# 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 1g79A 218 6.97e-17 1ci0A b.45.1.1 25752 1dnlA 199 8.22e-17 1ci0A b.45.1.1 25753 1nrgA 261 5.08e-15 b.45.1.1 80694 1t9mA 214 1.73e-14 1ty9A 222 5.08e-14 1rfeA 162 8.66e-13 2fhqA 141 9.83e-13 1vl7A 157 9.54e-11 b.45.1.1 108732 2fg9A 178 1.02e-10 2asfA 137 5.46e-10 1xxoA 147 1.23e-09 1w9aA 147 1.52e-09 2aq6A 147 1.65e-09 2arzA 247 2.02e-09 2furA 209 1.55e-07 1w3oA 216 2.79e-06 1flmA 122 7.91e-06 1axj b.45.1.1 25747 1xhnA 184 1.25e-05 1ejeA 192 6.58e-03 1ejeA b.45.1.2 25757 1pvtA 238 9.35e-01 c.74.1.1 95189 1pg4A 652 2.30e+00 e.23.1.1 88067 1s2wA 295 4.18e+00 c.1.12.7 98407 1tc1A 220 5.34e+00 1tc1A c.61.1.1 34083 1obpA 159 6.01e+00 1obpA b.60.1.1 27092 1f2aA 215 6.10e+00 1cs8A d.3.1.1 37040 1wsrA 375 6.22e+00 1me4A 215 6.24e+00 d.3.1.1 79023 2bi7A 384 6.30e+00 1sqgA 429 6.40e+00 a.79.1.3,c.66.1.38 105912,105913 1iwmA 186 6.50e+00 b.125.1.2 83758 1c8uA 285 7.40e+00 1c8uA d.38.1.3,d.38.1.3 38547,38548 1ujqA 305 8.01e+00 c.1.12.7 99463 1hgxA 183 8.67e+00 1tc1A c.61.1.1 34027 1q6hA 224 8.89e+00 d.26.1.1 95975 1i0rA 169 8.98e+00 1i0rA b.45.1.2 61489 1i0sA 169 8.98e+00 1i0rA b.45.1.2 61491 1k8kD 300 9.12e+00 d.198.2.1,d.198.2.1 68309,68310 1ukuA 102 9.38e+00 d.58.5.2 99533 2bgiA 272 9.44e+00 2cw5A 255 9.50e+00 1q8iA 783 9.54e+00 c.55.3.5,e.8.1.1 96208,96209 1q6uA 245 9.94e+00 d.26.1.1 95998 1igwA 434 1.10e+01 c.1.12.7 62370 1fsgA 233 1.11e+01 1qk3A c.61.1.1 34029 1twfK 120 1.14e+01 1s3rA 535 1.18e+01 1knqA 175 1.19e+01 c.37.1.17 72786 1b16A 254 1.22e+01 1b16A c.2.1.2 29875 1sbyA 254 1.23e+01 1i50K 120 1.25e+01 d.74.3.2 61765 1iejA 332 1.35e+01 1nnt c.94.1.2 62328 2d13A 227 1.40e+01 1j5kA 89 1.41e+01 d.51.1.1 71565 1z4vA 532 1.42e+01 2fp8A 322 1.45e+01 1z4xA 532 1.50e+01 1i0lA 221 1.61e+01 c.61.1.1 71096 1vmfA 145 1.62e+01 1ne9A 335 1.67e+01 d.108.1.4,d.108.1.4 91839,91840 1vmhA 144 1.75e+01 1dbqA 289 1.77e+01 1qpzA c.93.1.1 35666 1oxsC 353 1.89e+01 b.40.6.3,c.37.1.12 87519,87520 1wy2A 351 1.90e+01 1e6wA 260 1.91e+01 1e6wA c.2.1.2 59326 1e6pA 499 1.98e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 1oxxK 353 2.09e+01 b.40.6.3,c.37.1.12 93715,93716 1ixcA 294 2.11e+01 a.4.5.37,c.94.1.1 83764,83765 1zzkA 82 2.15e+01 1e8cA 498 2.17e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1kr4A 125 2.21e+01 d.58.5.2 72889 1jkmB 361 2.25e+01 1jkmA c.69.1.2 34634 1qyaA 307 2.26e+01 d.21.1.2,d.21.1.2 104653,104654 1ko3A 230 2.28e+01 d.157.1.1 90974 1dp4A 435 2.30e+01 1dp4A c.93.1.1 35710 1uirA 314 2.38e+01 c.66.1.17 99429 1b7yA 350 2.50e+01 1pysA d.104.1.1 40776 2f15A 96 2.59e+01 1goiA 499 2.61e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1ubeA 349 2.72e+01 c.37.1.11,d.48.1.1 88412,88413 1ftrA 296 2.76e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1z0mA 96 2.77e+01 1vmjA 151 2.85e+01 1e5mA 416 2.85e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1z0nA 96 2.89e+01 1exqA 154 2.90e+01 1b9dA c.55.3.2 33646 1o54A 277 2.93e+01 c.66.1.13 92482 1g291 372 2.98e+01 1g291 1qnaA 200 3.04e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 2cu5A 129 3.05e+01 1tqnA 486 3.06e+01 a.104.1.1 107238 1xbfA 140 3.13e+01 d.273.1.1 109538 2gjgA 248 3.15e+01 1nuyA 337 3.18e+01 e.7.1.1 86213 1qrrA 394 3.19e+01 1qrrA c.2.1.2 29824 1l0qA 391 3.20e+01 b.1.3.1,b.69.2.3 77644,77645 1j5pA 253 3.24e+01 d.81.1.3,c.2.1.3 71577,83092 1rypK 198 3.26e+01 d.153.1.4 41879 1jkgA 140 3.31e+01 d.17.4.2 66795 2c1lA 358 3.31e+01 1dpgA 485 3.39e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1eur 365 3.41e+01 1eut b.68.1.1 27607 1itg 166 3.45e+01 1b9dA c.55.3.2 33661 1i24A 404 3.46e+01 c.2.1.2 83663 2d37A 176 3.48e+01 1j9lA 247 3.49e+01 c.106.1.1 62762 1rypE 242 3.58e+01 1rypE d.153.1.4 41936 2pvaA 345 3.61e+01 3pvaA d.153.1.3 41850 1qh3A 260 3.62e+01 1qh5A d.157.1.2 42059 1h6tA 291 3.67e+01 b.1.18.15,c.10.2.1 65686,65687 1r9gA 216 3.70e+01 c.23.16.1 97258 1g5tA 196 3.84e+01 1g5rA c.37.1.11 32366 1gz6A 319 3.86e+01 c.2.1.2 76410 2bk7B 222 3.88e+01 2bo9B 222 3.88e+01 1ywxA 102 3.88e+01 2bbsA 290 3.90e+01 1h7zA 194 3.90e+01 1qhvA b.21.1.1 60733 1sdjA 310 3.90e+01 d.21.1.2,d.21.1.2 98807,98808 1rkiA 102 3.94e+01 1qlnA 883 3.97e+01 1cezA e.8.1.3 43111 1je5A 206 4.02e+01 1je5A b.40.4.7 62909 1nrwA 288 4.03e+01 c.108.1.10 86128 2bkqA 212 4.04e+01 1iy8A 267 4.08e+01 c.2.1.2 83774 1al3 324 4.10e+01 1al3 c.94.1.1 35835 2cveA 191 4.11e+01 1wcqA 601 4.13e+01 1xt9A 212 4.13e+01 1tzlA 622 4.13e+01 2exnA 136 4.17e+01 1vpbA 451 4.18e+01 1euhA 475 4.24e+01 1euhA c.82.1.1 35369 1l1qA 186 4.36e+01 c.61.1.1 77653 1zvkA 358 4.36e+01 1yp2A 451 4.37e+01 1s5jA 847 4.42e+01 1ryaA 160 4.45e+01 d.113.1.5 105122 1yt3A 375 4.48e+01 1pv9A 348 4.50e+01 c.55.2.1,d.127.1.1 95157,95158 1pysA 350 4.52e+01 1pysA d.104.1.1 40775 1rlmA 271 4.56e+01 1w8oA 601 4.57e+01 1ha3A 405 4.73e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1y08A 323 4.78e+01 2bjhA 260 4.79e+01 1ww7A 160 4.87e+01 1ri6A 343 5.10e+01 b.69.11.1 97503 1qh5A 260 5.13e+01 1qh5A d.157.1.2 42057 1q7bA 244 5.17e+01 c.2.1.2 96026 1ewqA 765 5.20e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1n3oA 252 5.21e+01 b.29.1.1 79967 1nnjA 271 5.26e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 2gnoA 305 5.28e+01 1ihuA 589 5.28e+01 c.37.1.10,c.37.1.10 62394,62395 1ukgA 252 5.30e+01 b.29.1.1 99489 1tt0A 623 5.40e+01 1tdzA 272 5.44e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1jnyA 435 5.52e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2axoA 270 5.53e+01 1ylnA 252 5.65e+01 1r0wA 286 5.65e+01 c.37.1.12 96754 2bbeA 108 5.72e+01 1d1gA 168 5.77e+01 1d1gA c.71.1.1 34889 2c78A 405 5.80e+01 1vclA 432 5.91e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1hyvA 166 5.95e+01 1b9dA c.55.3.2 61424 1tkeA 224 6.00e+01 1rlmB 271 6.04e+01 1gy8A 397 6.11e+01 c.2.1.2 83376 1wnhA 225 6.12e+01 1b7yB 785 6.13e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1cr5A 189 6.14e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1oa4A 222 6.15e+01 b.29.1.11 86731 2a5hA 416 6.16e+01 1e39A 571 6.18e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1v4pA 157 6.21e+01 1vpjA 192 6.22e+01 1vm8A 534 6.23e+01 1pjjA 271 6.32e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1ta3A 274 6.38e+01 c.1.8.5 106731 1v7oA 165 6.40e+01 d.67.1.2 100480 2bkrA 212 6.42e+01 1mhnA 59 6.46e+01 b.34.9.1 84964 1ecfA 504 6.46e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1i8aA 189 6.48e+01 1i82A b.1.9.2 61951 2c26A 260 6.48e+01 2c4xA 260 6.48e+01 1xkqA 280 6.53e+01 1prxA 224 6.54e+01 1prxA c.47.1.10 33076 2bswA 146 6.57e+01 1w66A 232 6.63e+01 1widA 130 6.68e+01 1q3iA 214 6.70e+01 d.220.1.1 104524 1jvsA 400 6.71e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 1nrkA 328 6.78e+01 b.44.2.1,d.250.1.1 92089,92090 1ox0A 430 6.79e+01 c.95.1.1,c.95.1.1 87495,87496 1bl3A 160 6.80e+01 1b9dA c.55.3.2 33655 2bf5A 98 6.87e+01 1wq3A 322 6.90e+01 1zbqA 327 6.92e+01 1sxgA 280 6.94e+01 2f5vA 595 6.97e+01 1wi6A 88 7.01e+01 1frpA 335 7.04e+01 1frpA e.7.1.1 42875 1uscA 178 7.10e+01 b.45.1.2 99860 2ajtA 500 7.24e+01 1om0A 274 7.26e+01 c.1.8.5 87058 1h2bA 359 7.29e+01 b.35.1.2,c.2.1.1 90543,90544 1vkbA 161 7.31e+01 d.269.1.1 108643 2ga9D 469 7.39e+01 2ag5A 246 7.41e+01 1q0qA 406 7.45e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1pymA 295 7.46e+01 1pymA c.1.12.7 29308 2gdzA 267 7.56e+01 1mc0A 368 7.56e+01 d.110.2.1,d.110.2.1 78937,78938 1qd1A 325 7.63e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 2df7A 458 7.72e+01 1jfuA 186 7.73e+01 c.47.1.10 62940 2arpA 116 7.76e+01 2c07A 285 7.76e+01 1at0 145 7.81e+01 1at0 b.86.1.1 28374 1lrzA 426 7.85e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1rloA 271 7.90e+01 1jw9B 249 7.96e+01 c.111.1.1 67377 1o7fA 469 7.99e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1qwyA 291 7.99e+01 b.84.3.2 96509 1aisA 182 8.10e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1ojrA 274 8.14e+01 c.74.1.1 93147 1dt9A 437 8.16e+01 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1o0pA 104 8.16e+01 d.58.7.1 86535 1ewkA 490 8.29e+01 1ewkA c.93.1.1 35712 1czfA 362 8.30e+01 1czfA b.80.1.3 28031 1cs8A 316 8.31e+01 1cs8A d.3.1.1 37065 2cwsA 237 8.32e+01 1gt1A 159 8.51e+01 b.60.1.1 90515 1mo7A 213 8.56e+01 d.220.1.1 85028 1rypF 233 8.57e+01 1rypF d.153.1.4 41937 1b8aA 438 8.58e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1hn2A 159 8.60e+01 b.60.1.1 65890 2hgsA 474 8.64e+01 2hgsA c.30.1.4,d.142.1.6 31722,75997 1h2eA 207 8.64e+01 c.60.1.1 70857 1cc1L 498 8.67e+01 1h2rL e.18.1.1 43301 1wubA 178 8.80e+01 2etvA 346 8.84e+01 1p1lA 102 8.88e+01 d.58.5.2 87695 1dgwA 178 8.90e+01 1dgwA b.82.1.2 28090 1gy6A 127 8.94e+01 d.17.4.2 70736 1b25A 619 8.96e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1a0i 348 8.96e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1uwcA 261 8.97e+01 c.69.1.17 100101