# 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 2fh7A 595 9.59e-52 1larA 575 4.59e-51 1larA c.45.1.2,c.45.1.2 32693,32694 2shpA 525 4.56e-46 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 2f71A 298 7.78e-46 1g7fA 298 1.31e-45 1pty c.45.1.2 60330 1pa1A 310 1.68e-45 c.45.1.2 94404 1ptvA 321 2.70e-45 1pty c.45.1.2 32665 2b49A 287 3.26e-45 2b3oA 532 6.09e-45 1wchA 315 2.55e-43 1p15A 253 6.00e-43 c.45.1.2 93894 2bzlA 325 8.77e-43 1jlnA 297 1.66e-41 1pty c.45.1.2 63172 2bv5A 282 3.21e-41 2bijA 305 7.30e-41 1ytw 306 1.11e-18 1ytw c.45.1.2 32689 1lyvA 306 5.92e-18 c.45.1.2 74348 1g4wR 383 1.38e-15 1g4uS a.24.11.1,c.45.1.2 16644,32692 1oheA 348 1.80e-13 c.45.1.1,c.45.1.1 87013,87014 1zckA 154 3.82e-11 1rxdA 159 5.80e-11 1fpzA 212 2.01e-07 1fpzA c.45.1.1 59976 1d5rA 324 9.65e-06 1d5rA b.7.1.1,c.45.1.1 23181,32697 1wrmA 165 1.64e-05 1vhrA 184 1.89e-05 1vhrA c.45.1.1 32651 1yn9A 169 5.15e-05 1yz4A 160 7.57e-05 1i9sA 210 3.03e-04 1i9sA c.45.1.1 62099 2c46A 241 4.72e-04 1mkp 144 2.09e-03 1vhrA c.45.1.1 32654 1u24A 337 6.60e-03 1x24A 180 9.69e-03 1xriA 151 4.28e-02 1zclA 180 4.40e-02 1ywfA 296 5.82e-02 1zsqA 528 1.85e-01 1lw3A 657 2.23e-01 b.55.1.8,c.45.1.3 91152,91153 1k47A 337 2.70e-01 d.14.1.5,d.58.26.4 72040,72041 1wkbA 810 4.95e-01 1aqb 183 5.85e-01 1aqb b.60.1.1 27084 2d5cA 263 6.61e-01 2cy0A 263 7.09e-01 1pg4A 652 9.08e-01 e.23.1.1 88067 1npyA 271 9.91e-01 c.2.1.7,c.58.1.5 85995,85996 1wxdA 263 1.09e+00 1hbq 183 1.21e+00 1aqb b.60.1.1 27078 2a6hA 315 1.30e+00 1ojrA 274 1.36e+00 c.74.1.1 93147 1kt6A 183 1.62e+00 b.60.1.1 84466 1w6sA 599 2.20e+00 1mumA 295 2.21e+00 c.1.12.7 85108 1wrrA 301 2.86e+00 1xg4A 295 3.08e+00 1g60A 260 3.27e+00 c.66.1.11 70151 1nm8A 616 3.33e+00 c.43.1.3,c.43.1.3 85872,85873 1ihuA 589 3.41e+00 c.37.1.10,c.37.1.10 62394,62395 1gvhA 396 3.56e+00 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1zz1A 369 3.96e+00 1iz0A 302 4.33e+00 b.35.1.2,c.2.1.1 83821,83822 1w9iA 770 4.42e+00 1fnc 314 4.62e+00 1fnc b.43.4.2,c.25.1.1 25627,31517 1aa8A 347 4.65e+00 1an9A 1zboA 210 5.25e+00 1rj9A 304 5.44e+00 a.24.13.1,c.37.1.10 97553,97554 1jhdA 396 5.90e+00 b.122.1.3,c.26.1.5 66712,66713 1ujqA 305 5.98e+00 c.1.12.7 99463 1d0yA 761 6.01e+00 1lvk b.34.3.1,c.37.1.9 24581,32178 1xgsA 295 6.08e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 1dciA 275 6.09e+00 1dciA c.14.1.3 30918 1nx8A 273 6.10e+00 b.82.2.8 86374 2cx9A 387 6.10e+00 2fl7A 232 6.19e+00 1an9A 340 6.35e+00 1an9A c.4.1.2,d.16.1.3 30617,37904 1vom 762 6.51e+00 1lvk b.34.3.1,c.37.1.9 24577,32174 2g8yA 385 6.61e+00 1r4uA 301 6.64e+00 d.96.1.4,d.96.1.4 97047,97048 1uyrA 737 6.92e+00 c.14.1.4,c.14.1.4 100188,100189 2akaA 776 6.97e+00 1k8kD 300 7.24e+00 d.198.2.1,d.198.2.1 68309,68310 1vqvA 306 7.40e+00 1lvk 762 7.43e+00 1lvk b.34.3.1,c.37.1.9 24576,32173 1c7nA 399 7.67e+00 1d2fA c.67.1.3 34413 1ri6A 343 8.00e+00 b.69.11.1 97503 1vjhA 122 8.01e+00 d.129.3.1 100811 1czaN 917 8.25e+00 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 2btoA 473 8.83e+00 1r6lA 239 8.93e+00 d.14.1.4,d.101.1.1 97153,97154 1yqyA 523 8.98e+00 1b6a 478 9.67e+00 1bn5 a.4.5.25,d.127.1.1 16223,41160 1ryiA 382 1.08e+01 1vimA 200 1.11e+01 c.80.1.3 100758 1pjr 724 1.14e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1x6oA 174 1.15e+01 b.34.5.2,b.40.4.5 109493,109494 1oe9A 795 1.18e+01 b.34.3.1,c.37.1.9 92792,92793 1e5mA 416 1.19e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1yt8A 539 1.20e+01 1fnd 314 1.20e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 2atfA 200 1.20e+01 2b5hA 200 1.20e+01 1qfmA 710 1.21e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 1gmxA 108 1.29e+01 c.46.1.3 65355 1j8mF 297 1.30e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1lbeA 258 1.37e+01 1lbeA e.4.1.1 42773 1rz2A 254 1.38e+01 b.100.1.1 105130 1zoiA 276 1.58e+01 1lfwA 470 1.59e+01 c.56.5.4,d.58.19.1 77942,77943 1vkrA 125 1.60e+01 c.44.2.1 108689 1w2xA 758 1.63e+01 c.14.1.4,c.14.1.4 109134,109135 1jrrA 382 1.66e+01 e.1.1.1 63256 1m1zA 513 1.70e+01 c.26.2.1,d.153.1.1 78457,78458 2fbmA 291 1.73e+01 1qmgA 524 1.74e+01 1qmgA a.100.1.2,c.2.1.6 18785,30182 1lrwA 600 1.74e+01 b.70.1.1 91111 1quqB 121 1.75e+01 1quqB b.40.4.3 25305 1dmuA 299 1.77e+01 1dmuA c.52.1.4 33294 1umkA 275 1.83e+01 1h2wA 710 1.83e+01 b.69.7.1,c.69.1.4 76596,76597 1zr5A 214 1.85e+01 1usyA 275 1.85e+01 2d29A 387 1.88e+01 1ws9A 387 1.98e+01 1zq1A 438 1.98e+01 1u0mA 382 1.99e+01 c.95.1.2,c.95.1.2 107557,107558 1w36B 1180 2.00e+01 2b06A 155 2.03e+01 1o59A 355 2.09e+01 b.18.1.22,b.18.1.22 92495,92496 1ujpA 271 2.11e+01 c.1.2.4 99462 1h65A 270 2.11e+01 c.37.1.8 65640 1i7pA 274 2.14e+01 b.43.4.2,c.25.1.1 66048,66049 1fuiA 591 2.17e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1m4zA 238 2.17e+01 b.34.12.1 78630 1igwA 434 2.18e+01 c.1.12.7 62370 2a6hC 1119 2.20e+01 1erjA 393 2.21e+01 1erjA b.69.4.1 27660 1w7jA 795 2.24e+01 1a88A 275 2.32e+01 1brt c.69.1.12 34707 1ywmA 200 2.33e+01 2cw6A 298 2.37e+01 1l3aA 228 2.38e+01 d.18.1.2 73531 1jvbA 347 2.39e+01 b.35.1.2,c.2.1.1 77181,77182 1zkpA 268 2.40e+01 2a2cA 478 2.42e+01 1naqA 112 2.42e+01 d.58.5.2 91761 2fsxA 148 2.43e+01 1yb5A 351 2.45e+01 2f46A 156 2.61e+01 1f75A 249 2.70e+01 1f75A c.101.1.1 59662 1z7dA 433 2.70e+01 2fw2A 260 2.73e+01 1top 162 2.95e+01 1ncx a.39.1.5 17223 2bhvA 246 3.03e+01 2gcuA 245 3.06e+01 1mdl 359 3.08e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1j8yF 297 3.25e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1ig8A 486 3.36e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1tzjA 338 3.37e+01 1huxA 270 3.39e+01 1huxA c.55.1.5 61278 1qdeA 224 3.44e+01 1qvaA c.37.1.19 32410 1o63A 219 3.45e+01 c.94.1.1 92540 2b2nA 344 3.49e+01 1l5wA 796 3.54e+01 c.87.1.4 73605 1riqA 465 3.55e+01 a.203.1.1,d.104.1.1 97516,97517 1yfsA 465 3.56e+01 1gqpA 221 3.58e+01 b.18.1.9 70372 1htqA 477 3.59e+01 d.15.9.1,d.128.1.1 71035,71036 1luaA 287 3.59e+01 c.2.1.7,c.58.1.4 78216,78217 1em2A 229 3.62e+01 1em2A d.129.3.2 41321 1f9vA 347 3.67e+01 1bg2 c.37.1.9 59745 1x0tA 120 3.74e+01 1q52A 314 3.81e+01 c.14.1.3 95846 1yovA 537 3.88e+01 1z63A 500 3.89e+01 1sqzA 121 3.90e+01 a.133.1.2 98975 1tj9A 121 3.90e+01 a.133.1.2 107015 1tk4A 121 3.90e+01 a.133.1.2 107073 1zwpA 121 3.90e+01 2g58A 121 3.90e+01 1ujxA 119 3.99e+01 b.26.1.2 99473 1tc5A 194 4.00e+01 c.110.1.1 106752 1ako 268 4.00e+01 1ako d.151.1.1 41779 1r0wA 286 4.00e+01 c.37.1.12 96754 1cl1A 395 4.07e+01 1cl2A c.67.1.3 34395 1kyqA 274 4.12e+01 c.2.1.11,e.37.1.1 73281,73282 1b04A 318 4.16e+01 1b04A d.142.2.2 41579 1uekA 275 4.24e+01 d.14.1.5,d.58.26.5 88483,88484 1q1oA 98 4.31e+01 d.15.2.2 95596 1t9kA 347 4.31e+01 c.124.1.5 106721 1x9pA 523 4.35e+01 1y13A 181 4.38e+01 1oyeA 1049 4.42e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 2bvcA 486 4.43e+01 1zo0A 126 4.44e+01 2aq6A 147 4.45e+01 1qqfA 277 4.46e+01 1c3d a.102.4.4 18875 1g2nA 264 4.54e+01 1lbd a.123.1.1 60227 1xzwA 426 4.55e+01 1uufA 369 4.60e+01 b.35.1.2,c.2.1.1 100006,100007 1svdA 473 4.63e+01 1oqcA 125 4.71e+01 a.24.15.1 87264 1ng4A 390 4.77e+01 c.3.1.2,d.16.1.3 85666,85667 1euvA 221 4.85e+01 1euvA d.3.1.7 37133 1foeA 377 4.90e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 1rqbA 539 4.92e+01 a.5.7.2,c.1.10.5 105057,105058 1oo4A 111 5.00e+01 d.93.1.1 87185 1up8A 598 5.03e+01 a.111.1.2 99710 1x54A 434 5.05e+01 1gsa 316 5.06e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1j0aA 325 5.14e+01 c.79.1.1 83871 1w78A 422 5.15e+01 1d3yA 301 5.18e+01 1d3yA e.12.1.1 43252 2bbsA 290 5.20e+01 1isiA 265 5.28e+01 e.4.1.1 71394 1bx1A 314 5.28e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 2ddrA 306 5.30e+01 1v4sA 455 5.36e+01 c.55.1.3,c.55.1.3 100309,100310 1b1cA 181 5.42e+01 1amoA c.23.5.2 31212 1cqxA 403 5.43e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 2b9wA 424 5.46e+01 2av9A 147 5.54e+01 1nr3A 122 5.56e+01 d.236.1.1 86092 1ydnA 295 5.56e+01 1ja1A 622 5.64e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1iw7C 1119 5.73e+01 e.29.1.1 71474 2blcA 238 5.77e+01 2bl9A 238 5.77e+01 1vk3A 615 5.85e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 2a2dA 478 5.89e+01 1a8s 273 5.90e+01 1brt c.69.1.12 34710 1p6xA 334 5.99e+01 c.37.1.1 94195 1j0dA 341 6.00e+01 c.79.1.1 83902 1n6aA 259 6.03e+01 b.76.2.1,b.85.7.1 80121,80122 2f1wA 158 6.03e+01 2bnmA 198 6.05e+01 2bmoA 447 6.10e+01 2c34A 116 6.12e+01 2ex4A 241 6.15e+01 1fadA 99 6.19e+01 1fadA a.77.1.2 18428 2bklA 695 6.29e+01 1m4iA 181 6.33e+01 d.108.1.1 74457 1wcgA 464 6.36e+01 1r12A 258 6.37e+01 e.4.1.1 96780 1n2zA 245 6.39e+01 c.92.2.2 79865 1jltB 122 6.41e+01 a.133.1.2 66868 1w79A 489 6.43e+01 1ofgA 381 6.44e+01 1ofgA c.2.1.3,d.81.1.5 30064,39979 1aokB 122 6.50e+01 1poa a.133.1.2 19561 1qx4A 274 6.51e+01 b.43.4.2,c.25.1.1 104624,104625 1o4vA 183 6.52e+01 c.23.8.1 86628 1spvA 184 6.58e+01 c.50.1.2 98957 1zelA 298 6.59e+01 1w5tA 412 6.59e+01 1gr0A 367 6.82e+01 c.2.1.3,d.81.1.3 70379,70380 1f2tA 149 6.90e+01 1f2tA c.37.1.12 32373 1smbA 154 6.93e+01 d.111.1.1 105756 1m40A 263 6.93e+01 e.3.1.1 74437 1xmaA 145 6.96e+01 2cyeA 133 6.98e+01 1ve9A 347 7.01e+01 c.4.1.2,d.16.1.3 100571,100572 2d83A 363 7.08e+01 1vqoQ 96 7.11e+01 1xmiA 291 7.12e+01 1vl4A 447 7.14e+01 d.283.1.1 108718 1ve6A 582 7.15e+01 1fm0E 150 7.27e+01 1fmaE d.41.5.1 38629 1v3vA 333 7.31e+01 b.35.1.2,c.2.1.1 108345,108346 1odoA 408 7.35e+01 a.104.1.1 92783 2brfA 110 7.36e+01 1vj1A 363 7.38e+01 b.35.1.2,c.2.1.1 100794,100795 1dp4A 435 7.38e+01 1dp4A c.93.1.1 35710 1gqnA 252 7.44e+01 c.1.10.1 90514 1iznA 286 7.45e+01 e.43.1.1 83847 7fd1A 106 7.56e+01 1a6l d.58.1.2 38953 2bjvA 265 7.56e+01 2mnr 357 7.64e+01 2mnr c.1.11.2,d.54.1.1 29245,38889 1t0iA 191 7.65e+01 c.23.5.4 106209 1sazA 381 7.65e+01 1m1nB 522 7.66e+01 c.92.2.3 78418 1b74A 254 7.70e+01 1b74A c.78.2.1,c.78.2.1 35264,35265 1i12A 160 7.71e+01 1i21A d.108.1.1 61515 1geqA 248 7.74e+01 2tysA c.1.2.4 28589 1te5A 257 7.77e+01 d.153.1.1 106795 1x36A 237 7.80e+01 1tvkA 440 7.82e+01 c.32.1.1,d.79.2.1 107362,107363 1uarA 285 7.83e+01 c.46.1.2,c.46.1.2 107762,107763 1gg3A 279 7.85e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 1udh 244 7.88e+01 3eugA c.18.1.1 31015 2fpnA 216 7.97e+01 1o6yA 299 8.06e+01 d.144.1.7 81106 1fgs 428 8.14e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 1wouA 123 8.18e+01 c.47.1.16 109471 1vg0A 650 8.28e+01 c.3.1.3,d.16.1.6 108596,108597 1txgA 335 8.35e+01 1gppA 237 8.45e+01 b.86.1.2 76262 1vloA 381 8.46e+01 b.44.2.1,d.250.1.1 108838,108839 2bm8A 236 8.51e+01 1zczA 464 8.51e+01 1u46A 291 8.71e+01 d.144.1.7 107656 1ak5 503 8.73e+01 1ak5 c.1.5.1 28639 1e0cA 271 8.76e+01 1e0cA c.46.1.2,c.46.1.2 32717,32718 2bnkA 67 8.76e+01 2f4mA 295 8.78e+01 1xtpA 254 8.80e+01 1p2fA 220 8.81e+01 a.4.6.1,c.23.1.1 87720,87721 1gveA 327 8.82e+01 c.1.7.1 70597 1rz4A 226 8.83e+01 a.4.5.53,a.118.1.18 105131,105132 1oj4A 283 8.85e+01 d.14.1.5,d.58.26.5 93083,93084 1z15A 344 8.93e+01 1unnC 115 8.95e+01 d.240.1.1 99680 1xmtA 103 8.99e+01