# 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 2.65e-01 2b1eA 564 5.48e-01 1t95A 240 5.87e-01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1oyc 400 7.24e-01 1oyc c.1.4.1 28603 1j93A 353 9.23e-01 c.1.22.1 66454 2h0uA 217 1.04e+00 1y96B 85 1.32e+00 1q74A 303 1.43e+00 c.134.1.1 96019 1m1eB 81 1.44e+00 a.161.1.1 78400 2au5A 139 1.63e+00 1p9qC 256 1.82e+00 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1lj9A 144 2.04e+00 a.4.5.28 78035 1q6cA 495 2.08e+00 c.1.8.1 95970 1byb 495 2.08e+00 1byb c.1.8.1 28790 1wdpA 495 2.08e+00 1v3hA 495 2.09e+00 c.1.8.1 108303 1tw9A 206 2.25e+00 a.45.1.1,c.47.1.5 107381,107382 2c5kT 95 2.27e+00 1eca 136 2.80e+00 1flp a.1.1.2 15209 1g0cA 364 3.10e+00 7a3hA c.1.8.3 60165 1vgoA 253 3.11e+00 1t3wA 148 3.68e+00 1jixA 351 3.75e+00 1c3jA c.87.1.1 63081 1bbhA 131 3.86e+00 1bbhA a.24.3.2 16546 1c3jA 351 3.90e+00 1c3jA c.87.1.1 35459 1n4kA 381 4.11e+00 a.118.22.1,b.42.6.1 79992,79993 1r0mA 375 4.18e+00 c.1.11.2,d.54.1.1 104747,104748 1k2xB 143 4.43e+00 2adoA 196 4.47e+00 1hwtC 81 4.58e+00 1hwtC g.38.1.1,h.1.3.1 45085,45518 2etxA 209 4.70e+00 1h6pA 203 4.78e+00 a.146.1.1 60690 1grj 158 5.23e+00 1grj a.2.1.1,d.26.1.2 15691,38433 2cvhA 220 5.26e+00 1foeA 377 5.48e+00 1foeA a.87.1.1,b.55.1.1 18517,26969 1t5bA 201 5.48e+00 c.23.5.3 106433 2a5vA 213 5.86e+00 1jsxA 207 5.92e+00 c.66.1.20 71846 1ut8A 291 6.09e+00 a.60.7.1,c.120.1.2 99908,99909 1yirA 408 6.36e+00 1ih8A 271 6.75e+00 2nsyA c.26.2.1 62377 2tpsA 227 6.76e+00 2tpsA c.1.3.1 28591 1wkyA 464 7.00e+00 1f46A 140 7.28e+00 1f46A d.129.4.1 59643 2fu2A 102 7.37e+00 2fefA 294 7.43e+00 1vd2A 89 7.80e+00 d.15.2.2 108517 1ym3A 215 8.28e+00 2beqD 48 8.45e+00 1y97A 238 8.53e+00 1kqpA 271 8.70e+00 c.26.2.1 72883 2aukA 190 8.92e+00 1upvA 257 9.18e+00 1xhdA 173 9.74e+00 1kx5B 102 9.76e+00 a.22.1.1 77594 1hq3D 103 9.84e+00 1aoiB a.22.1.1 16464 1tzyD 103 9.84e+00 a.22.1.1 107533 1v2zA 111 1.01e+01 a.186.1.1 108300 1uw4A 91 1.02e+01 d.58.7.4 100071 1n3lA 372 1.06e+01 c.26.1.1 79966 1tikA 213 1.08e+01 c.23.5.3 107003 1nvmA 345 1.08e+01 a.5.7.1,c.1.10.5 86249,86250 1pkhA 204 1.10e+01 b.85.4.1 94832 1k8tA 510 1.10e+01 e.41.1.1 68316 1o6dA 163 1.11e+01 c.116.1.3 92567 2fcwA 109 1.11e+01 2amyA 246 1.12e+01 1vjeA 166 1.14e+01 d.185.1.2 100807 1innA 166 1.14e+01 1j98A d.185.1.2 62608 1vflA 356 1.15e+01 2amdA 311 1.16e+01 2a6sA 84 1.17e+01 1pq9A 253 1.22e+01 a.123.1.1 95004 1ofcX 304 1.23e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1e79A 510 1.25e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 2ck3A 510 1.28e+01 1zckA 154 1.28e+01 1fkx 349 1.32e+01 1a4mA c.1.9.1 29018 1qbgA 272 1.35e+01 1d4aA c.23.5.3 31227 1wdtA 665 1.37e+01 3tmkA 216 1.37e+01 3tmkA c.37.1.1 31920 1ezvB 352 1.44e+01 1ezvB d.185.1.1,d.185.1.1 59543,59544 2gl5A 410 1.51e+01 1w1iE 357 1.58e+01 c.1.9.1 109051 1ekqA 272 1.59e+01 1c3qA c.72.1.2 34941 1txnA 328 1.62e+01 1i37A 260 1.64e+01 1a28A a.123.1.1 61583 1jo0A 98 1.65e+01 d.68.4.1 77140 2fueA 262 1.66e+01 2ar0A 541 1.70e+01 2bkaA 242 1.74e+01 1cvrA 435 1.77e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 2bezF 42 1.80e+01 1ockA 412 1.83e+01 c.117.1.1 86802 2gokA 429 1.89e+01 1v1dA 31 1.91e+01 2erbA 125 1.94e+01 1fnnA 389 1.96e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1y9qA 192 1.97e+01 1eijA 80 1.98e+01 1eijA a.5.6.1 16298 1y1xA 191 2.01e+01 1sjdA 368 2.01e+01 c.1.11.2,d.54.1.1 105632,105633 1ajsA 412 2.02e+01 1ajsA c.67.1.1 34276 1z7dA 433 2.02e+01 1tfjA 219 2.04e+01 1paqA 189 2.06e+01 a.118.1.14 94413 2f6mA 65 2.08e+01 1wa3A 205 2.08e+01 2c4jA 218 2.11e+01 2fsjA 346 2.14e+01 1idrA 136 2.16e+01 1dlyA a.1.1.1 62301 1d4aA 273 2.23e+01 1d4aA c.23.5.3 31219 1keaA 221 2.25e+01 a.96.1.2 68491 1h8eA 510 2.26e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1a7w 69 2.27e+01 1a7w a.22.1.2 16477 1zuhA 168 2.29e+01 1dp3A 55 2.33e+01 1dp3A a.55.1.2 59128 1tzzA 392 2.34e+01 1pdz 434 2.38e+01 4enl c.1.11.1,d.54.1.1 29215,38859 1rw1A 114 2.40e+01 1b67A 68 2.43e+01 1a7w a.22.1.2 16474 1icpA 376 2.43e+01 1oyc c.1.4.1 62270 1uvqB 198 2.44e+01 b.1.1.2,d.19.1.1 100064,100065 1dekA 241 2.44e+01 1dekA c.37.1.1 31842 2b18A 164 2.45e+01 1wbeA 209 2.46e+01 1avsA 90 2.46e+01 1cll a.39.1.5 17226 1vcsA 102 2.46e+01 2fbhA 146 2.47e+01 1ltsC 41 2.47e+01 1ltsC 1ovnA 248 2.47e+01 a.71.1.1,c.47.1.7 93602,93603 2fpqA 444 2.49e+01 1sauA 115 2.53e+01 2ax8A 256 2.53e+01 3ertA 261 2.58e+01 3erdA a.123.1.1 19292 1z7xW 461 2.61e+01 1uurA 473 2.64e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1xfxA 777 2.64e+01 1amk 251 2.65e+01 1amk c.1.1.1 28503 1allA 160 2.68e+01 1qgwC a.1.1.3 15647 1y791 680 2.71e+01 1brwA 433 2.73e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1auoA 218 2.75e+01 1auoA c.69.1.14 34716 1z0xA 220 2.76e+01 1vzjA 40 2.80e+01 2b6hA 192 2.85e+01 1vjvA 415 2.87e+01 d.3.1.9 108632 1vjuA 309 2.89e+01 d.248.1.1 100835 2di4A 238 2.91e+01 1v3wA 173 2.97e+01 b.81.1.5 100291 2bexA 460 3.02e+01 1tn4 159 3.03e+01 1ncx a.39.1.5 17248 1a4yA 460 3.07e+01 1a4yA c.10.1.1 30852 1jmsA 381 3.08e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1b0nA 111 3.08e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1q1fA 151 3.12e+01 a.1.1.2 104476 1a4mA 349 3.14e+01 1a4mA c.1.9.1 29014 1aj8A 371 3.14e+01 1aj8A a.103.1.1 18900 1e5pA 151 3.15e+01 1bj7 b.60.1.1 59272 1n83A 270 3.16e+01 a.123.1.1 80276 2ax9A 256 3.18e+01 1t7rA 269 3.23e+01 a.123.1.1 106635 1kv5A 250 3.24e+01 c.1.1.1 73052 1cmbA 104 3.25e+01 1cmbA a.43.1.5 17460 1woqA 267 3.25e+01 c.55.1.10,c.55.1.10 109462,109463 1kn1B 161 3.25e+01 a.1.1.3 77456 1wmaA 276 3.35e+01 1a6q 382 3.35e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1edg 380 3.38e+01 1edg c.1.8.3 28807 1bj7 156 3.38e+01 1bj7 b.60.1.1 27113 1t0iA 191 3.40e+01 c.23.5.4 106209 1y74A 57 3.41e+01 1qgxA 357 3.44e+01 1qgxA e.7.1.1 42973 1ka1A 357 3.45e+01 e.7.1.1 68369 1azo 232 3.47e+01 1azo c.52.1.14 33329 1kr7A 110 3.47e+01 a.1.1.4 72890 1czqA 46 3.47e+01 1czqA h.3.2.1 45720 1sknP 92 3.55e+01 1sknP a.37.1.1 17127 1ydmA 187 3.57e+01 1sczA 233 3.61e+01 c.43.1.1 98802 1vbuA 328 3.69e+01 2f9dA 125 3.69e+01 1ir6A 424 3.72e+01 c.107.1.2 71342 1fviA 297 3.81e+01 1fviA b.40.4.6,d.142.2.1 25364,41578 1g24A 211 3.82e+01 1g24A d.166.1.1 42270 1wudA 89 3.85e+01 1pyfA 312 3.86e+01 c.1.7.1 95334 1tr0A 108 3.86e+01 d.58.4.4 107261 1owfA 99 3.87e+01 a.55.1.1 87487 1fr2A 86 3.91e+01 a.28.2.1 83256 1wc3A 219 3.91e+01 1dugA 234 3.93e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1xw5A 217 3.93e+01 1v63A 101 3.93e+01 a.21.1.1 108391 2a5kA 307 3.94e+01 2af4C 333 3.96e+01 1a8h 500 3.98e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1b5tA 275 4.04e+01 1b5tA c.1.23.1 29676 1h97A 147 4.04e+01 1h97A a.1.1.2 60812 1mp4A 292 4.07e+01 c.68.1.6 79376 1cpq 129 4.09e+01 1cpq a.24.3.2 16556 1e3pA 757 4.12e+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 1q1hA 110 4.17e+01 a.4.5.41 95580 1pvmA 184 4.17e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1oaqH 121 4.19e+01 b.1.1.1 92707 1kb9B 352 4.21e+01 d.185.1.1,d.185.1.1 77313,77314 2aclB 244 4.21e+01 1n9dA 199 4.24e+01 a.26.1.1 85464 1yy7A 213 4.25e+01 1gln 468 4.30e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1ef8A 261 4.34e+01 1ef8A c.14.1.3 30921 1rxdA 159 4.35e+01 1h5rA 293 4.46e+01 c.68.1.6 65623 1svy 114 4.47e+01 1svy d.109.1.1 40831 2bskB 90 4.48e+01 2ax6A 256 4.49e+01 1jboA 162 4.66e+01 a.1.1.3 84150 1dd3C 32 4.70e+01 1dd3C a.108.1.1 19033 1xzoA 174 4.72e+01 1usuA 260 4.73e+01 d.14.1.8 99885 1u53A 196 4.82e+01 2cybA 323 4.83e+01 2f6uA 234 4.89e+01 1snnA 227 4.94e+01 d.115.1.2 105821 1pvyA 227 4.96e+01 d.115.1.2 95195 1t3qB 788 5.01e+01 d.41.1.1,d.133.1.1 106369,106370 2cq2A 114 5.02e+01 1cc5 83 5.06e+01 1cc5 a.3.1.1 15901 1n55A 251 5.07e+01 c.1.1.1 80007 1iuqA 367 5.21e+01 c.112.1.1 90703 1qksA 567 5.23e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1vykA 149 5.28e+01 1m4jA 142 5.31e+01 d.109.1.2 78602 1szoA 257 5.38e+01 c.14.1.3 106164 1iq4A 179 5.47e+01 1iq4A d.77.1.1 62641 1nzeA 149 5.51e+01 a.24.18.1 92374 1o8uA 257 5.51e+01 c.14.1.3 81194 1sdiA 213 5.58e+01 a.198.1.1 105437 2gsq 202 5.65e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1vlwA 217 5.72e+01 c.1.10.1 108868 1qz4A 213 5.77e+01 a.198.1.1 96613 1wq6A 72 5.79e+01 1nh1A 330 5.81e+01 e.45.1.1 91871 1lghB 45 5.83e+01 1lghB f.3.1.1 43734 2c1vA 338 5.85e+01 2abbA 364 5.88e+01 1vypX 364 5.89e+01 c.1.4.1 108905 1j79A 347 5.95e+01 1j79A c.1.9.4 62675 1zjcA 418 5.98e+01 1ak0 270 6.00e+01 1ak0 a.124.1.2 19345 2a9kB 223 6.00e+01 1b0b 142 6.02e+01 2fal a.1.1.2 15010 1cpcB 172 6.05e+01 1qgwC a.1.1.3 15644 1to6A 371 6.08e+01 c.141.1.1 107170 1b4pA 217 6.09e+01 a.45.1.1,c.47.1.5 83158,83159 2ccjA 205 6.11e+01 1g6hA 257 6.12e+01 1gajA c.37.1.12 60318 1l0lB 439 6.12e+01 d.185.1.1,d.185.1.1 84484,84485 1vaxA 287 6.13e+01 1bmtA 246 6.16e+01 1bmtA a.46.1.1,c.23.6.1 17757,31235 2fhfA 1083 6.18e+01 6gsvA 217 6.21e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1c7sA 858 6.22e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1r9lA 309 6.23e+01 c.94.1.1 97262 1uok 558 6.24e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1emvA 86 6.26e+01 1cei a.28.2.1 16944 1vp8A 201 6.29e+01 2gboA 104 6.31e+01 2basA 431 6.31e+01 1eyvA 156 6.33e+01 1eyvA a.79.1.1 18446 2ax3A 502 6.35e+01 2ffuA 501 6.45e+01 1iz0A 302 6.54e+01 b.35.1.2,c.2.1.1 83821,83822 1jboB 172 6.54e+01 a.1.1.3 84151 1xfuA 747 6.56e+01 1n1jA 93 6.58e+01 a.22.1.3 79813 1v6fA 151 6.59e+01 d.109.1.2 108395 1lvfA 110 6.63e+01 a.47.2.1 74280 1b0uA 262 6.66e+01 1b0uA c.37.1.12 32370 1wmhA 89 6.66e+01 1spvA 184 6.69e+01 c.50.1.2 98957 1xfxO 149 6.69e+01 2ezvA 269 6.69e+01 1sbp 310 6.69e+01 1sbp c.94.1.1 35760 1zgmA 248 6.74e+01 1rgxA 114 6.79e+01 g.77.1.1 104932 1cmcA 104 6.89e+01 1cmbA a.43.1.5 17462 1r3sA 367 6.92e+01 c.1.22.1 96963 1wy1A 172 6.97e+01 2cw6A 298 6.97e+01 1uroA 367 7.01e+01 1uroA c.1.22.1 29675 1r5qA 102 7.01e+01 a.186.1.1 97103 1whzA 70 7.02e+01 1pzlA 237 7.08e+01 a.123.1.1 104393 1itg 166 7.12e+01 1b9dA c.55.3.2 33661 1eumA 165 7.15e+01 1eumA a.25.1.1 59507 1j77A 209 7.16e+01 1j77A a.132.1.2 62674 2f2eA 146 7.23e+01 1n5dA 288 7.25e+01 c.2.1.2 80030 1hu4A 288 7.25e+01 1hu4A 1zavU 30 7.33e+01 1wwrA 171 7.43e+01 1ppjA 446 7.44e+01 d.185.1.1,d.185.1.1 104252,104253 1sjqA 105 7.46e+01 d.58.7.1 105660 1z0kB 69 7.48e+01 1hnuA 280 7.55e+01 1hnoA c.14.1.3 61096 1cpcA 162 7.55e+01 1cpcA a.1.1.3 15643 1w0mA 226 7.56e+01 c.1.1.1 109027 1te6A 439 7.68e+01 c.1.11.1,d.54.1.1 106797,106798 1ow1A 195 7.69e+01 b.131.1.3 93625 1p65A 73 7.70e+01 d.254.1.1 94156 1t6cA 315 7.75e+01 c.55.1.8,c.55.1.8 106558,106559 4ubpA 101 7.76e+01 1ubpA d.8.1.1 37352 1yzmA 51 7.76e+01 1ou8A 111 7.77e+01 b.136.1.1 93543 2b5dX 528 7.78e+01 2fq4A 192 7.83e+01 1gvoA 364 7.84e+01 c.1.4.1 76357 1n0wA 243 7.85e+01 c.37.1.11 79772 1hr6B 443 7.86e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1h61A 364 7.86e+01 1oyc c.1.4.1 60657 1vyrA 364 7.86e+01 c.1.4.1 108906 1ykiA 217 7.96e+01 1vzoA 355 7.96e+01 d.144.1.7 108971 2fnoA 248 7.97e+01 1l0bA 229 7.98e+01 c.15.1.3,c.15.1.3 73391,73392 2c2aA 258 7.99e+01 2a7oA 112 8.03e+01 1acf 125 8.04e+01 3nul d.110.1.1 40882 2gi3A 476 8.05e+01 2cbzA 237 8.08e+01 1r2zA 274 8.08e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 2ao9A 155 8.14e+01 1nkpA 88 8.20e+01 a.38.1.1 80573 1elqA 390 8.22e+01 1elqA c.67.1.3 34436 1q2wA 308 8.25e+01 b.47.1.4 88355 1y3nA 490 8.26e+01 1or4A 178 8.29e+01 a.1.1.2 93447 2fliA 220 8.32e+01 1v6tA 255 8.34e+01 1uekA 275 8.35e+01 d.14.1.5,d.58.26.5 88483,88484 1k1vA 41 8.44e+01 a.37.1.1 71999 1eyqA 222 8.44e+01 1eypA d.36.1.1 38534 1iznB 277 8.45e+01 e.43.1.2 83848 1p5zB 263 8.52e+01 c.37.1.1 87815 1i4dA 224 8.53e+01 h.4.7.1 61682 1vm7A 311 8.59e+01 c.72.1.1 108884 1q06A 135 8.61e+01 a.6.1.3 95493 1kn1A 160 8.68e+01 a.1.1.3 77455 1j0hA 588 8.69e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1izmA 184 8.78e+01 a.199.1.1 90725 1f37A 110 8.82e+01 1f37A c.47.1.11 33088 1icrA 217 8.83e+01 1vfrA d.90.1.1 62274 1lt3A 240 8.85e+01 1lt3A d.166.1.1 42230 1v77A 212 8.90e+01 c.6.3.2 108402 1sg0A 230 8.94e+01 1ev0A 58 8.95e+01 1ev0A d.71.1.1 39594 2ct8A 497 8.95e+01 2gh1A 301 8.95e+01 1yn9A 169 8.96e+01