# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 1dnlA 199 4.14e-21 1ci0A b.45.1.1 25753 1g79A 218 4.19e-21 1ci0A b.45.1.1 25752 1nrgA 261 4.32e-19 b.45.1.1 80694 1t9mA 214 3.39e-18 1ty9A 222 1.52e-17 1rfeA 162 3.47e-16 2fhqA 141 6.26e-16 1vl7A 157 1.94e-13 b.45.1.1 108732 2fg9A 178 4.92e-13 2asfA 137 9.53e-13 2arzA 247 2.79e-12 2aq6A 147 4.92e-12 1xxoA 147 6.80e-12 1w9aA 147 8.75e-12 2furA 209 1.26e-09 1xhnA 184 1.18e-07 1flmA 122 2.13e-07 1axj b.45.1.1 25747 1w3oA 216 3.40e-07 1ejeA 192 1.00e-03 1ejeA b.45.1.2 25757 1pvtA 238 3.12e-01 c.74.1.1 95189 1obpA 159 7.21e-01 1obpA b.60.1.1 27092 1igwA 434 1.22e+00 c.1.12.7 62370 1e6pA 499 1.44e+00 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 1pg4A 652 1.47e+00 e.23.1.1 88067 1ukuA 102 1.57e+00 d.58.5.2 99533 2bgiA 272 1.95e+00 2d37A 176 2.15e+00 1q6uA 245 2.17e+00 d.26.1.1 95998 1iwmA 186 2.46e+00 b.125.1.2 83758 1q6hA 224 2.56e+00 d.26.1.1 95975 1nrkA 328 3.28e+00 b.44.2.1,d.250.1.1 92089,92090 1mdbA 539 3.50e+00 e.23.1.1 79008 1uirA 314 3.51e+00 c.66.1.17 99429 1wsrA 375 3.56e+00 1s3rA 535 3.64e+00 1ftrA 296 3.68e+00 1ftrA d.58.33.1,d.58.33.1 39485,39486 1goiA 499 3.72e+00 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1q8iA 783 3.73e+00 c.55.3.5,e.8.1.1 96208,96209 1k8kD 300 4.12e+00 d.198.2.1,d.198.2.1 68309,68310 1iejA 332 5.07e+00 1nnt c.94.1.2 62328 1c8uA 285 5.15e+00 1c8uA d.38.1.3,d.38.1.3 38547,38548 2cw5A 255 5.32e+00 1i0rA 169 5.72e+00 1i0rA b.45.1.2 61489 1i0sA 169 5.72e+00 1i0rA b.45.1.2 61491 2bkqA 212 5.90e+00 1y08A 323 5.93e+00 1qd1A 325 6.16e+00 1qd1A d.58.34.1,d.58.34.1 39493,39494 1eur 365 6.23e+00 1eut b.68.1.1 27607 1b7yA 350 6.28e+00 1pysA d.104.1.1 40776 1vmfA 145 6.36e+00 1tzlA 622 6.68e+00 1ko3A 230 6.68e+00 d.157.1.1 90974 1sqgA 429 6.84e+00 a.79.1.3,c.66.1.38 105912,105913 1oxsC 353 6.97e+00 b.40.6.3,c.37.1.12 87519,87520 2c78A 405 7.15e+00 1pysA 350 7.27e+00 1pysA d.104.1.1 40775 1exqA 154 7.34e+00 1b9dA c.55.3.2 33646 1f2aA 215 7.56e+00 1cs8A d.3.1.1 37040 1oxxK 353 7.67e+00 b.40.6.3,c.37.1.12 93715,93716 1me4A 215 7.76e+00 d.3.1.1 79023 1b16A 254 7.84e+00 1b16A c.2.1.2 29875 1ha3A 405 8.03e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1ujqA 305 8.19e+00 c.1.12.7 99463 1w8oA 601 8.26e+00 1zzkA 82 8.68e+00 1wubA 178 8.84e+00 1wcqA 601 8.85e+00 1sbyA 254 8.87e+00 1itg 166 8.91e+00 1b9dA c.55.3.2 33661 1l0qA 391 8.98e+00 b.1.3.1,b.69.2.3 77644,77645 1e6wA 260 9.01e+00 1e6wA c.2.1.2 59326 1tt0A 623 9.09e+00 1j5kA 89 9.11e+00 d.51.1.1 71565 2bkrA 212 9.16e+00 2d13A 227 9.16e+00 1rkiA 102 9.31e+00 2c1lA 358 9.63e+00 1tqnA 486 9.81e+00 a.104.1.1 107238 2f5vA 595 1.02e+01 1yp2A 451 1.06e+01 1rypF 233 1.07e+01 1rypF d.153.1.4 41937 1at0 145 1.07e+01 1at0 b.86.1.1 28374 1vlyA 338 1.09e+01 b.44.2.1,d.250.1.1 108871,108872 1g291 372 1.09e+01 1g291 1tkeA 224 1.14e+01 1oa4A 222 1.14e+01 b.29.1.11 86731 1vmjA 151 1.15e+01 1ihuA 589 1.15e+01 c.37.1.10,c.37.1.10 62394,62395 1ww7A 160 1.16e+01 1xbfA 140 1.16e+01 d.273.1.1 109538 2c26A 260 1.18e+01 1jdpA 441 1.18e+01 c.93.1.1 62906 1knqA 175 1.21e+01 c.37.1.17 72786 1vmhA 144 1.22e+01 2fp8A 322 1.22e+01 1tc1A 220 1.23e+01 1tc1A c.61.1.1 34083 1uscA 178 1.26e+01 b.45.1.2 99860 1kr4A 125 1.32e+01 d.58.5.2 72889 1dpgA 485 1.35e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1xt9A 212 1.36e+01 1s2wA 295 1.36e+01 c.1.12.7 98407 1exmA 405 1.39e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1z4vA 532 1.46e+01 1dbqA 289 1.54e+01 1qpzA c.93.1.1 35666 2bbsA 290 1.59e+01 1z4xA 532 1.66e+01 1jnyA 435 1.66e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1r9gA 216 1.66e+01 c.23.16.1 97258 1qrrA 394 1.67e+01 1qrrA c.2.1.2 29824 1vpjA 192 1.68e+01 1hyvA 166 1.69e+01 1b9dA c.55.3.2 61424 2bk7B 222 1.71e+01 2bo9B 222 1.71e+01 1cruA 454 1.71e+01 1c9uA b.68.2.1 27617 1kv9A 668 1.72e+01 a.3.1.6,b.70.1.1 73056,73057 1vkbA 161 1.78e+01 d.269.1.1 108643 1h0hA 977 1.80e+01 b.52.2.2,c.81.1.1 76435,76436 1i24A 404 1.83e+01 c.2.1.2 83663 1hgxA 183 1.89e+01 1tc1A c.61.1.1 34027 1h6tA 291 1.97e+01 b.1.18.15,c.10.2.1 65686,65687 1gt1A 159 1.99e+01 b.60.1.1 90515 1hn2A 159 2.00e+01 b.60.1.1 65890 2c4xA 260 2.00e+01 2sak 121 2.02e+01 2sak d.15.5.1 37711 1o7fA 469 2.03e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1vclA 432 2.06e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1je5A 206 2.19e+01 1je5A b.40.4.7 62909 1e8cA 498 2.19e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1fsz 372 2.25e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1nrwA 288 2.27e+01 c.108.1.10 86128 1h4vB 421 2.33e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1wbiA 129 2.33e+01 1bl3A 160 2.35e+01 1b9dA c.55.3.2 33655 2axoA 270 2.35e+01 2rslA 140 2.42e+01 2rslA c.53.1.1 33345 1ylnA 252 2.42e+01 1lrzA 426 2.43e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1ve0A 134 2.43e+01 1wnhA 225 2.46e+01 1ywsA 82 2.52e+01 2gjgA 248 2.54e+01 1agjA 242 2.57e+01 1agjA b.47.1.1 25827 1lci 550 2.58e+01 1lci e.23.1.1 43349 1vggA 161 2.58e+01 1r0wA 286 2.65e+01 c.37.1.12 96754 2bvfA 459 2.65e+01 2bi7A 384 2.67e+01 1l1qA 186 2.67e+01 c.61.1.1 77653 1jofA 365 2.67e+01 b.69.10.1 71775 1v4pA 157 2.70e+01 1mhnA 59 2.72e+01 b.34.9.1 84964 1yt3A 375 2.74e+01 1m40A 263 2.76e+01 e.3.1.1 74437 1c7qA 445 2.87e+01 2pgi c.80.1.2 35307 1n3oA 252 2.96e+01 b.29.1.1 79967 1wi6A 88 2.96e+01 1p1lA 102 2.97e+01 d.58.5.2 87695 1o0pA 104 2.97e+01 d.58.7.1 86535 1v5vA 401 2.98e+01 1ukgA 252 2.99e+01 b.29.1.1 99489 1wq3A 322 3.04e+01 1i50K 120 3.08e+01 d.74.3.2 61765 2gbp 309 3.11e+01 1gca c.93.1.1 35657 1dp4A 435 3.14e+01 1dp4A c.93.1.1 35710 1o4sA 389 3.16e+01 c.67.1.1 86620 1d2eA 397 3.16e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 2ch4A 320 3.18e+01 2cu5A 129 3.19e+01 1v7oA 165 3.30e+01 d.67.1.2 100480 1a8d 452 3.31e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1vajA 214 3.32e+01 1twfK 120 3.32e+01 1ywxA 102 3.38e+01 2bjdA 101 3.43e+01 1e5mA 416 3.44e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1a0i 348 3.44e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1oatA 439 3.47e+01 2dkb c.67.1.4 34461 1wvqA 167 3.47e+01 1p35A 299 3.48e+01 1p35A b.28.1.1 23925 1r3dA 264 3.50e+01 2oatA 439 3.50e+01 2dkb c.67.1.4 34452 1xovA 326 3.50e+01 1wxaA 116 3.52e+01 2bitX 165 3.54e+01 1fsgA 233 3.55e+01 1qk3A c.61.1.1 34029 1e39A 571 3.56e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1jb0D 138 3.59e+01 1jb0D d.187.1.1 62823 1vhsA 175 3.62e+01 d.108.1.1 100698 1w2iA 91 3.66e+01 d.58.10.1 109127 2bc2A 227 3.67e+01 1a7tA d.157.1.1 42031 1tuhA 156 3.82e+01 d.17.4.11 107345 1wexA 104 3.88e+01 1cr5A 189 3.90e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1vqzA 341 3.92e+01 2b4aA 138 3.95e+01 2exnA 136 4.03e+01 1z0mA 96 4.04e+01 1rypK 198 4.07e+01 d.153.1.4 41879 1qlnA 883 4.17e+01 1cezA e.8.1.3 43111 1z0nA 96 4.20e+01 1rxxA 421 4.26e+01 d.126.1.4 98061 2gnoA 305 4.28e+01 1ermA 263 4.30e+01 1btl e.3.1.1 42690 1ewqA 765 4.32e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1ri6A 343 4.32e+01 b.69.11.1 97503 1vmaA 306 4.33e+01 a.24.13.1,c.37.1.10 108887,108888 1btl 263 4.38e+01 1btl e.3.1.1 42691 2bjhA 260 4.41e+01 1hjxA 362 4.41e+01 c.1.8.5,d.26.3.1 83512,83513 1rypL 212 4.43e+01 d.153.1.4 41880 2a9gA 418 4.48e+01 1iqaA 160 4.48e+01 b.22.1.1 71274 1nh8A 304 4.50e+01 c.94.1.1,d.58.5.3 80507,80508 1tvjA 166 4.50e+01 1zvkA 358 4.52e+01 1qwyA 291 4.57e+01 b.84.3.2 96509 1b04A 318 4.63e+01 1b04A d.142.2.2 41579 1h09A 338 4.68e+01 b.109.1.1,c.1.8.8 83420,83421 1qh3A 260 4.69e+01 1qh5A d.157.1.2 42059 1qyaA 307 4.69e+01 d.21.1.2,d.21.1.2 104653,104654 1widA 130 4.73e+01 1lnsA 763 4.73e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1al3 324 4.77e+01 1al3 c.94.1.1 35835 2gibA 103 4.82e+01 1o70A 324 4.85e+01 b.118.1.1,b.118.1.1 81115,81116 1owqA 361 4.88e+01 c.1.8.5,d.26.3.1 104041,104042 1c8bA 371 4.92e+01 1c8bA c.56.1.2 59082 1li4A 432 4.94e+01 c.2.1.4,c.23.12.3 84616,84617 1f0cA 305 4.95e+01 1c8oA e.1.1.1 42676 1b8aA 438 4.99e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1vm8A 534 5.06e+01 2arpA 116 5.07e+01 1vi4A 174 5.18e+01 c.8.7.1 100731 2bswA 146 5.18e+01 1kssA 571 5.20e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1vkkA 154 5.20e+01 d.109.1.2 108669 1xqbA 247 5.25e+01 2byjA 439 5.32e+01 1gvp 87 5.38e+01 1gvp b.40.4.7 25369 1vqb 87 5.38e+01 1gvp b.40.4.7 25370 1udmA 149 5.40e+01 d.109.1.2 107780 1xezA 721 5.47e+01 2a1vA 144 5.52e+01 1nulA 152 5.55e+01 1nulA c.61.1.1 34011 1efyA 350 5.57e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 2bylA 439 5.64e+01 1ox0A 430 5.70e+01 c.95.1.1,c.95.1.1 87495,87496 1yzsA 121 5.71e+01 2bh9A 489 5.77e+01 2gm5A 139 5.80e+01 1mqoA 227 5.83e+01 d.157.1.1 103846 1sy6A 204 5.90e+01 b.1.1.4,b.1.1.4 106111,106112 1qf6A 642 5.90e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 1cs8A 316 5.97e+01 1cs8A d.3.1.1 37065 1jpc 109 5.99e+01 1b2pA b.78.1.1 27986 1qnaA 200 6.02e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1tbd 134 6.04e+01 2tbd d.89.1.1 40240 1ub9A 100 6.04e+01 a.4.5.28 99159 1jkgA 140 6.05e+01 d.17.4.2 66795 1xhlA 297 6.14e+01 c.2.1.2 109591 1jkmB 361 6.14e+01 1jkmA c.69.1.2 34634 2bbeA 108 6.19e+01 1gca 309 6.22e+01 1gca c.93.1.1 35659 1k1xA 659 6.24e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1mc0A 368 6.26e+01 d.110.2.1,d.110.2.1 78937,78938 1y7wA 291 6.26e+01 1gqvA 135 6.27e+01 d.5.1.1 70376 1djxB 624 6.27e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1hi2A 135 6.30e+01 7rsa d.5.1.1 61057 1h2eA 207 6.33e+01 c.60.1.1 70857 1c7sA 858 6.39e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1ryaA 160 6.44e+01 d.113.1.5 105122 1nqeA 594 6.45e+01 f.4.3.3 86027 1jfuA 186 6.48e+01 c.47.1.10 62940 1ycsB 239 6.49e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 2bopA 85 6.51e+01 2bopA d.58.8.1 39217 1h7zA 194 6.51e+01 1qhvA b.21.1.1 60733 1ounA 127 6.52e+01 1ounA d.17.4.2 38090 1jjeA 222 6.52e+01 1a7tA d.157.1.1 63117 1s55A 156 6.52e+01 1rlmA 271 6.57e+01 1gskA 513 6.60e+01 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 1cjxA 357 6.61e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1ukmB 128 6.62e+01 d.169.1.1 99500 1q9iA 571 6.67e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1e2wA 251 6.67e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 7odcA 424 6.69e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 2ci1A 275 6.70e+01 1i0lA 221 6.70e+01 c.61.1.1 71096 1kyqA 274 6.72e+01 c.2.1.11,e.37.1.1 73281,73282 1sxgA 280 6.75e+01 1rz3A 201 6.76e+01 c.37.1.6 98132 1v1aA 309 6.76e+01 c.72.1.1 100249 1v7pB 128 6.80e+01 d.169.1.1 108407 1d4fA 431 6.80e+01 1b3rA c.2.1.4,c.23.12.3 30110,31370 1n9lA 109 6.81e+01 d.110.3.6 85468 1y0pA 571 6.83e+01 1q2lA 939 6.84e+01 1euhA 475 6.86e+01 1euhA c.82.1.1 35369 1j08A 226 6.90e+01 c.47.1.2,c.47.1.2 83855,83856 1p2hA 571 6.91e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 2ftrA 108 6.96e+01 1ixcA 294 6.96e+01 a.4.5.37,c.94.1.1 83764,83765 1gy6A 127 7.00e+01 d.17.4.2 70736 1oo0A 147 7.03e+01 d.232.1.1 87182 1wlgA 299 7.05e+01 1qwrA 319 7.06e+01 b.82.1.3 96491 1q3iA 214 7.14e+01 d.220.1.1 104524 1xw3A 110 7.14e+01 1m9sA 605 7.24e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1adjA 421 7.24e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1j5pA 253 7.26e+01 d.81.1.3,c.2.1.3 71577,83092 1chuA 540 7.35e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1jhfA 202 7.38e+01 a.4.5.2,b.87.1.1 63057,63058 1wy2A 351 7.40e+01 1czfA 362 7.41e+01 1czfA b.80.1.3 28031 1d1gA 168 7.49e+01 1d1gA c.71.1.1 34889 1bo1A 416 7.53e+01 1bo1A d.143.1.2 41591 1d2fA 390 7.57e+01 1d2fA c.67.1.3 34411 1nbfA 353 7.60e+01 d.3.1.9 80387 1ta0A 197 7.61e+01 c.108.1.16 106729 1jjtA 228 7.62e+01 1a7tA d.157.1.1 63139 1whvA 100 7.62e+01 1v1qA 134 7.66e+01 1vbwA 68 7.71e+01 2bgzA 299 7.78e+01 1g5tA 196 7.81e+01 1g5rA c.37.1.11 32366 2f15A 96 7.85e+01 1fnuA 221 7.89e+01 3seb b.40.2.2,d.15.6.1 25212,37801 1sdjA 310 7.93e+01 d.21.1.2,d.21.1.2 98807,98808 1a6q 382 7.93e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 2cblA 305 8.01e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1sczA 233 8.01e+01 c.43.1.1 98802 1q7bA 244 8.04e+01 c.2.1.2 96026 1x88A 359 8.05e+01 1vpkA 378 8.08e+01 1qa7A 217 8.08e+01 1havA b.47.1.4 26425 1djxA 624 8.09e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1s2dA 167 8.14e+01 c.23.14.1 98377 1rlmB 271 8.20e+01 1jc4A 148 8.20e+01 1jc4A d.32.1.4 62863 1y89A 238 8.22e+01 1sqeA 109 8.22e+01 d.58.4.5 105908 1bywA 110 8.24e+01 1bywA d.110.3.6 40912 1olmA 403 8.27e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 2gnqA 336 8.28e+01 1egiA 147 8.31e+01 1eggA d.169.1.1 42331 2cviA 83 8.32e+01 1wvhA 134 8.33e+01 1w4sA 174 8.34e+01 1rypE 242 8.35e+01 1rypE d.153.1.4 41936 1zs7A 190 8.36e+01 2cwzA 141 8.37e+01 1y0yA 353 8.42e+01 1z4rA 168 8.47e+01 1wj9A 211 8.47e+01 1mo7A 213 8.48e+01 d.220.1.1 85028 2bklA 695 8.49e+01 1nwaA 203 8.57e+01 d.58.28.1 86295 1i31A 314 8.62e+01 1bw8A b.2.7.1 22481 1eaf 243 8.66e+01 1eaf c.43.1.1 32617 1vpsA 289 8.69e+01 1vpsA b.121.6.1 23336 2a5hA 416 8.80e+01 1vpbA 451 8.86e+01 1tr9A 341 8.87e+01 1o5oA 221 8.88e+01 c.61.1.1 92509 1epuA 591 8.93e+01 1dn1A e.25.1.1 43358 7ahlA 293 8.95e+01 7ahlA f.6.1.1 43812