# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1rxxA 421 2.14e-04 1jdw 423 6.67e-03 1jdw d.126.1.2 41129 1hv9A 456 1.01e-02 1fwyA b.81.1.4 28060 c.68.1.5 34518 1qjcA 158 1.15e-02 1b6tA c.26.1.3 63328 1fxjA 331 4.90e-02 1fwyA b.81.1.4 28062 c.68.1.5 34520 1s9rA 410 4.95e-02 1h70A 255 1.34e-01 1h70A d.126.1.3 60711 1alo 907 3.24e-01 1alo 1hlrA 907 3.28e-01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1p3dA 475 6.86e-01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1riqA 465 7.33e-01 1ji8A 111 7.62e-01 d.203.1.1 66733 1vhwA 253 8.19e-01 1gdeA 389 8.32e-01 c.67.1.1 60456 1ytw 306 9.46e-01 1ytw c.45.1.2 32689 1dpgA 485 1.05e+00 1dpgA c.2.1.3 30074 d.81.1.5 39989 1v93A 296 1.28e+00 7a3hA 303 1.30e+00 7a3hA c.1.8.3 28817 1rybA 212 1.31e+00 4bcl 366 1.32e+00 4bcl b.75.1.1 27968 1mzhA 225 1.36e+00 c.1.10.1 79698 1d3gA 367 1.36e+00 1d3gA c.1.4.1 28600 1b6rA 355 1.48e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1nngA 153 1.50e+00 1id0A 152 1.54e+00 d.122.1.3 66111 1lyvA 306 1.59e+00 c.45.1.2 74348 1id1A 153 1.72e+00 1id1A c.2.1.9 62286 1o8bA 219 1.74e+00 c.35.1.2 81180 d.58.40.1 81181 1hdiA 413 1.79e+00 16pk c.86.1.1 60964 1f74A 293 1.94e+00 1nal3 c.1.10.1 29079 1dozA 309 2.33e+00 1ak1 c.92.1.1 35592 1pz1A 333 2.58e+00 1i1qB 192 2.72e+00 1qdlB c.23.16.1 61544 1g61A 228 2.89e+00 1g61A d.126.1.1 41126 1ja1A 622 2.96e+00 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1czaN 917 3.02e+00 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1jubA 311 3.22e+00 1ofuA 320 3.72e+00 c.32.1.1 86972 d.79.2.1 86973 1cl1A 395 3.82e+00 1cl2A c.67.1.3 34395 1iugA 352 4.14e+00 1o1yA 239 4.16e+00 c.23.16.1 86554 16pk 415 4.22e+00 16pk c.86.1.1 35454 1azwA 313 4.43e+00 1qtrA c.69.1.7 34658 1n7hA 381 4.72e+00 c.2.1.2 80250 1q33A 292 4.74e+00 1qwgA 251 4.75e+00 1e19A 314 4.77e+00 1b7bA c.73.1.1 34967 1g6oA 330 4.87e+00 1g6oA c.37.1.11 32430 1msc 129 4.91e+00 1msc d.85.1.1 40039 1f6dA 376 5.00e+00 1f6dA c.87.1.3 35467 1a53 247 5.04e+00 1a53 c.1.2.4 28564 2dorA 311 5.26e+00 2dorA c.1.4.1 28593 1o6zA 303 5.40e+00 c.2.1.5 81107 d.162.1.1 81108 1o5zA 442 5.44e+00 1lnsA 763 5.48e+00 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1dorA 311 5.52e+00 2dorA c.1.4.1 28595 1od6A 160 5.71e+00 c.26.1.3 86836 1iv8A 720 5.76e+00 b.71.1.1 76842 c.1.8.1 76843 1i5gA 144 6.18e+00 1ewxA c.47.1.10 61784 1bs0A 384 6.19e+00 1bs0A c.67.1.4 34490 1qlwA 328 6.44e+00 1qlwA c.69.1.15 34722 1k77A 260 6.50e+00 c.1.15.5 72096 1fbnA 230 6.50e+00 1fbnA c.66.1.3 34181 1mi3A 322 6.70e+00 1st9A 143 6.85e+00 1eg7A 557 6.95e+00 1eg7A c.37.1.10 32241 1heiA 451 7.11e+00 1heiA c.37.1.14 32463 c.37.1.14 32464 1v9jA 113 7.20e+00 1ep3B 262 7.23e+00 1ep2B b.43.4.2 25664 c.25.1.3 31554 1a5t 334 7.30e+00 1a5t a.80.1.1 18450 c.37.1.20 32423 1ad4A 266 7.52e+00 1aj2 c.1.21.1 29670 1igs 248 7.67e+00 1a53 c.1.2.4 28565 1f8fA 371 7.69e+00 b.35.1.2 83246 c.2.1.1 83247 1g8sA 230 7.77e+00 1rf6A 427 8.58e+00 1b1cA 181 8.64e+00 1amoA c.23.5.2 31212 1dqaA 467 8.94e+00 1dqaA d.58.20.1 39364 d.179.1.1 42585 1r3sA 367 9.32e+00 1by2 119 9.37e+00 1by2 d.170.1.1 42452 1nnlA 225 9.71e+00 c.108.1.4 85906 1jbkA 195 9.80e+00 c.37.1.20 71631 1o5kA 306 9.98e+00 1k9sA 237 1.00e+01 c.56.2.1 68359 1muwA 386 1.01e+01 c.1.15.3 79495 2masA 314 1.03e+01 2masA c.70.1.1 34810 1uanA 227 1.04e+01 1vhuA 211 1.04e+01 1vhrA 184 1.04e+01 1vhrA c.45.1.1 32651 1ecpA 238 1.07e+01 1ecpA c.56.2.1 33775 1qk8A 146 1.09e+01 1ewxA c.47.1.10 33061 1e0tA 470 1.09e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 4xis 387 1.14e+01 4xis c.1.15.3 29421 1byqA 228 1.14e+01 1yer d.122.1.1 41100 1ag9A 175 1.15e+01 1rcf c.23.5.1 31178 1ah6 220 1.17e+01 1yer d.122.1.1 41094 1h09A 338 1.18e+01 b.109.1.1 83420 c.1.8.8 83421 1qo0D 196 1.20e+01 1qo0D c.23.1.3 31125 3xis 387 1.21e+01 4xis c.1.15.3 29423 1gg1A 350 1.22e+01 1qr7A c.1.10.4 29187 1ijbA 202 1.24e+01 c.62.1.1 71229 1dd9A 338 1.26e+01 1dd9A e.13.1.1 43254 1ujpA 271 1.32e+01 1n8fA 350 1.34e+01 c.1.10.4 85397 1hrnA 337 1.35e+01 1smrA b.50.1.2 26869 1usgA 346 1.36e+01 1h8dH 260 1.41e+01 5ptp 1hjzA 192 1.45e+01 c.50.1.2 83520 1k4nA 192 1.50e+01 d.32.1.5 72059 1jeyA 609 1.50e+01 1jeqA e.31.1.1 62924 1bzyA 217 1.51e+01 1qk3A c.61.1.1 34071 1o6dA 163 1.54e+01 1of8A 370 1.56e+01 1fzrA 138 1.58e+01 1fzrA c.52.1.17 33336 1m2dA 110 1.58e+01 c.47.1.11 78476 1vp9 322 1.58e+01 3mag c.66.1.25 34210 1vjrA 271 1.63e+01 1nxjA 183 1.64e+01 c.8.7.1 86382 1px5A 349 1.66e+01 1sgt 223 1.67e+01 5ptp b.47.1.1 25814 1fc4A 401 1.68e+01 1bs0A c.67.1.4 59760 1os8A 223 1.69e+01 1kyhA 276 1.70e+01 c.72.1.4 73222 1m0dA 138 1.71e+01 c.52.1.17 74354 7odcA 424 1.77e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1cnv 299 1.77e+01 1cnv c.1.8.5 28989 1i7qB 193 1.77e+01 1qdlB c.23.16.1 61902 1v39 322 1.84e+01 3mag c.66.1.25 34206 1r2rA 248 1.88e+01 1vhxA 150 1.89e+01 1a88A 275 1.92e+01 1brt c.69.1.12 34707 1qgvA 142 1.94e+01 1qgvA c.47.1.8 33056 1vpt 348 1.96e+01 3mag c.66.1.25 34207 1exbA 332 1.97e+01 1qrqA c.1.7.1 28666 1jb7B 260 2.00e+01 1otcB b.40.4.3 62839 1mdoA 393 2.02e+01 c.67.1.4 79013 3mag 307 2.03e+01 3mag c.66.1.25 34205 1uroA 367 2.05e+01 1uroA c.1.22.1 29675 1kbjA 412 2.05e+01 c.1.4.1 72280 2lbp 346 2.07e+01 2liv c.93.1.1 35709 1jndA 420 2.07e+01 c.1.8.5 71757 d.26.3.1 71758 1n2eA 300 2.09e+01 c.26.1.4 85268 1uumA 372 2.11e+01 1gmlA 178 2.13e+01 c.8.5.2 70273 1j7lA 264 2.14e+01 d.144.1.6 62697 1nv8A 284 2.16e+01 c.66.1.30 86224 1pmmA 466 2.17e+01 1vjzA 341 2.18e+01 1hd2A 161 2.23e+01 c.47.1.10 60962 1d6jA 211 2.29e+01 1d6jA c.37.1.4 31940 1dxeA 256 2.29e+01 1dxeA c.1.12.5 29310 1jj2W 91 2.30e+01 1ffkU d.29.1.1 63108 1q7zA 566 2.31e+01 1v4vA 376 2.31e+01 1ad1A 266 2.32e+01 1aj2 c.1.21.1 29668 1o8xA 146 2.33e+01 c.47.1.10 86681 1kte 105 2.33e+01 1kte c.47.1.1 32771 1h1dA 221 2.34e+01 c.66.1.1 83452 1ln1A 214 2.35e+01 d.129.3.2 74038 1gg6C 97 2.35e+01 5ptp 1ctn 540 2.39e+01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1jihA 531 2.44e+01 e.8.1.5 66740 1g8aA 227 2.58e+01 1ehiA 377 2.60e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1reqA 727 2.67e+01 1reqA c.1.19.1 29620 c.23.6.1 31247 1h7nA 342 2.69e+01 1b4kA c.1.10.3 60726 1el5A 389 2.73e+01 1b3mA c.3.1.2 30369 d.16.1.3 37937 1ohlA 342 2.75e+01 c.1.10.3 87035 1gewA 356 2.78e+01 1gewA c.67.1.1 60470 1j1nA 492 2.79e+01 c.94.1.1 83978 1lmeA 176 2.79e+01 d.167.1.1 84629 1k0wA 231 2.80e+01 c.74.1.1 77220 1ny1A 240 2.82e+01 c.6.2.3 86395 1d2kA 392 2.83e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1ihoA 283 2.87e+01 1ihoA c.26.1.4 62390 1dosA 358 2.89e+01 1dosA c.1.10.2 29175 1g66A 207 2.90e+01 1bs9 c.23.9.1 31329 1uu1A 335 2.92e+01 1v7oA 165 2.97e+01 1i1wA 303 3.03e+01 c.1.8.3 76732 1edqA 540 3.04e+01 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1qvbA 481 3.04e+01 1qvbA c.1.8.4 28983 1p1mA 406 3.05e+01 b.92.1.4 87696 c.1.9.9 87697 1gzgA 337 3.05e+01 c.1.10.3 70805 1j97A 211 3.08e+01 1f5sA c.108.1.4 62753 1eswA 500 3.09e+01 1cwyA c.1.8.1 59500 1pkhA 204 3.13e+01 1l7mA 211 3.13e+01 c.108.1.4 73664 1qj2B 809 3.14e+01 1qj2B 1dzlA 505 3.15e+01 1dzlA b.121.6.1 23586 1fg7A 356 3.16e+01 1gewA c.67.1.1 59819 1bcpB 199 3.17e+01 1bcpB b.40.2.1 25120 d.169.1.2 42429 1s4qA 228 3.17e+01 1j6pA 418 3.17e+01 b.92.1.4 77089 c.1.9.9 77090 1ll7A 392 3.22e+01 c.1.8.5 78085 d.26.3.1 78086 1kcbA 340 3.24e+01 1diiC 80 3.27e+01 1diiC a.3.1.1 15925 1b4kA 337 3.29e+01 1b4kA c.1.10.3 29184 2pfkA 320 3.39e+01 3pfk c.89.1.1 35577 1nu0A 138 3.39e+01 1jjiA 311 3.40e+01 c.69.1.2 66766 1yasA 257 3.41e+01 1qj4A c.69.1.20 34801 1bg6 359 3.42e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 5reqA 727 3.42e+01 1reqA c.1.19.1 29632 c.23.6.1 31259 1g6sA 427 3.49e+01 1eps d.68.2.2 39584 1sjyA 159 3.55e+01 1j96A 323 3.58e+01 c.1.7.1 71616 1vid 221 3.59e+01 1vid c.66.1.1 34178 1m6dA 214 3.64e+01 d.3.1.1 84849 1a0cA 438 3.66e+01 1a0cA c.1.15.3 29529 1vkfA 188 3.66e+01 1bif 469 3.66e+01 1bif c.37.1.7 31961 c.60.1.4 34003 1fiwA 290 3.68e+01 5ptp 1hl2A 297 3.69e+01 c.1.10.1 83581 1f8mA 429 3.76e+01 1dquA c.1.12.7 29315 1kthA 58 3.83e+01 g.8.1.1 68863 2knt 58 3.83e+01 1bpi g.8.1.1 44537 1hdoA 206 3.95e+01 1he2A c.2.1.2 60965 1t2aA 375 3.95e+01