# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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 2fhpA 187 2.28e-01 2c1vA 338 7.34e-01 1ax4A 467 1.38e+00 1ax4A c.67.1.2 34391 1i74A 309 1.48e+00 1i74A c.107.1.1 61867 2b81A 323 1.62e+00 1sq5A 308 2.20e+00 c.37.1.6 105882 2ggcA 263 2.48e+00 1c24A 263 2.62e+00 1c24A d.127.1.1 41148 1xnzA 264 2.63e+00 2aucA 126 2.95e+00 2b0cA 206 2.96e+00 1oa8A 133 3.46e+00 b.145.1.1 92698 1zin 217 3.66e+00 1zin c.37.1.1,g.41.2.1 31915,45178 1t3qA 168 4.02e+00 a.56.1.1,d.15.4.2 106367,106368 1rec 201 4.25e+00 1rec a.39.1.5 17326 1zip 217 4.52e+00 1zin c.37.1.1,g.41.2.1 31916,45179 2esrA 177 4.73e+00 2eu8A 216 5.34e+00 2cvzA 289 5.99e+00 1uufA 369 6.12e+00 b.35.1.2,c.2.1.1 100006,100007 1xt8A 292 6.33e+00 1pbe 394 6.37e+00 1pbe c.3.1.2,d.16.1.2 30338,37869 2gzaA 361 6.49e+00 1vlrA 350 6.70e+00 d.13.1.3,d.246.1.1 108860,108861 1omrA 201 6.73e+00 a.39.1.5 93349 1esmA 316 6.87e+00 1esmA c.37.1.6 31953 1a8s 273 7.57e+00 1brt c.69.1.12 34710 1w7jB 151 7.82e+00 1jsxA 207 8.29e+00 c.66.1.20 71846 1zcjA 463 8.46e+00 1ykjA 394 8.62e+00 2d2mD 145 8.78e+00 1p3jA 217 9.79e+00 c.37.1.1,g.41.2.1 94022,94023 1wdjA 187 1.01e+01 1kk8B 139 1.03e+01 a.39.1.5 77430 1ah7 245 1.03e+01 1ah7 a.124.1.1 19339 1jftA 340 1.08e+01 a.35.1.5,c.93.1.1 66652,66653 1gpl 432 1.16e+01 1gpl b.12.1.2,c.69.1.19 23645,34793 1fs5A 266 1.23e+01 c.124.1.1 65044 1k0iA 394 1.24e+01 c.3.1.2,d.16.1.2 67942,67943 1wdpA 495 1.28e+01 1pufB 73 1.28e+01 a.4.1.1 95132 1q6cA 495 1.29e+01 c.1.8.1 95970 1byb 495 1.32e+01 1byb c.1.8.1 28790 2a7oA 112 1.33e+01 1k20A 310 1.34e+01 c.107.1.1 68027 1ipaA 274 1.45e+01 c.116.1.1,d.79.3.3 71254,71255 1bg6 359 1.46e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1dbqA 289 1.49e+01 1qpzA c.93.1.1 35666 1pzrA 60 1.49e+01 a.38.2.1 95468 2ca6A 386 1.52e+01 1m1cA 680 1.53e+01 e.42.1.1 78395 1elwA 118 1.57e+01 1a17 a.118.8.1 19207 1yrgA 385 1.57e+01 1yrgA c.10.1.2 30854 1ng6A 148 1.57e+01 a.182.1.1 85670 1aky 221 1.61e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1j09A 468 1.61e+01 a.97.1.1,c.26.1.1 77025,77026 1rfzA 168 1.68e+01 a.195.1.1 97411 1od8A 313 1.69e+01 c.1.8.3 86838 1qe3A 489 1.78e+01 2bce c.69.1.1 34630 1eqfA 280 1.83e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1gu2A 124 1.88e+01 a.3.1.1 76348 1t0qA 498 1.88e+01 a.25.1.2 106220 1jbkA 195 1.91e+01 c.37.1.20 71631 2aaoA 166 1.92e+01 1egaA 301 1.95e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 1v3hA 495 1.98e+01 c.1.8.1 108303 1jgsA 138 1.99e+01 a.4.5.28 66683 1b3uA 588 2.06e+01 1b3uA a.118.1.2 19135 2a5lA 200 2.08e+01 2ak3A 226 2.08e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1th8A 145 2.11e+01 d.122.1.3 106908 1f0yA 302 2.17e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1b72B 87 2.19e+01 1akhA a.4.1.1 16001 1jyrA 96 2.20e+01 d.93.1.1 71969 1ngkA 128 2.24e+01 a.1.1.1 85673 1ghpA 258 2.25e+01 1btl e.3.1.1 60520 1ekeA 230 2.26e+01 1ekeA c.55.3.1 33572 1v54J 59 2.41e+01 f.23.4.1 100331 2occJ 59 2.41e+01 2occJ f.23.4.1 43524 1h4pA 408 2.47e+01 c.1.8.3 90617 1bqbA 301 2.55e+01 1hyt d.92.1.2 58962 1vkpA 383 2.57e+01 d.126.1.6 108686 1ei9A 279 2.58e+01 1ei9A c.69.1.13 34713 2gwhA 298 2.58e+01 1pueE 89 2.59e+01 1awcA a.4.5.21 16165 2f31A 233 2.61e+01 2azeA 155 2.61e+01 1furA 467 2.64e+01 1furA a.127.1.1 19403 1mw9X 592 2.65e+01 e.10.1.1 91480 1zfpE 98 2.68e+01 1griA d.93.1.1 40465 1kktA 511 2.70e+01 a.102.2.1 68687 1m45A 148 2.71e+01 a.39.1.5 78598 2shpA 525 2.72e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 4tmkA 213 2.74e+01 5tmpA c.37.1.1 31930 2d2eA 250 2.77e+01 1tdzA 272 2.78e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1mwqA 101 2.81e+01 d.58.4.7 91481 2aobA 99 2.81e+01 1kjvA 284 2.84e+01 b.1.1.2,d.19.1.1 77421,77422 1wf3A 301 2.84e+01 1hw6A 278 2.84e+01 1frb c.1.7.1 61296 1e0wA 313 2.86e+01 1taxA c.1.8.3 59150 1qf5A 431 2.89e+01 1adeA c.37.1.10 32212 1wdcB 156 2.92e+01 1wdcB a.39.1.5 17302 1njhA 119 2.94e+01 b.128.1.1 85787 1mtyB 384 2.96e+01 1mtyB a.25.1.2 16740 1a0rP 245 2.96e+01 1b9yC c.47.1.6 33054 1v0lA 313 2.97e+01 c.1.8.3 108207 1z2cB 383 2.98e+01 1i39A 225 2.99e+01 1ekeA c.55.3.1 61585 1xknA 355 3.01e+01 1byi 224 3.03e+01 1byi c.37.1.10 32199 1lk2A 274 3.07e+01 b.1.1.2,d.19.1.1 91056,91057 1e2uA 553 3.07e+01 1e1dA e.26.1.1 43362 1gntA 553 3.07e+01 e.26.1.1 70290 1fzoA 274 3.08e+01 1agdA b.1.1.2,d.19.1.1 60155,60156 1m98A 317 3.10e+01 a.175.1.1,d.17.4.6 78866,78867 1hl9A 449 3.13e+01 b.71.1.3,c.1.8.11 90650,90651 1uouA 474 3.15e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 2a0jA 149 3.19e+01 2aumA 317 3.22e+01 1z3eB 73 3.23e+01 1f5mA 180 3.29e+01 1f5mB d.110.2.1 40895 16vpA 366 3.41e+01 16vpA d.180.1.1 42601 2bl0B 145 3.45e+01 1gcuA 295 3.45e+01 1gcuA c.2.1.3,d.81.1.4 30063,39978 1lc0A 294 3.49e+01 c.2.1.3,d.81.1.4 73823,73824 1pmi 440 3.56e+01 1pmi b.82.1.3 28114 1bu8A 452 3.72e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1f8fA 371 3.73e+01 b.35.1.2,c.2.1.1 83246,83247 2bx6A 350 3.77e+01 1rh5A 436 3.86e+01 f.41.1.1 97464 1v2zA 111 3.89e+01 a.186.1.1 108300 3lynA 136 3.95e+01 1lis a.19.1.1 16413 1v5xA 203 3.97e+01 c.1.2.4 100377 1hcuA 503 4.02e+01 a.102.2.1 65796 1zq1A 438 4.08e+01 1ed8A 449 4.11e+01 1b8jA c.76.1.1 34988 1pjjA 271 4.13e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1o69A 394 4.14e+01 c.67.1.4 92560 1bgc 174 4.17e+01 1bgc a.26.1.1 16822 2napA 723 4.19e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1gln 468 4.20e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1vk3A 615 4.22e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1rcuA 195 4.24e+01 c.129.1.1 97295 1nnjA 271 4.24e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 2b3oA 532 4.30e+01 2b10B 108 4.30e+01 1sgwA 214 4.34e+01 c.37.1.12 105541 1uocA 289 4.41e+01 c.55.3.9 99686 1y6vA 449 4.52e+01 1zd8A 227 4.52e+01 2c3nA 247 4.56e+01 1e1hB 174 4.57e+01 1v6zA 228 4.69e+01 1p7tA 731 4.72e+01 c.1.13.1 94319 1yruB 74 4.73e+01 1xlyA 234 4.84e+01 1ug3A 339 4.85e+01 1r9lA 309 4.91e+01 c.94.1.1 97262 1r6uA 437 4.96e+01 c.26.1.1 97163 2bidA 197 5.00e+01 2bidA f.1.4.1 43398 1khdA 345 5.09e+01 a.46.2.1,c.27.1.1 77400,77401 1d8cA 723 5.14e+01 1d8cA c.1.13.1 29325 1uhnA 189 5.14e+01 a.39.1.5 99399 1wmuA 141 5.19e+01 a.1.1.2 109416 1xn9A 101 5.21e+01 1zb1A 392 5.21e+01 1odoA 408 5.22e+01 a.104.1.1 92783 2g3bA 208 5.24e+01 1viaA 175 5.32e+01 c.37.1.2 100754 1eca 136 5.32e+01 1flp a.1.1.2 15209 2d2mC 147 5.42e+01 1ip9A 85 5.49e+01 1ip9A d.15.2.2 62638 1pp0A 199 5.52e+01 d.103.1.1 104211 2f8mA 244 5.59e+01 1n1jA 93 5.60e+01 a.22.1.3 79813 2fueA 262 5.62e+01 1ss4A 153 5.71e+01 d.32.1.6 105976 1dk8A 147 5.73e+01 1agrE a.91.1.1 18548 1vhnA 318 5.80e+01 c.1.4.1 100693 1i7qB 193 5.85e+01 1qdlB c.23.16.1 61902 1eijA 80 5.86e+01 1eijA a.5.6.1 16298 2bkxA 242 5.91e+01 1pq9A 253 5.91e+01 a.123.1.1 95004 1p4cA 380 5.95e+01 c.1.4.1 94100 1vydA 116 5.97e+01 a.3.1.1 108900 1ci4A 89 6.00e+01 1qckA a.60.5.1 17970 1vzyA 291 6.01e+01 1xx1A 285 6.05e+01 1e7lA 157 6.10e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 2fpqA 444 6.13e+01 1ccwB 483 6.18e+01 1cb7B c.1.19.2 29646 2aaxA 275 6.20e+01 1oz9A 150 6.28e+01 d.92.1.15 93808 1dw0A 112 6.38e+01 1dw0A a.3.1.1 15911 1xhfA 123 6.38e+01 1gk7A 39 6.40e+01 h.1.20.1 70212 1bxkA 355 6.42e+01 1bxkA c.2.1.2 29803 1yy7A 213 6.43e+01 1r5iD 216 6.44e+01 a.202.1.1 97091 1orjA 130 6.50e+01 a.24.19.1 93456 1fpzA 212 6.51e+01 1fpzA c.45.1.1 59976 2g76A 335 6.56e+01 1wi0A 113 6.60e+01 1nq6A 302 6.64e+01 c.1.8.3 92046 1wrjA 156 6.66e+01 2b2aA 199 6.79e+01 2f05A 105 6.82e+01 1svdA 473 6.84e+01 1ld8A 382 6.85e+01 a.118.6.1 73838 2bi7A 384 6.86e+01 1iwhB 146 6.91e+01 a.1.1.2 76883 1miuA 738 6.99e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 1nw1A 429 7.09e+01 d.144.1.8 86286 2gakA 391 7.13e+01 1xwoA 465 7.23e+01 2genA 197 7.23e+01 2d5xB 146 7.37e+01 2b0jA 358 7.48e+01 1jli 112 7.56e+01 1jli a.26.1.2 16884 1vf6A 83 7.76e+01 a.194.1.1 100600 1xwyA 264 7.82e+01 1wfdA 93 7.84e+01 2fh7A 595 7.88e+01 1i7dA 659 7.95e+01 1d6mA e.10.1.1 61886 1sczA 233 7.97e+01 c.43.1.1 98802 1e17A 150 8.12e+01 2hfh a.4.5.14 16143 1uxy 340 8.13e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1v8dA 235 8.19e+01 c.140.1.1 108425 6paxA 133 8.24e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1kb9F 74 8.26e+01 f.28.1.1 77321 2csbA 519 8.27e+01 1iqqA 200 8.37e+01 d.124.1.1 66274 1pprM 312 8.37e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1k1eA 180 8.39e+01 c.108.1.5 67995 1ezvH 74 8.47e+01 1be3H f.28.1.1 59552 1qycA 308 8.48e+01 c.2.1.2 96581 1yoeA 322 8.55e+01 1top 162 8.55e+01 1ncx a.39.1.5 17223 1p4kA 295 8.71e+01 d.153.1.5 87772 9gafA 295 8.74e+01 1apyA d.153.1.5 42008 2co5A 99 8.77e+01 1wlmA 151 8.79e+01 1bo4A 168 8.83e+01 1bo4A d.108.1.1 40798 1rqtA 37 8.90e+01 a.108.1.1 97771 2f4mA 295 8.92e+01