# 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 1v2xA 194 4.27e-22 c.116.1.1 100274 1x7oA 287 3.01e-21 1zjrA 211 4.45e-21 1ipaA 274 4.82e-21 c.116.1.1,d.79.3.3 71254,71255 1mxiA 160 8.01e-20 c.116.1.1 79646 1z85A 234 2.73e-03 1j2rA 199 3.33e-02 c.33.1.3 90788 1v6zA 228 3.61e-02 1o6dA 163 4.54e-02 c.116.1.3 92567 1d2nA 272 6.19e-02 1d2nA c.37.1.20 32428 1p3wA 404 6.87e-02 c.67.1.3 87752 1nxzA 246 7.57e-02 b.122.1.2,c.116.1.5 86391,86392 1vhyA 257 8.82e-02 b.122.1.2,c.116.1.5 100714,100715 1h1yA 228 9.70e-02 c.1.2.2 76506 1nsf 273 1.07e-01 1d2nA c.37.1.20 32429 1wlsA 328 1.60e-01 1rqlA 267 1.66e-01 c.108.1.3 97750 1swvA 267 1.91e-01 1pwxA 254 2.06e-01 c.2.1.2 95262 1js3A 486 2.10e-01 c.67.1.6 67215 1xewY 172 2.49e-01 1uwvA 433 2.60e-01 b.40.4.12,c.66.1.40 100128,100129 1cozA 129 2.89e-01 1cozA c.26.1.2 31598 1xrtA 467 3.20e-01 1t9kA 347 3.30e-01 c.124.1.5 106721 1wnfA 328 3.59e-01 1z7wA 322 3.79e-01 1xp8A 366 3.86e-01 1wl8A 189 4.17e-01 1k3rA 268 4.31e-01 b.40.4.10,c.116.1.2 72018,72019 1w8sA 263 4.35e-01 1bag 425 4.55e-01 1bag b.71.1.1,c.1.8.1 27720,28707 1rj9A 304 4.65e-01 a.24.13.1,c.37.1.10 97553,97554 1zxxA 319 4.99e-01 1zmtA 254 5.09e-01 1ojxA 263 5.19e-01 c.1.10.1 93164 1te6A 439 5.21e-01 c.1.11.1,d.54.1.1 106797,106798 1r6wA 322 5.23e-01 c.1.11.2,d.54.1.1 97165,97166 1qorA 327 5.57e-01 1qorA b.35.1.2,c.2.1.1 24766,29782 1fts 295 5.86e-01 1ng1 a.24.13.1,c.37.1.10 16968,32279 1z7yA 322 5.95e-01 1v5xA 203 6.00e-01 c.1.2.4 100377 1ua7A 422 6.63e-01 b.71.1.1,c.1.8.1 107759,107760 1p7tA 731 6.99e-01 c.1.13.1 94319 1tkkA 366 7.32e-01 c.1.11.2,d.54.1.1 107089,107090 1z7dA 433 7.32e-01 1o1yA 239 7.55e-01 c.23.16.1 86554 1n2eA 300 7.85e-01 c.26.1.4 85268 1d8cA 723 8.11e-01 1d8cA c.1.13.1 29325 2fr1A 486 8.60e-01 2as0A 396 8.82e-01 1bmtA 246 9.01e-01 1bmtA a.46.1.1,c.23.6.1 17757,31235 1tzjA 338 9.40e-01 1u94A 356 9.40e-01 c.37.1.11,d.48.1.1 107743,107744 1qycA 308 9.97e-01 c.2.1.2 96581 1ve5A 311 1.04e+00 1g38A 393 1.09e+00 2admA c.66.1.27 60235 1im5A 180 1.13e+00 c.33.1.3 66211 1j5vA 351 1.16e+00 c.72.1.1 71585 1jztA 246 1.19e+00 c.104.1.1 63319 2akzA 439 1.19e+00 1ns5A 155 1.26e+00 c.116.1.3 80705 1nu5A 370 1.31e+00 c.1.11.2,d.54.1.1 92183,92184 1xm8A 254 1.40e+00 1t5oA 351 1.46e+00 c.124.1.5 106459 1kv8A 216 1.48e+00 c.1.2.3 73054 1ubeA 349 1.49e+00 c.37.1.11,d.48.1.1 88412,88413 1uj2A 252 1.56e+00 c.37.1.6 99452 1ru8A 232 1.60e+00 c.26.2.1 97849 1iyxA 432 1.67e+00 c.1.11.1,d.54.1.1 83815,83816 2fymA 431 1.75e+00 1xmrA 243 1.81e+00 1fezA 256 1.82e+00 1fezA c.108.1.3 43343 2fliA 220 1.88e+00 2tpsA 227 1.88e+00 2tpsA c.1.3.1 28591 1xrjA 261 1.91e+00 1i60A 278 2.00e+00 c.1.15.4 71118 1rdfA 267 2.05e+00 c.108.1.3 104884 1geqA 248 2.19e+00 2tysA c.1.2.4 28589 1f89A 291 2.23e+00 d.160.1.1 64988 1prxA 224 2.28e+00 1prxA c.47.1.10 33076 1q6oA 216 2.29e+00 c.1.2.3 95986 5nul 138 2.32e+00 5nul c.23.5.1 31191 1lc5A 364 2.38e+00 c.67.1.1 73827 1o7jA 327 2.39e+00 c.88.1.1 81140 2a84A 300 2.39e+00 1wviA 257 2.42e+00 1rzuA 485 2.43e+00 c.87.1.8 105140 1tk9A 188 2.43e+00 c.80.1.3 107082 1whtB 153 2.48e+00 1whtB 1j4aA 333 2.50e+00 c.2.1.4,c.23.12.1 71502,71503 1jpmA 366 2.50e+00 c.1.11.2,d.54.1.1 67031,67032 1vkmA 297 2.51e+00 c.138.1.1 108670 1whsB 153 2.52e+00 1whtB 2b8tA 223 2.52e+00 1v71A 323 2.55e+00 1vp8A 201 2.84e+00 8acn 754 2.85e+00 1amj c.8.2.1,c.83.1.1 30724,35400 1s1pA 331 2.90e+00 c.1.7.1 98350 1vmeA 410 2.98e+00 c.23.5.1,d.157.1.3 108893,108894 1xg5A 279 3.05e+00 1t3tA 1303 3.05e+00 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1sviA 195 3.19e+00 c.37.1.8 106048 2reb 352 3.22e+00 2reb c.37.1.11,d.48.1.1 32282,38767 2d0iA 333 3.32e+00 1ituA 369 3.36e+00 c.1.9.7 71423 1hdoA 206 3.39e+00 1he2A c.2.1.2 60965 1s0aA 429 3.40e+00 c.67.1.4 98263 1ydnA 295 3.48e+00 2c4nA 250 3.54e+00 1nvmA 345 3.58e+00 a.5.7.1,c.1.10.5 86249,86250 2f6uA 234 3.65e+00 1bdfA 235 3.72e+00 1bdfA d.74.3.1,d.181.1.1 39727,42602 1h5qA 265 3.81e+00 1cydA c.2.1.2 60643 2f4nA 273 3.86e+00 1fhuA 320 3.95e+00 1fhuA c.1.11.2,d.54.1.1 29234,38878 1jf9A 408 3.96e+00 1c0nA c.67.1.3 62931 1twdA 256 4.09e+00 c.1.30.1 107397 1jflA 228 4.14e+00 c.78.2.1,c.78.2.1 71656,71657 1bqcA 302 4.18e+00 1bqcA c.1.8.3 28831 1npyA 271 4.18e+00 c.2.1.7,c.58.1.5 85995,85996 1yd7A 395 4.31e+00 1t0bA 252 4.42e+00 c.23.16.6 106199 1jkmB 361 4.43e+00 1jkmA c.69.1.2 34634 1v7zA 260 4.44e+00 c.125.1.1 100488 1yx1A 264 4.52e+00 1rqbA 539 4.57e+00 a.5.7.2,c.1.10.5 105057,105058 2aq8A 269 4.61e+00 1qwgA 251 4.63e+00 c.1.27.1 96473 1kt6A 183 4.67e+00 b.60.1.1 84466 1lvwA 295 4.67e+00 c.68.1.6 84723 1vk3A 615 4.77e+00 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1brwA 433 4.86e+00 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2ohxA 374 4.91e+00 2ohxA b.35.1.2,c.2.1.1 24669,29685 1qj5A 429 4.91e+00 1dtyA c.67.1.4 34493 2bylA 439 5.03e+00 1pdz 434 5.10e+00 4enl c.1.11.1,d.54.1.1 29215,38859 1o69A 394 5.14e+00 c.67.1.4 92560 1s0uA 408 5.17e+00 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1qydA 313 5.19e+00 c.2.1.2 96583 1u6eA 335 5.19e+00 1o08A 221 5.19e+00 c.108.1.6 86525 2b8eA 273 5.31e+00 1gca 309 5.35e+00 1gca c.93.1.1 35659 2g76A 335 5.36e+00 1y9kA 157 5.39e+00 1wyuA 438 5.40e+00 1qopA 268 5.42e+00 2tysA c.1.2.4 28570 1nffA 260 5.47e+00 c.2.1.2 80457 1hetA 374 5.55e+00 2ohxA b.35.1.2,c.2.1.1 60975,60976 2anuA 255 5.73e+00 1o4wA 147 5.81e+00 c.120.1.1 86629 1ebmA 317 5.88e+00 1ebmA a.96.1.3,d.129.1.2 18751,41300 1m3qA 317 5.92e+00 a.96.1.3,d.129.1.2 91184,91185 1n8kA 374 6.03e+00 b.35.1.2,c.2.1.1 80298,80299 1ewqA 765 6.04e+00 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1dxy 333 6.15e+00 1dxy c.2.1.4,c.23.12.1 30094,31354 2bp1A 360 6.19e+00 2afbA 351 6.32e+00 1hbq 183 6.34e+00 1aqb b.60.1.1 27078 1xyzA 347 6.35e+00 1taxA c.1.8.3 28804 1i0dA 332 6.37e+00 1pscA c.1.9.3 61487 2b0cA 206 6.38e+00 1hzyA 332 6.43e+00 1pscA c.1.9.3 61468 1vhvA 268 6.45e+00 c.90.1.1 100704 1rzmA 338 6.49e+00 c.1.10.4 105137 1fsu 492 6.58e+00 1auk c.76.1.2 35032 1uf3A 228 6.61e+00 d.159.1.6 99317 1rliA 184 6.64e+00 c.23.5.6 97647 2tysA 268 6.66e+00 2tysA c.1.2.4 28572 2gjlA 328 6.76e+00 1vr6A 350 6.80e+00 1vquA 374 6.82e+00 2bg5A 324 6.97e+00 1yh1A 359 6.99e+00 1yacA 208 7.11e+00 1yacA c.33.1.3 31757 2dri 271 7.13e+00 2dri c.93.1.1 35637 1rd5A 262 7.18e+00 1korA 400 7.21e+00 c.26.2.1,d.210.1.1 72824,72825 2fdrA 229 7.22e+00 1zrn 232 7.23e+00 1qq5A c.108.1.1 43323 1qcwA 410 7.24e+00 1gox c.1.4.1 28622 1kaeA 434 7.27e+00 c.82.1.2 72247 1u3wA 374 7.28e+00 1aihA 170 7.35e+00 1aihA d.163.1.1 42149 1r7lA 110 7.40e+00 d.277.1.1 104837 1z7bA 358 7.58e+00 2ng1 293 7.67e+00 1ng1 a.24.13.1,c.37.1.10 16962,32273 1hzpA 335 7.77e+00 1hn9A c.95.1.2,c.95.1.2 61455,61456 1u9jA 358 7.80e+00 1xf1A 926 7.82e+00 2c3zA 222 7.90e+00 1li5A 461 7.91e+00 a.27.1.1,c.26.1.1 73912,73913 1xx6A 191 8.08e+00 2byjA 439 8.15e+00 2d2jA 329 8.18e+00 1rlkA 117 8.50e+00 c.131.1.1 97651 1m2kA 249 8.55e+00 c.31.1.5 84754 1yrrA 382 8.56e+00 1xhkA 187 8.66e+00 1vg0A 650 8.76e+00 c.3.1.3,d.16.1.6 108596,108597 1zi8A 236 8.79e+00 2pfkA 320 8.87e+00 3pfk c.89.1.1 35577 1eny 268 8.88e+00 1eny c.2.1.2 29910 1iukA 140 9.00e+00 c.2.1.8 83712 1w23A 360 9.07e+00 1j96A 323 9.14e+00 c.1.7.1 71616 1senA 164 9.15e+00 c.47.1.1 105465 1k92A 455 9.33e+00 c.26.2.1,d.210.1.1 68325,68326 2b7kA 200 9.35e+00 1kbjA 412 9.43e+00 c.1.4.1 72280 1lwjA 441 9.43e+00 b.71.1.1,c.1.8.1 74303,74304 1vpqA 273 9.44e+00 1xbtA 193 9.44e+00 1ea7A 310 9.45e+00 c.41.1.1 70086 1oc2A 348 9.48e+00 c.2.1.2 92765 1vbuA 328 9.52e+00 2gasA 307 9.56e+00 1c96A 753 9.59e+00 1amj c.8.2.1,c.83.1.1 30727,35403 1f2dA 341 9.64e+00 1f2dA c.79.1.1 35298 2gbp 309 9.70e+00 1gca c.93.1.1 35657 2bllA 345 9.91e+00 7taa 478 1.00e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1v95A 130 1.01e+01 c.51.1.1 108435 1vizA 240 1.01e+01 c.1.4.1 100784 1hdcA 253 1.01e+01 1e6wA c.2.1.2 29862 1efpB 252 1.02e+01 1efvB c.26.2.3 31636 1dxeA 256 1.02e+01 1dxeA c.1.12.5 29310 1o98A 511 1.02e+01 c.105.1.1,c.76.1.3 86684,86685 1iugA 352 1.03e+01 c.67.1.3 90699 1gveA 327 1.03e+01 c.1.7.1 70597 2his 312 1.04e+01 1taxA c.1.8.3 28918 1mucA 373 1.04e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 2oatA 439 1.04e+01 2dkb c.67.1.4 34452 4pgaA 337 1.04e+01 4pgaA c.88.1.1 35565 1kepA 348 1.05e+01 c.2.1.2 68536 1zq6A 359 1.05e+01 2a2dA 478 1.05e+01 1mjfA 281 1.06e+01 c.66.1.17 79198 1vlmA 219 1.07e+01 c.66.1.41 108836 1thfD 253 1.08e+01 1thfD c.1.2.1 28535 1kfcA 268 1.09e+01 c.1.2.4 77371 1g61A 228 1.09e+01 1g61A d.126.1.1 41126 1ydhA 216 1.11e+01 1dar 691 1.11e+01 1dar b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1 25707,32142,37547,39300 1reqA 727 1.13e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1o5zA 442 1.13e+01 c.59.1.2,c.72.2.2 92530,92531 1wmbA 260 1.14e+01 1xuuA 349 1.15e+01 1m65A 245 1.15e+01 c.6.3.1 84847 1a53 247 1.15e+01 1a53 c.1.2.4 28564 1aqb 183 1.16e+01 1aqb b.60.1.1 27084 1e7rA 321 1.16e+01 1bsvA c.2.1.2 29808 1g8pA 350 1.16e+01 1g8pA c.37.1.20 60376 1nbfD 76 1.18e+01 d.15.1.1 80390 1zk4A 251 1.18e+01 1m3sA 186 1.19e+01 c.80.1.3 78573 1u8sA 192 1.19e+01 d.58.18.5,d.58.18.5 107737,107738 1igs 248 1.20e+01 1a53 c.1.2.4 28565 2gukA 120 1.20e+01 1mpuA 138 1.22e+01 d.169.1.1 85040 1vhnA 318 1.23e+01 c.1.4.1 100693 1gcoA 261 1.26e+01 1ybvA c.2.1.2 29884 1q9jA 422 1.27e+01 c.43.1.2,c.43.1.2 104590,104591 1m1nB 522 1.27e+01 c.92.2.3 78418 1vimA 200 1.28e+01 c.80.1.3 100758 1eqjA 511 1.29e+01 1ejjA c.105.1.1,c.76.1.3 59495,59496 1z0wA 207 1.30e+01 1a9xA 1058 1.31e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1j7nA 776 1.31e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1sqlA 146 1.32e+01 d.96.1.3 105925 2frnA 278 1.34e+01 1jcxA 267 1.34e+01 c.1.10.4 66510 1xsjA 778 1.35e+01 1vl2A 421 1.37e+01 c.26.2.1,d.210.1.1 108708,108709 1xwyA 264 1.38e+01 2a67A 167 1.41e+01 1nxqA 251 1.42e+01 c.2.1.2 86388 2d13A 227 1.43e+01 1ox6A 555 1.44e+01 c.1.2.1,c.23.16.1 87505,87506 1ezwA 349 1.44e+01 1ezwA c.1.16.3 29558 2a3nA 355 1.44e+01 1kwgA 645 1.44e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1f75A 249 1.44e+01 1f75A c.101.1.1 59662 1e94F 449 1.44e+01 1do0A c.37.1.20 32443 1vljA 407 1.47e+01 e.22.1.2 108832 1cf9A 753 1.48e+01 1cf9A c.23.16.3,e.5.1.1 31441,42815 1fwsA 267 1.48e+01 1d9eA c.1.10.4 60063 1of8A 370 1.49e+01 c.1.10.4 92819 1pfkA 320 1.49e+01 3pfk c.89.1.1 35575 1dekA 241 1.49e+01 1dekA c.37.1.1 31842 1fh9A 312 1.49e+01 1taxA c.1.8.3 28913 1gox 370 1.50e+01 1gox c.1.4.1 28607 1pe1A 267 1.50e+01 c.1.10.4 94591 1xkqA 280 1.50e+01 1kamA 194 1.51e+01 c.26.1.3 72254 2ah5A 210 1.51e+01 1ymqA 261 1.51e+01 2hvm 273 1.52e+01 1cnv c.1.8.5 28985 1wdiA 345 1.53e+01 2jdxA 385 1.55e+01 1jdw d.126.1.2 41139 1mx3A 347 1.56e+01 c.2.1.4,c.23.12.1 79638,79639 1yb5A 351 1.56e+01 1qv9A 283 1.56e+01 c.127.1.1 96356 1fhdA 312 1.57e+01 1taxA c.1.8.3 28915 1t8xA 267 1.58e+01 1xriA 151 1.59e+01 1t9hA 307 1.59e+01 1zhaA 267 1.60e+01 1hu4A 288 1.63e+01 1hu4A 1n5dA 288 1.64e+01 c.2.1.2 80030 1vjrA 271 1.64e+01 c.108.1.14 100832 1yj1A 76 1.64e+01 1ve6A 582 1.65e+01 1geeA 261 1.65e+01 c.2.1.2 90509 1xi3A 215 1.65e+01 c.1.3.1 109601 1ihoA 283 1.66e+01 1ihoA c.26.1.4 62390 2a2cA 478 1.66e+01 1v5lA 103 1.67e+01 b.36.1.1 108378 2nacA 393 1.68e+01 2nadA c.2.1.4,c.23.12.1 30088,31348 1ro7A 259 1.69e+01 c.130.1.1 97667 1cs0A 1073 1.69e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1qh8B 519 1.69e+01 1qguB c.92.2.3 35634 1tg7A 971 1.72e+01 1tc5A 194 1.77e+01 c.110.1.1 106752 3pmgA 561 1.78e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1fxqA 267 1.78e+01 1d9eA c.1.10.4 60108 3rubS 123 1.78e+01 1rboC d.73.1.1 39616 1din 236 1.80e+01 1din c.69.1.9 34682 2c1gA 431 1.80e+01 1t0yA 122 1.85e+01 d.15.1.1 99066 1te2A 226 1.85e+01 c.108.1.6 106792 1jdw 423 1.86e+01 1jdw d.126.1.2 41129 1vl8A 267 1.86e+01 c.2.1.2 108733 1cjxA 357 1.87e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1pymA 295 1.88e+01 1pymA c.1.12.7 29308 1u9yA 284 1.88e+01 1dv1A 449 1.89e+01 1bncA 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