# 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 1dnlA 199 6.42e-18 1ci0A b.45.1.1 25753 1g79A 218 9.68e-18 1ci0A b.45.1.1 25752 1nrgA 261 5.71e-16 b.45.1.1 80694 1t9mA 214 1.41e-15 1ty9A 222 3.22e-15 2fhqA 141 1.33e-13 1rfeA 162 2.88e-13 1vl7A 157 5.74e-11 b.45.1.1 108732 2asfA 137 1.58e-10 2fg9A 178 2.24e-10 2arzA 247 3.64e-10 2aq6A 147 1.25e-09 1w9aA 147 2.27e-09 1xxoA 147 2.63e-09 2furA 209 1.21e-07 1flmA 122 3.47e-06 1axj b.45.1.1 25747 1xhnA 184 7.59e-06 1w3oA 216 1.24e-05 1ejeA 192 1.20e-02 1ejeA b.45.1.2 25757 1pvtA 238 6.13e-01 c.74.1.1 95189 1uirA 314 1.41e+00 c.66.1.17 99429 1wsrA 375 1.58e+00 1igwA 434 1.98e+00 c.1.12.7 62370 1knqA 175 2.59e+00 c.37.1.17 72786 2bgiA 272 2.95e+00 1iwmA 186 3.49e+00 b.125.1.2 83758 2d37A 176 3.73e+00 1tqnA 486 3.85e+00 a.104.1.1 107238 1ukuA 102 4.65e+00 d.58.5.2 99533 1eur 365 7.55e+00 1eut b.68.1.1 27607 1pg4A 652 7.80e+00 e.23.1.1 88067 1ukgA 252 9.05e+00 b.29.1.1 99489 1lrzA 426 9.08e+00 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 2bjhA 260 9.23e+00 1s3rA 535 9.39e+00 1ko3A 230 9.90e+00 d.157.1.1 90974 1b16A 254 1.04e+01 1b16A c.2.1.2 29875 1i0rA 169 1.05e+01 1i0rA b.45.1.2 61489 1i0sA 169 1.05e+01 1i0rA b.45.1.2 61491 1sbyA 254 1.05e+01 1c8uA 285 1.07e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1q6uA 245 1.09e+01 d.26.1.1 95998 1q6hA 224 1.10e+01 d.26.1.1 95975 1iejA 332 1.18e+01 1nnt c.94.1.2 62328 1rlmB 271 1.25e+01 1k8kD 300 1.31e+01 d.198.2.1,d.198.2.1 68309,68310 1obpA 159 1.32e+01 1obpA b.60.1.1 27092 1rlmA 271 1.34e+01 1vpkA 378 1.38e+01 1e8cA 498 1.39e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 2c1lA 358 1.62e+01 2fp8A 322 1.67e+01 1twfK 120 1.69e+01 1m6yA 301 1.71e+01 a.60.13.1,c.66.1.23 78716,78717 1rloA 271 1.71e+01 1b8aA 438 1.75e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1cjxA 357 1.77e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1a8d 452 1.77e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1w8oA 601 1.78e+01 2bkqA 212 1.79e+01 1qyaA 307 1.85e+01 d.21.1.2,d.21.1.2 104653,104654 1sxgA 280 1.88e+01 1ecfA 504 1.94e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1jkgA 140 1.97e+01 d.17.4.2 66795 1dpgA 485 1.98e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1q8iA 783 1.98e+01 c.55.3.5,e.8.1.1 96208,96209 1zzkA 82 2.00e+01 1e6pA 499 2.07e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 1goiA 499 2.08e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1i50K 120 2.08e+01 d.74.3.2 61765 1rkiA 102 2.14e+01 1wbiA 129 2.15e+01 1f2aA 215 2.18e+01 1cs8A d.3.1.1 37040 1b7yA 350 2.19e+01 1pysA d.104.1.1 40776 1me4A 215 2.21e+01 d.3.1.1 79023 1ujqA 305 2.25e+01 c.1.12.7 99463 1fsgA 233 2.28e+01 1qk3A c.61.1.1 34029 1cruA 454 2.29e+01 1c9uA b.68.2.1 27617 1xbfA 140 2.36e+01 d.273.1.1 109538 1j9lA 247 2.39e+01 c.106.1.1 62762 1ww7A 160 2.43e+01 1yp2A 451 2.44e+01 1vm8A 534 2.46e+01 1g291 372 2.47e+01 1g291 1at0 145 2.48e+01 1at0 b.86.1.1 28374 1vlyA 338 2.49e+01 b.44.2.1,d.250.1.1 108871,108872 1ftrA 296 2.50e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1p2hA 571 2.51e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1hgxA 183 2.56e+01 1tc1A c.61.1.1 34027 1pysA 350 2.64e+01 1pysA d.104.1.1 40775 2cw5A 255 2.68e+01 1exqA 154 2.69e+01 1b9dA c.55.3.2 33646 1wcqA 601 2.71e+01 1tzlA 622 2.74e+01 1n3oA 252 2.76e+01 b.29.1.1 79967 1n67A 359 2.80e+01 b.2.3.4,b.2.3.4 85354,85355 1je5A 206 2.81e+01 1je5A b.40.4.7 62909 1e39A 571 2.84e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1vmhA 144 2.86e+01 2bbeA 108 2.86e+01 1llnA 262 2.88e+01 d.165.1.1 84625 1yt3A 375 2.89e+01 1s5jA 847 2.92e+01 1ywxA 102 2.93e+01 1z4rA 168 2.94e+01 1qrrA 394 2.95e+01 1qrrA c.2.1.2 29824 1y08A 323 2.96e+01 1ikpA 613 2.96e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1ylnA 252 3.08e+01 1i31A 314 3.09e+01 1bw8A b.2.7.1 22481 1qd1A 325 3.09e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1i24A 404 3.16e+01 c.2.1.2 83663 1q9iA 571 3.16e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1rjdA 334 3.21e+01 c.66.1.37 97558 2bbsA 290 3.21e+01 1ux6A 350 3.22e+01 b.29.1.16,g.75.1.1 100145,100146 1vi4A 174 3.24e+01 c.8.7.1 100731 1oxxK 353 3.25e+01 b.40.6.3,c.37.1.12 93715,93716 1wnhA 225 3.26e+01 1tt0A 623 3.32e+01 1yzsA 121 3.34e+01 2f5vA 595 3.37e+01 2cu5A 129 3.40e+01 1qlnA 883 3.44e+01 1cezA e.8.1.3 43111 1h2eA 207 3.47e+01 c.60.1.1 70857 1rl6A 177 3.56e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1j5kA 89 3.59e+01 d.51.1.1 71565 1s2wA 295 3.61e+01 c.1.12.7 98407 1jfuA 186 3.62e+01 c.47.1.10 62940 1qa7A 217 3.66e+01 1havA b.47.1.4 26425 1oxsC 353 3.67e+01 b.40.6.3,c.37.1.12 87519,87520 1tkeA 224 3.69e+01 2f15A 96 3.72e+01 1oa4A 222 3.78e+01 b.29.1.11 86731 1vmjA 151 3.78e+01 1lnsA 763 3.90e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1itg 166 3.91e+01 1b9dA c.55.3.2 33661 1o7fA 469 3.93e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1y0pA 571 4.10e+01 1dt9A 437 4.10e+01 1dt9A c.55.4.2,d.79.3.2,d.91.1.1 33738,39815,40257 1qwyA 291 4.16e+01 b.84.3.2 96509 1v4pA 157 4.19e+01 1mc0A 368 4.23e+01 d.110.2.1,d.110.2.1 78937,78938 1wi6A 88 4.26e+01 1i0lA 221 4.28e+01 c.61.1.1 71096 1dbqA 289 4.33e+01 1qpzA c.93.1.1 35666 2camA 127 4.52e+01 1swuA b.61.1.1 27407 2exnA 136 4.53e+01 1n9lA 109 4.57e+01 d.110.3.6 85468 1euhA 475 4.62e+01 1euhA c.82.1.1 35369 1f2tB 148 4.65e+01 1f2tB 1ve0A 134 4.66e+01 1al3 324 4.68e+01 1al3 c.94.1.1 35835 1ryaA 160 4.72e+01 d.113.1.5 105122 1uscA 178 4.75e+01 b.45.1.2 99860 1kssA 571 4.81e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1ni9A 338 4.85e+01 e.7.1.2 85739 1kr4A 125 4.94e+01 d.58.5.2 72889 1tc1A 220 4.97e+01 1tc1A c.61.1.1 34083 1l0qA 391 5.00e+01 b.1.3.1,b.69.2.3 77644,77645 1czfA 362 5.07e+01 1czfA b.80.1.3 28031 2fgtA 417 5.07e+01 2bk7B 222 5.07e+01 2bo9B 222 5.07e+01 2gnoA 305 5.18e+01 1tr8A 102 5.22e+01 1mdbA 539 5.25e+01 e.23.1.1 79008 1e5mA 416 5.28e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1eaf 243 5.28e+01 1eaf c.43.1.1 32617 1o0pA 104 5.30e+01 d.58.7.1 86535 1li4A 432 5.45e+01 c.2.1.4,c.23.12.3 84616,84617 1jc4A 148 5.49e+01 1jc4A d.32.1.4 62863 1ckv 141 5.50e+01 1ckv d.137.1.1 41452 1zvkA 358 5.50e+01 1r9gA 216 5.57e+01 c.23.16.1 97258 2bi7A 384 5.58e+01 1wubA 178 5.59e+01 2gjgA 248 5.60e+01 1rypF 233 5.90e+01 1rypF d.153.1.4 41937 2sak 121 5.93e+01 2sak d.15.5.1 37711 1hm9A 468 6.01e+01 b.81.1.4,c.68.1.5 65866,65867 1kgcE 242 6.07e+01 b.1.1.1,b.1.1.2 77386,77387 1v6tA 255 6.24e+01 1gy8A 397 6.29e+01 c.2.1.2 83376 2cbzA 237 6.30e+01 1v5vA 401 6.34e+01 1rocA 155 6.37e+01 b.1.22.1 97673 1jnyA 435 6.41e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1nrkA 328 6.42e+01 b.44.2.1,d.250.1.1 92089,92090 1mhnA 59 6.50e+01 b.34.9.1 84964 1wxaA 116 6.53e+01 1y89A 238 6.61e+01 1sqgA 429 6.70e+01 a.79.1.3,c.66.1.38 105912,105913 1ri6A 343 6.74e+01 b.69.11.1 97503 1q5xA 161 6.80e+01 c.8.7.1 95947 2dg5B 190 6.85e+01 1cs8A 316 6.91e+01 1cs8A d.3.1.1 37065 2btoA 473 6.96e+01 1pv9A 348 7.01e+01 c.55.2.1,d.127.1.1 95157,95158 1uwcA 261 7.01e+01 c.69.1.17 100101 1r0wA 286 7.06e+01 c.37.1.12 96754 1jv1A 505 7.20e+01 c.68.1.5 71892 2fepA 289 7.20e+01 1wq3A 322 7.25e+01 1e6wA 260 7.26e+01 1e6wA c.2.1.2 59326 1qnaA 200 7.28e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1hyvA 166 7.30e+01 1b9dA c.55.3.2 61424 2bitX 165 7.37e+01 2gbp 309 7.40e+01 1gca c.93.1.1 35657 1tdhA 364 7.43e+01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1z0mA 96 7.49e+01 1efyA 350 7.67e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1wu7A 434 7.70e+01 1m40A 263 7.71e+01 e.3.1.1 74437 1wy2A 351 7.71e+01 1bl3A 160 7.75e+01 1b9dA c.55.3.2 33655 1btl 263 7.89e+01 1btl e.3.1.1 42691 1tuhA 156 7.97e+01 d.17.4.11 107345 1qfoA 119 7.98e+01 1qfoA b.1.1.1 19708 1jofA 365 8.05e+01 b.69.10.1 71775 1agqA 135 8.07e+01 1agqA g.17.1.2 44789 2bswA 146 8.12e+01 1j5yA 187 8.17e+01 a.4.5.1,d.94.2.1 71592,71593 2ffyA 358 8.23e+01 2bf5A 98 8.29e+01 1ewqA 765 8.40e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1jvsA 400 8.48e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 2choA 716 8.49e+01 1zyeA 220 8.51e+01 1q0qA 406 8.54e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1u0tA 307 8.59e+01 e.52.1.1 107567 1ox0A 430 8.61e+01 c.95.1.1,c.95.1.1 87495,87496 1v7oA 165 8.77e+01 d.67.1.2 100480 1nqnA 122 8.79e+01 b.61.1.1 86042 1cqqA 180 8.83e+01 1cqqA b.47.1.4 26422 1f6dA 376 8.85e+01 1f6dA c.87.1.3 35467 1xwfA 431 8.90e+01 1xhlA 297 8.99e+01 c.2.1.2 109591