# 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 1vkbA 161 4.16e-13 d.269.1.1 108643 2g0qA 173 1.08e-12 1v30A 124 7.13e-08 1cjxA 357 1.79e-01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1t5hX 504 2.12e-01 e.23.1.1 106449 1ln1A 214 2.79e-01 d.129.3.2 74038 1eejA 216 5.78e-01 1eejA c.47.1.9,d.17.3.1 33057,38071 1hcb 260 7.40e-01 2cba b.74.1.1 27814 2cba 260 8.40e-01 2cba b.74.1.1 27821 1fr7A 260 1.10e+00 2cba b.74.1.1 27828 2foyA 260 1.11e+00 1s9jA 341 1.25e+00 1yo1A 260 1.73e+00 1lugA 259 1.87e+00 b.74.1.1 91127 1blxA 326 2.12e+00 1hcl d.144.1.7 41596 1j2gA 319 2.80e+00 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 1tzzA 392 3.30e+00 1wfuA 120 3.61e+00 1yemA 179 3.83e+00 1fljA 260 3.98e+00 2cba b.74.1.1 27954 2f7fA 494 4.03e+00 1hw7A 255 5.52e+00 1i7fA d.193.1.1 61297 1h2kA 349 5.53e+00 b.82.2.6 76572 2fl7A 232 5.68e+00 1p32A 209 5.91e+00 1p32A d.25.1.1 38379 1fnc 314 6.16e+00 1fnc b.43.4.2,c.25.1.1 25627,31517 1g4wR 383 6.21e+00 1g4uS a.24.11.1,c.45.1.2 16644,32692 1pbwA 216 6.38e+00 1pbwA a.116.1.1 19103 1dgfA 497 6.58e+00 1cf9A e.5.1.1 42782 1fnd 314 6.59e+00 1fnc b.43.4.2,c.25.1.1 25626,31516 1lwdA 413 7.00e+00 c.77.1.1 78265 1m4jA 142 7.07e+00 d.109.1.2 78602 1eur 365 7.07e+00 1eut b.68.1.1 27607 1y2qA 143 7.14e+00 1wu7A 434 7.17e+00 1pg4A 652 7.25e+00 e.23.1.1 88067 1x6oA 174 7.46e+00 b.34.5.2,b.40.4.5 109493,109494 1mdbA 539 8.19e+00 e.23.1.1 79008 1kwgA 645 8.70e+00 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 8rucI 123 8.84e+00 1rboC d.73.1.1 39629 1k3eA 156 9.05e+00 d.198.1.1 68103 1oohA 126 9.22e+00 a.39.2.1 93383 1iw7C 1119 9.40e+00 e.29.1.1 71474 1ukkA 142 9.54e+00 d.227.1.1 99491 1w8oA 601 1.05e+01 1lx7A 253 1.06e+01 c.56.2.1 74329 1vkkA 154 1.07e+01 d.109.1.2 108669 1bx1A 314 1.10e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1mv3A 213 1.11e+01 b.34.2.1 91468 1larA 575 1.13e+01 1larA c.45.1.2,c.45.1.2 32693,32694 1b25A 619 1.20e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1uekA 275 1.21e+01 d.14.1.5,d.58.26.5 88483,88484 1nvmB 312 1.23e+01 c.2.1.3,d.81.1.1 86251,86252 1obbA 480 1.24e+01 c.2.1.5,d.162.1.2 86760,86761 2etgA 296 1.29e+01 1u9tA 354 1.29e+01 1b04A 318 1.30e+01 1b04A d.142.2.2 41579 1rxyA 253 1.31e+01 c.56.2.1 98065 1wcqA 601 1.34e+01 1svvA 359 1.40e+01 c.67.1.1 106054 1lshA 1056 1.40e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1n9lA 109 1.40e+01 d.110.3.6 85468 1t8sA 484 1.42e+01 c.56.2.1 106679 1vllA 334 1.42e+01 c.2.1.13 108834 1ekeA 230 1.42e+01 1ekeA c.55.3.1 33572 1yl31 118 1.43e+01 1bvyF 191 1.44e+01 1bvyF c.23.5.1 31207 1wxxA 382 1.45e+01 1c0pA 363 1.46e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1tafB 70 1.47e+01 1tafB a.22.1.3 16482 1ve1A 304 1.48e+01 1bb9 115 1.48e+01 1bb9 b.34.2.1 24554 1vbvA 105 1.49e+01 1k47A 337 1.50e+01 d.14.1.5,d.58.26.4 72040,72041 1r61A 207 1.51e+01 c.8.8.1 97138 3fivA 116 1.61e+01 1fmb b.50.1.1 26768 2a19A 175 1.68e+01 1a65A 504 1.68e+01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 1top 162 1.70e+01 1ncx a.39.1.5 17223 2fjbA 643 1.71e+01 1zxkA 98 1.72e+01 2ck3A 510 1.72e+01 2cwsA 237 1.73e+01 1zotA 358 1.73e+01 2fp8A 322 1.76e+01 1u2xA 474 1.79e+01 c.72.1.3 107622 1yge 839 1.82e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1z94A 147 1.87e+01 1fiwA 290 1.90e+01 5ptp 1yruA 364 1.93e+01 1m4zA 238 1.95e+01 b.34.12.1 78630 1ywnA 316 1.99e+01 1hfuA 503 2.00e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1v6fA 151 2.02e+01 d.109.1.2 108395 2fgeA 995 2.03e+01 1lci 550 2.05e+01 1lci e.23.1.1 43349 2a6hC 1119 2.05e+01 1zvnA 99 2.07e+01 2hhmA 276 2.07e+01 1imbA e.7.1.1 42955 1jnrA 643 2.11e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 2b3oA 532 2.11e+01 2aexA 346 2.12e+01 1ww7A 160 2.26e+01 1i74A 309 2.30e+01 1i74A c.107.1.1 61867 2f71A 298 2.30e+01 2fh7A 595 2.34e+01 1wbpA 397 2.35e+01 1u3eM 174 2.35e+01 d.4.1.3,d.285.1.1 107640,107641 4fiv 113 2.37e+01 1fmb b.50.1.1 26762 1xxnA 185 2.37e+01 1omoA 322 2.43e+01 c.2.1.13 104017 1fgyA 127 2.46e+01 1faoA b.55.1.1 26976 1v10A 521 2.48e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1s4bP 674 2.51e+01 d.92.1.5 105252 1ng4A 390 2.52e+01 c.3.1.2,d.16.1.3 85666,85667 1sy3A 184 2.52e+01 b.60.1.1 106110 1g5cA 170 2.53e+01 1g5cA c.53.2.1 60264 2eucA 130 2.54e+01 1koiA 184 2.57e+01 b.60.1.1 68725 1woqA 267 2.60e+01 c.55.1.10,c.55.1.10 109462,109463 1uxzA 131 2.61e+01 b.18.1.10 100170 1zgoA 223 2.63e+01 1aozA 552 2.68e+01 1aozA b.6.1.3,b.6.1.3,b.6.1.3 23124,23125,23126 1idaA 99 2.69e+01 1fmb b.50.1.1 26715 1mvwC 147 2.69e+01 i.15.1.1 79525 2d9rA 104 2.70e+01 1wdnA 226 2.71e+01 1lst c.94.1.1 35816 1iqzA 81 2.72e+01 d.58.1.4 66281 1qqrA 138 2.75e+01 1bmlC d.15.5.1 37721 1qxoA 388 2.79e+01 d.258.1.1 96539 1zsqA 528 2.79e+01 2ajrA 331 2.79e+01 1imbA 277 2.83e+01 1imbA e.7.1.1 42957 1zyeA 220 2.86e+01 1aj8A 371 2.91e+01 1aj8A a.103.1.1 18900 1jlnA 297 2.92e+01 1pty c.45.1.2 63172 1qhtA 775 2.96e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 2dcyA 185 2.96e+01 2d1sA 548 2.97e+01 2ghjA 118 3.02e+01 2bhvA 246 3.03e+01 1g3mA 294 3.08e+01 c.37.1.5 83268 1z7bA 358 3.08e+01 1od3A 168 3.12e+01 b.18.1.10 86825 1erxA 184 3.25e+01 1np1A b.60.1.1 27164 1j99A 293 3.26e+01 c.37.1.5 71618 2bx2L 517 3.27e+01 1e79A 510 3.29e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 2bllA 345 3.33e+01 1p5zB 263 3.35e+01 c.37.1.1 87815 1xgsA 295 3.38e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1gen 218 3.41e+01 1gen b.66.1.1 27536 1c7qA 445 3.46e+01 2pgi c.80.1.2 35307 1gdoA 240 3.46e+01 1gdoA 1uxtA 501 3.47e+01 c.82.1.1 108125 1ggxA 223 3.54e+01 1ggxA d.22.1.1 38367 1rovA 857 3.55e+01 a.119.1.1,b.12.1.1 97674,97675 2gl5A 410 3.57e+01 1z02A 446 3.58e+01 2gwhA 298 3.65e+01 1f39A 101 3.65e+01 1umuA b.87.1.1 28386 1vprA 374 3.68e+01 1jmcA 246 3.73e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1hzoA 271 3.73e+01 e.3.1.1 71092 2bmoA 447 3.74e+01 1que 303 3.80e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1xssA 225 3.82e+01 2awkA 228 3.85e+01 1uisA 231 3.86e+01 d.22.1.1 99431 1u8fO 335 3.88e+01 1wpoA 256 3.89e+01 1lay b.57.1.1 27012 1uc8A 280 3.95e+01 c.30.1.6,d.142.1.7 99165,99166 1ukuA 102 3.97e+01 d.58.5.2 99533 1pyaB 228 4.01e+01 1pyaB 1aa8A 347 4.02e+01 1an9A 2akaA 776 4.05e+01 1j0dA 341 4.08e+01 c.79.1.1 83902 1inlA 296 4.09e+01 c.66.1.17 66220 1qj2B 809 4.12e+01 1qj2B 1ad2 228 4.13e+01 1ad2 e.24.1.1 43353 1wveC 80 4.28e+01 1n62B 809 4.29e+01 d.41.1.1,d.133.1.1 80092,80093 1nd4A 264 4.32e+01 d.144.1.6 91815 1s14A 194 4.32e+01 d.122.1.2 98329 1s6yA 450 4.32e+01 c.2.1.5,d.162.1.2 105314,105315 2fa1A 160 4.33e+01 1yrtA 364 4.36e+01 1eo9B 241 4.36e+01 3pchM b.3.6.1 22826 2ffsA 157 4.39e+01 1u9jA 358 4.44e+01 1jfuA 186 4.45e+01 c.47.1.10 62940 1nepA 130 4.50e+01 b.1.18.7 80440 1go2A 304 4.58e+01 b.43.4.2,c.25.1.1 76243,76244 1kl9A 182 4.59e+01 b.40.4.5 72681 1k32A 1045 4.60e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1diiC 80 4.62e+01 1diiC a.3.1.1 15925 2gujA 155 4.67e+01 1tk1A 260 4.73e+01 d.248.1.1 107066 2bsaA 303 4.74e+01 1guzA 310 4.85e+01 c.2.1.5,d.162.1.1 65586,65587 1vj1A 363 4.86e+01 b.35.1.2,c.2.1.1 100794,100795 1x8qA 184 4.88e+01 1s9aA 257 4.89e+01 b.3.6.1 105379 1rlhA 173 4.91e+01 d.256.1.1 97646 1gycA 499 4.92e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 2bv5A 282 4.99e+01 1ryiA 382 5.01e+01 1oxdA 227 5.02e+01 d.22.1.1 93687 2giyA 191 5.06e+01 1g7fA 298 5.07e+01 1pty c.45.1.2 60330 1ynpA 317 5.08e+01 1vzyA 291 5.08e+01 1h8eA 510 5.12e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1uocA 289 5.12e+01 c.55.3.9 99686 1p2hA 571 5.14e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1rreA 200 5.19e+01 d.14.1.10 97791 1zxiB 809 5.19e+01 2dddA 225 5.19e+01 1vg0A 650 5.28e+01 c.3.1.3,d.16.1.6 108596,108597 1zz1A 369 5.29e+01 2c5qA 240 5.51e+01 1an9A 340 5.54e+01 1an9A c.4.1.2,d.16.1.3 30617,37904 1v9nA 360 5.54e+01 1aisA 182 5.67e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1ut1A 148 5.80e+01 b.2.3.6 108014 1yx1A 264 5.84e+01 1gadO 330 5.85e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 2bijA 305 5.86e+01 2eveA 157 5.97e+01 1tedA 393 5.98e+01 c.95.1.2 106807 1txnA 328 6.00e+01 1f9yA 158 6.01e+01 d.58.30.1 83249 1ema 236 6.03e+01 1ema d.22.1.1 38339 1v3vA 333 6.04e+01 b.35.1.2,c.2.1.1 108345,108346 1bueA 265 6.05e+01 1btl e.3.1.1 42727 2absA 383 6.09e+01 1ospO 257 6.13e+01 1ospO b.76.1.1 27971 1viuA 203 6.15e+01 d.113.1.1 100771 1nxmA 197 6.18e+01 b.82.1.1 86385 1h4vB 421 6.24e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1w1kA 560 6.27e+01 d.58.32.1,d.145.1.1 109059,109060 1tzjA 338 6.27e+01 1e25A 282 6.31e+01 1e25A e.3.1.1 42731 1kgdA 180 6.34e+01 c.37.1.1 68582 1ckmA 330 6.41e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1u5dA 108 6.44e+01 1jv4A 162 6.44e+01 b.60.1.1 67343 1esl 162 6.47e+01 1esl d.169.1.1,g.3.11.1 42353,44225 1gz8A 299 6.48e+01 d.144.1.7 83405 2a73B 991 6.48e+01 1jf9A 408 6.49e+01 1c0nA c.67.1.3 62931 1s7hA 200 6.53e+01 d.58.48.2 105349 1xuvA 178 6.59e+01 1zupA 315 6.72e+01 1fcdA 401 6.74e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1a02N 301 6.75e+01 1a02N b.1.18.1,b.2.5.3 21923,22440 1g60A 260 6.78e+01 c.66.1.11 70151 1qy1A 174 6.82e+01 b.60.1.1 96568 2bkkA 264 6.85e+01 1a1x 108 6.91e+01 1a1x b.63.1.1 27514 1r31A 428 7.01e+01 d.58.20.1,d.179.1.1 96897,96898 1iu8A 206 7.01e+01 c.56.4.1 71436 1yoxA 250 7.08e+01 1sgwA 214 7.12e+01 c.37.1.12 105541 2beiA 170 7.21e+01 1vc3B 97 7.22e+01 1k20A 310 7.22e+01 c.107.1.1 68027 1i39A 225 7.29e+01 1ekeA c.55.3.1 61585 1e39A 571 7.32e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1gtdA 85 7.35e+01 d.284.1.1 76344 1mup 166 7.36e+01 1mup b.60.1.1 27133 1quqB 121 7.41e+01 1quqB b.40.4.3 25305 1ryp1 222 7.42e+01 1ryp1 1k8tA 510 7.49e+01 e.41.1.1 68316 1shxA 138 7.52e+01 1a78A 134 7.52e+01 1c1lA b.29.1.3 24212 1k66A 149 7.56e+01 c.23.1.1 90941 1pqnA 127 7.60e+01 c.47.1.8 95025 1y5iB 512 7.62e+01 2ajgA 196 7.62e+01 1p0yA 444 7.68e+01 a.166.1.1,b.85.7.3 87654,87655 2gefA 217 7.68e+01 1q16B 512 7.70e+01 d.58.1.5 95548 1qbkB 890 7.74e+01 1qbkB a.118.1.1 19127 1cixA 44 7.75e+01 g.3.6.2 70066 1uy4A 145 7.76e+01 b.18.1.10 108131 1f2dA 341 7.78e+01 1f2dA c.79.1.1 35298 1eg9A 449 7.78e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1mg7A 417 7.80e+01 d.14.1.6,d.58.26.6 84954,84955 1y0pA 571 7.81e+01 2b8wA 328 7.82e+01 1tc5A 194 7.87e+01 c.110.1.1 106752 1yy6A 155 7.89e+01 2fojA 155 7.89e+01 1xnb 185 7.90e+01 1axkA b.29.1.11 24308 1a2zA 220 7.95e+01 1a2zA c.56.4.1 33794 1n3oA 252 8.01e+01 b.29.1.1 79967 1q9iA 571 8.03e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1o7nA 449 8.06e+01 b.33.1.2,d.129.3.3 81162,81163 1lvk 762 8.09e+01 1lvk b.34.3.1,c.37.1.9 24576,32173 2f96A 224 8.09e+01 1zndA 174 8.13e+01 2c0zA 216 8.17e+01 2basA 431 8.23e+01 1a7s 221 8.25e+01 1a7s b.47.1.2 26284 1l1lA 739 8.27e+01 c.7.1.4 73470 1y07A 128 8.27e+01 1rpa 342 8.28e+01 1cviA c.60.1.2 33983 1x71A 178 8.29e+01 1chmA 401 8.32e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 3psg 370 8.33e+01 1smrA b.50.1.2 26841 1em2A 229 8.36e+01 1em2A d.129.3.2 41321 1m3yA 413 8.36e+01 b.121.2.3,b.121.2.3 78579,78580 1ei9A 279 8.37e+01 1ei9A c.69.1.13 34713 1g1tA 157 8.40e+01 d.169.1.1,g.3.11.1 65104,65105 1v0jA 399 8.45e+01 1i05A 180 8.46e+01 1mup b.60.1.1 27130 1qfhA 212 8.48e+01 1qfhA b.1.18.10,b.1.18.10 21893,21894 1p6oA 161 8.51e+01 c.97.1.2 94185 1vjhA 122 8.56e+01 d.129.3.1 100811 1wi1A 126 8.58e+01 1px5A 349 8.58e+01 a.160.1.2,d.218.1.6 95277,95278 1uc2A 481 8.59e+01 d.261.1.1 99161 2c6yA 111 8.61e+01 1yb3A 175 8.61e+01 1s1eA 224 8.65e+01 1x9mA 698 8.65e+01 1pa1A 310 8.68e+01 c.45.1.2 94404 1oi2A 366 8.71e+01 c.119.1.2 103802 1i06A 180 8.72e+01 1mup b.60.1.1 27131 3seb 238 8.82e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1pp7U 131 8.83e+01 a.4.5.44 94973 1jihA 531 8.88e+01 d.240.1.1,e.8.1.7 90374,90375 2f1wA 158 8.94e+01 1q7zA 566 8.96e+01 c.1.21.2,c.1.26.1 96090,96091 1xffA 240 8.99e+01 d.153.1.1 109580