 304 8.47e+01 1xrkA 124 8.53e+01 1ls1A 295 8.57e+01 a.24.13.1,c.37.1.10 78170,78171 1c9kA 180 8.59e+01 1c9kB c.37.1.11 32363 1w25A 459 8.63e+01 1tx2A 297 8.69e+01 c.1.21.1 107420 1j8mF 297 8.69e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1ewkA 490 8.70e+01 1ewkA c.93.1.1 35712 1sw5A 275 8.89e+01 c.94.1.1 106069 1v8aA 265 8.93e+01 c.72.1.2 100494 1qb7A 236 8.99e+01 1qb7A c.61.1.1 34087