# 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 2aexA 346 3.14e-01 2b1eA 564 3.69e-01 1j93A 353 9.10e-01 c.1.22.1 66454 1oyc 400 1.01e+00 1oyc c.1.4.1 28603 1m1eB 81 1.32e+00 a.161.1.1 78400 1y96B 85 1.45e+00 1t95A 240 1.48e+00 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 2c5kT 95 1.78e+00 1q6cA 495 2.18e+00 c.1.8.1 95970 1wdpA 495 2.18e+00 1byb 495 2.19e+00 1byb c.1.8.1 28790 1v3hA 495 2.20e+00 c.1.8.1 108303 1tw9A 206 2.20e+00 a.45.1.1,c.47.1.5 107381,107382 2au5A 139 2.44e+00 1lj9A 144 2.68e+00 a.4.5.28 78035 1q74A 303 2.83e+00 c.134.1.1 96019 1jixA 351 3.24e+00 1c3jA c.87.1.1 63081 1c3jA 351 3.35e+00 1c3jA c.87.1.1 35459 1t3wA 148 3.60e+00 1vgoA 253 3.60e+00 1bbhA 131 3.77e+00 1bbhA a.24.3.2 16546 1hwtC 81 4.12e+00 1hwtC g.38.1.1,h.1.3.1 45085,45518 1eca 136 4.21e+00 1flp a.1.1.2 15209 1p9qC 256 4.48e+00 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1foeA 377 4.99e+00 1foeA a.87.1.1,b.55.1.1 18517,26969 1n4kA 381 5.01e+00 a.118.22.1,b.42.6.1 79992,79993 1h6pA 203 5.30e+00 a.146.1.1 60690 2adoA 196 5.40e+00 1k2xB 143 5.48e+00 1ut8A 291 5.68e+00 a.60.7.1,c.120.1.2 99908,99909 2etxA 209 5.70e+00 2a5vA 213 5.80e+00 1eijA 80 5.89e+00 1eijA a.5.6.1 16298 1f46A 140 6.37e+00 1f46A d.129.4.1 59643 2fu2A 102 6.59e+00 1vd2A 89 6.88e+00 d.15.2.2 108517 3tmkA 216 7.21e+00 3tmkA c.37.1.1 31920 1ym3A 215 7.28e+00 1ofcX 304 7.61e+00 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2fpqA 444 7.84e+00 2tpsA 227 8.10e+00 2tpsA c.1.3.1 28591 1o6dA 163 8.16e+00 c.116.1.3 92567 1g0cA 364 8.51e+00 7a3hA c.1.8.3 60165 1r0mA 375 8.71e+00 c.1.11.2,d.54.1.1 104747,104748 1jsxA 207 8.86e+00 c.66.1.20 71846 1xhdA 173 8.98e+00 1b5tA 275 9.43e+00 1b5tA c.1.23.1 29676 1k8tA 510 9.63e+00 e.41.1.1 68316 1wdtA 665 1.00e+01 1n3lA 372 1.01e+01 c.26.1.1 79966 2amyA 246 1.02e+01 1t5bA 201 1.04e+01 c.23.5.3 106433 1v2zA 111 1.05e+01 a.186.1.1 108300 2fcwA 109 1.06e+01 1grj 158 1.08e+01 1grj a.2.1.1,d.26.1.2 15691,38433 2a6sA 84 1.08e+01 1jo0A 98 1.09e+01 d.68.4.1 77140 2f9dA 125 1.13e+01 1cvrA 435 1.14e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 2fefA 294 1.15e+01 2cvhA 220 1.27e+01 1fkx 349 1.28e+01 1a4mA c.1.9.1 29018 1qbgA 272 1.30e+01 1d4aA c.23.5.3 31227 1vflA 356 1.37e+01 2aukA 190 1.40e+01 1yirA 408 1.40e+01 1innA 166 1.43e+01 1j98A d.185.1.2 62608 1vjeA 166 1.43e+01 d.185.1.2 100807 1t0iA 191 1.48e+01 c.23.5.4 106209 1wkyA 464 1.52e+01 2bkaA 242 1.52e+01 1rw1A 114 1.53e+01 1e79A 510 1.54e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 2ck3A 510 1.59e+01 1qgxA 357 1.59e+01 1qgxA e.7.1.1 42973 1ka1A 357 1.59e+01 e.7.1.1 68369 1ih8A 271 1.60e+01 2nsyA c.26.2.1 62377 1g6hA 257 1.69e+01 1gajA c.37.1.12 60318 1z7xW 461 1.71e+01 1ovnA 248 1.71e+01 a.71.1.1,c.47.1.7 93602,93603 1y9qA 192 1.72e+01 1kqpA 271 1.75e+01 c.26.2.1 72883 1v1dA 31 1.75e+01 2beqD 48 1.76e+01 1txnA 328 1.78e+01 1idrA 136 1.79e+01 1dlyA a.1.1.1 62301 1w1iE 357 1.82e+01 c.1.9.1 109051 1ezvB 352 1.86e+01 1ezvB d.185.1.1,d.185.1.1 59543,59544 1fnnA 389 1.87e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 2gl5A 410 1.89e+01 2bexA 460 1.92e+01 2ar0A 541 1.92e+01 1a4yA 460 1.92e+01 1a4yA c.10.1.1 30852 1tikA 213 1.92e+01 c.23.5.3 107003 1uw4A 91 1.93e+01 d.58.7.4 100071 1aj8A 371 1.93e+01 1aj8A a.103.1.1 18900 1dp3A 55 1.94e+01 1dp3A a.55.1.2 59128 2fueA 262 1.95e+01 1vjuA 309 1.97e+01 d.248.1.1 100835 1ltsC 41 1.98e+01 1ltsC 1pkhA 204 2.03e+01 b.85.4.1 94832 1a6q 382 2.03e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1ijgA 309 2.04e+01 1fouA e.27.1.1 62493 1y97A 238 2.06e+01 1d4aA 273 2.08e+01 1d4aA c.23.5.3 31219 1i37A 260 2.08e+01 1a28A a.123.1.1 61583 1uvqB 198 2.09e+01 b.1.1.2,d.19.1.1 100064,100065 1a8h 500 2.11e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1upvA 257 2.12e+01 1pq9A 253 2.14e+01 a.123.1.1 95004 2ax8A 256 2.16e+01 1kx5B 102 2.16e+01 a.22.1.1 77594 1nvmA 345 2.17e+01 a.5.7.1,c.1.10.5 86249,86250 2d81A 318 2.25e+01 2amdA 311 2.37e+01 3ertA 261 2.38e+01 3erdA a.123.1.1 19292 1ockA 412 2.39e+01 c.117.1.1 86802 1sauA 115 2.39e+01 1h5wA 309 2.45e+01 e.27.1.1 65635 1tfjA 219 2.46e+01 1uroA 367 2.47e+01 1uroA c.1.22.1 29675 1paqA 189 2.50e+01 a.118.1.14 94413 1hq3D 103 2.50e+01 1aoiB a.22.1.1 16464 1tzyD 103 2.50e+01 a.22.1.1 107533 1xfxA 777 2.52e+01 1tn4 159 2.54e+01 1ncx a.39.1.5 17248 1vjvA 415 2.56e+01 d.3.1.9 108632 1svy 114 2.59e+01 1svy d.109.1.1 40831 1r3sA 367 2.64e+01 c.1.22.1 96963 2fbhA 146 2.65e+01 2ax9A 256 2.68e+01 1cmbA 104 2.73e+01 1cmbA a.43.1.5 17460 2f6mA 65 2.75e+01 1sjqA 105 2.79e+01 d.58.7.1 105660 2fsjA 346 2.80e+01 2c1vA 338 2.80e+01 1czqA 46 2.80e+01 1czqA h.3.2.1 45720 2af4C 333 2.83e+01 1avsA 90 2.86e+01 1cll a.39.1.5 17226 2erbA 125 2.90e+01 2b18A 164 2.90e+01 1v3wA 173 2.95e+01 b.81.1.5 100291 1z7dA 433 2.97e+01 2c4jA 218 2.98e+01 1tr0A 108 2.98e+01 d.58.4.4 107261 1gln 468 3.00e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1tzzA 392 3.03e+01 1v63A 101 3.04e+01 a.21.1.1 108391 1a4mA 349 3.05e+01 1a4mA c.1.9.1 29014 2gokA 429 3.07e+01 1xygD 359 3.07e+01 1b0nA 111 3.12e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 2bezF 42 3.12e+01 1wbeA 209 3.14e+01 1vzjA 40 3.22e+01 1e5pA 151 3.24e+01 1bj7 b.60.1.1 59272 1sczA 233 3.25e+01 c.43.1.1 98802 1z0xA 220 3.26e+01 1h8eA 510 3.29e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1t7rA 269 3.29e+01 a.123.1.1 106635 2b7kA 200 3.29e+01 1ihrA 76 3.30e+01 1ihrA d.212.1.2 62392 1j79A 347 3.31e+01 1j79A c.1.9.4 62675 1amk 251 3.33e+01 1amk c.1.1.1 28503 1pdz 434 3.35e+01 4enl c.1.11.1,d.54.1.1 29215,38859 1cpq 129 3.42e+01 1cpq a.24.3.2 16556 1ekqA 272 3.43e+01 1c3qA c.72.1.2 34941 1p5zB 263 3.48e+01 c.37.1.1 87815 2cbzA 237 3.49e+01 1keaA 221 3.55e+01 a.96.1.2 68491 1brwA 433 3.55e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1y791 680 3.56e+01 1vcsA 102 3.57e+01 2a4vA 159 3.57e+01 1woqA 267 3.58e+01 c.55.1.10,c.55.1.10 109462,109463 1dd3C 32 3.59e+01 1dd3C a.108.1.1 19033 1dekA 241 3.59e+01 1dekA c.37.1.1 31842 1cc5 83 3.70e+01 1cc5 a.3.1.1 15901 1icpA 376 3.74e+01 1oyc c.1.4.1 62270 1usuA 260 3.77e+01 d.14.1.8 99885 1sjdA 368 3.82e+01 c.1.11.2,d.54.1.1 105632,105633 2ax6A 256 4.03e+01 1sknP 92 4.04e+01 1sknP a.37.1.1 17127 1bj7 156 4.08e+01 1bj7 b.60.1.1 27113 1allA 160 4.14e+01 1qgwC a.1.1.3 15647 1vykA 149 4.14e+01 1ajsA 412 4.16e+01 1ajsA c.67.1.1 34276 1nzeA 149 4.16e+01 a.24.18.1 92374 1y1xA 191 4.16e+01 1wudA 89 4.17e+01 1pmzA 86 4.18e+01 a.39.1.10 104195 1jmsA 381 4.18e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1iz0A 302 4.19e+01 b.35.1.2,c.2.1.1 83821,83822 1wa3A 205 4.20e+01 1f37A 110 4.25e+01 1f37A c.47.1.11 33088 1g24A 211 4.28e+01 1g24A d.166.1.1 42270 1edg 380 4.28e+01 1edg c.1.8.3 28807 1pyfA 312 4.28e+01 c.1.7.1 95334 1n9dA 199 4.29e+01 a.26.1.1 85464 1azo 232 4.40e+01 1azo c.52.1.14 33329 1onwA 390 4.41e+01 b.92.1.7,c.1.9.13 87172,87173 1onxA 390 4.43e+01 b.92.1.7,c.1.9.13 87176,87177 1itg 166 4.46e+01 1b9dA c.55.3.2 33661 1lt3A 240 4.58e+01 1lt3A d.166.1.1 42230 1wmaA 276 4.59e+01 1iq4A 179 4.60e+01 1iq4A d.77.1.1 62641 1yy7A 213 4.60e+01 1a7w 69 4.64e+01 1a7w a.22.1.2 16477 1q1hA 110 4.65e+01 a.4.5.41 95580 1ef8A 261 4.66e+01 1ef8A c.14.1.3 30921 1wc3A 219 4.68e+01 1uurA 473 4.70e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1dugA 234 4.72e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1kv5A 250 4.73e+01 c.1.1.1 73052 1aiu 105 4.74e+01 1erv c.47.1.1 32746 1hx0A 496 4.75e+01 b.71.1.1,c.1.8.1 61346,61347 2b6hA 192 4.77e+01 1qksA 567 4.79e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1erv 105 4.86e+01 1erv c.47.1.1 32743 1emvB 134 4.87e+01 1bxiB d.4.1.1 37135 1wy1A 172 4.88e+01 1v77A 212 4.90e+01 c.6.3.2 108402 1xw5A 217 4.92e+01 1mp4A 292 4.93e+01 c.68.1.6 79376 1acf 125 4.99e+01 3nul d.110.1.1 40882 1kr7A 110 5.00e+01 a.1.1.4 72890 2ao9A 155 5.02e+01 1b67A 68 5.04e+01 1a7w a.22.1.2 16474 1wmhA 89 5.17e+01 2ezvA 269 5.18e+01 1j0hA 588 5.25e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1h5rA 293 5.27e+01 c.68.1.6 65623 1m4jA 142 5.39e+01 d.109.1.2 78602 1n83A 270 5.41e+01 a.123.1.1 80276 1jae 471 5.42e+01 1smd b.71.1.1,c.1.8.1 27773,28760 2agaA 190 5.44e+01 1xd8A 289 5.49e+01 2aclB 244 5.52e+01 1y74A 57 5.53e+01 1m0uA 249 5.59e+01 a.45.1.1,c.47.1.5 78359,78360 1ou8A 111 5.62e+01 b.136.1.1 93543 1kv9A 668 5.63e+01 a.3.1.6,b.70.1.1 73056,73057 1vbuA 328 5.66e+01 1n55A 251 5.67e+01 c.1.1.1 80007 1u2fA 90 5.70e+01 1u2fA d.58.7.1 39168 2abbA 364 5.72e+01 2cw6A 298 5.73e+01 1vypX 364 5.74e+01 c.1.4.1 108905 1xzoA 174 5.78e+01 1kb9B 352 5.78e+01 d.185.1.1,d.185.1.1 77313,77314 1pzlA 237 5.80e+01 a.123.1.1 104393 1h97A 147 5.83e+01 1h97A a.1.1.2 60812 1szoA 257 5.83e+01 c.14.1.3 106164 1xfuA 747 5.84e+01 1lghB 45 5.84e+01 1lghB f.3.1.1 43734 1epwA 1290 5.86e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1owfA 99 5.86e+01 a.55.1.1 87487 2c2aA 258 5.86e+01 2bskB 90 5.88e+01 1vaxA 287 5.94e+01 1v6fA 151 5.96e+01 d.109.1.2 108395 1sdiA 213 6.07e+01 a.198.1.1 105437 1auoA 218 6.14e+01 1auoA c.69.1.14 34716 1t3qB 788 6.18e+01 d.41.1.1,d.133.1.1 106369,106370 1or4A 178 6.27e+01 a.1.1.2 93447 1xfxO 149 6.29e+01 1o8uA 257 6.32e+01 c.14.1.3 81194 1z0kB 69 6.38e+01 1qz4A 213 6.39e+01 a.198.1.1 96613 1nkpA 88 6.40e+01 a.38.1.1 80573 1jboA 162 6.41e+01 a.1.1.3 84150 2cq2A 114 6.42e+01 1hjzA 192 6.44e+01 c.50.1.2 83520 1vhuA 211 6.47e+01 c.50.1.2 100703 1nh1A 330 6.48e+01 e.45.1.1 91871 1zavU 30 6.51e+01 1fviA 297 6.51e+01 1fviA b.40.4.6,d.142.2.1 25364,41578 2a9kB 223 6.59e+01 1vknA 351 6.60e+01 c.2.1.3,d.81.1.1 108676,108677 1e3pA 757 6.60e+01 1e3hA a.4.9.1,b.40.4.5,d.14.1.4,d.14.1.4,d.52.3.1,d.101.1.1,d.101.1.1 16258,25328,37574,37575,38811,40697,40698 1b4pA 217 6.62e+01 a.45.1.1,c.47.1.5 83158,83159 1zp4A 304 6.66e+01 1eyvA 156 6.66e+01 1eyvA a.79.1.1 18446 1ydmA 187 6.72e+01 1rh5A 436 6.73e+01 f.41.1.1 97464 6gsvA 217 6.75e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1pvmA 184 6.79e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1xpcA 248 6.83e+01 1i4dA 224 6.85e+01 h.4.7.1 61682 1yzmA 51 6.85e+01 1p5jA 372 6.91e+01 c.79.1.1 104067 1tqhA 247 6.92e+01 c.69.1.29 107225 1j09A 468 7.01e+01 a.97.1.1,c.26.1.1 77025,77026 1sbp 310 7.04e+01 1sbp c.94.1.1 35760 2cybA 323 7.05e+01 1vp8A 201 7.06e+01 2a5kA 307 7.06e+01 1kn1B 161 7.06e+01 a.1.1.3 77456 2cwoA 197 7.09e+01 1y08A 323 7.09e+01 1bu6O 501 7.12e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1whtB 153 7.17e+01 1whtB 1q1fA 151 7.17e+01 a.1.1.2 104476 1oaqH 121 7.22e+01 b.1.1.1 92707 1r26A 125 7.24e+01 c.47.1.1 96847 1eumA 165 7.33e+01 1eumA a.25.1.1 59507 1gvoA 364 7.33e+01 c.1.4.1 76357 1j77A 209 7.40e+01 1j77A a.132.1.2 62674 1vzoA 355 7.41e+01 d.144.1.7 108971 1u8xX 472 7.41e+01 c.2.1.5,d.162.1.2 107741,107742 1l1zA 274 7.45e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1h3nA 878 7.45e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1hr6B 443 7.51e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 2ax3A 502 7.55e+01 1cmcA 104 7.57e+01 1cmbA a.43.1.5 17462 1vyrA 364 7.57e+01 c.1.4.1 108906 1h61A 364 7.57e+01 1oyc c.1.4.1 60657 1zckA 154 7.59e+01 1l0bA 229 7.60e+01 c.15.1.3,c.15.1.3 73391,73392 1p65A 73 7.64e+01 d.254.1.1 94156 1jksA 294 7.68e+01 d.144.1.7 71710 1whzA 70 7.71e+01 1rgxA 114 7.73e+01 g.77.1.1 104932 1whsB 153 7.81e+01 1whtB 1sbyA 254 7.85e+01 1b16A 254 7.87e+01 1b16A c.2.1.2 29875 1wwrA 171 7.90e+01 2gsq 202 8.00e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1c7sA 858 8.03e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1ha1 184 8.08e+01 1ha1 d.58.7.1,d.58.7.1 39147,39148 1jf8A 131 8.13e+01 c.44.1.1 66621 1jsdB 176 8.16e+01 h.3.1.1 63259 1ak0 270 8.24e+01 1ak0 a.124.1.2 19345 2gi3A 476 8.29e+01 1kx5D 125 8.29e+01 a.22.1.1 77596 1zbsA 291 8.32e+01 2a7oA 112 8.34e+01 1b0uA 262 8.37e+01 1b0uA c.37.1.12 32370 1r2zA 274 8.50e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1r5qA 102 8.52e+01 a.186.1.1 97103 1q0rA 298 8.52e+01 c.69.1.28 95508 1wi6A 88 8.56e+01 1k1vA 41 8.59e+01 a.37.1.1 71999 1l0lB 439 8.59e+01 d.185.1.1,d.185.1.1 84484,84485 2b5dX 528 8.60e+01 1n1jA 93 8.62e+01 a.22.1.3 79813 1q7zA 566 8.62e+01 c.1.21.2,c.1.26.1 96090,96091 1vlwA 217 8.63e+01 c.1.10.1 108868 1vgwA 231 8.66e+01 c.68.1.13 100612 1b0b 142 8.69e+01 2fal a.1.1.2 15010 1q4rA 112 8.72e+01 d.58.4.4 95823 1dpsA 167 8.79e+01 1dpsA a.25.1.1 16716 1vjnA 220 8.81e+01 d.157.1.4 100825 1vf6A 83 8.83e+01 a.194.1.1 100600 4ubpA 101 8.86e+01 1ubpA d.8.1.1 37352 1fr2A 86 8.90e+01 a.28.2.1 83256 1hq3B 126 8.91e+01 1aoiD a.22.1.1 16444 1tzyB 126 8.91e+01 a.22.1.1 107531 1spvA 184 8.92e+01 c.50.1.2 98957 1qfeA 252 8.95e+01 1qfeA c.1.10.1 29167