# 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 2f4qA 346 4.32e-02 1lktA 104 5.43e-01 1lktA b.90.1.1 28398 2c3vA 102 8.62e-01 1zkdA 387 1.21e+00 1tp6A 128 1.53e+00 d.17.4.12 107184 1yx1A 264 1.63e+00 1ui0A 205 1.76e+00 c.18.1.2 99411 1tqzA 133 2.35e+00 1m93C 41 2.58e+00 1cqyA 99 2.85e+00 1b9zA b.3.1.1 22527 1yaxA 153 2.85e+00 1qmvA 197 3.32e+00 1qq2A c.47.1.10 33066 1kllA 130 3.40e+00 d.32.1.2 72720 2cr5A 109 3.71e+00 1ijqA 316 3.98e+00 1ijqA b.68.5.1,g.3.11.1 62506,62507 2fh5A 185 4.53e+00 1qhdA 398 5.13e+00 1qhdA a.115.1.2,b.19.1.1 63324,63325 1xfsA 178 5.20e+00 d.129.3.5 109589 1ffyA 917 5.43e+00 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1dcjA 81 5.60e+00 1dcjA d.68.3.3 59115 1itcA 516 5.62e+00 b.3.1.1,c.1.8.1 83705,83706 1vemA 516 5.66e+00 1qhoA 686 5.68e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1h6hA 143 5.75e+00 d.189.1.1 65681 2c6cA 707 5.82e+00 2gcc 70 6.48e+00 2gcc d.10.1.2 37484 1vq2A 193 6.76e+00 3ezmA 101 7.72e+00 3ezmA b.89.1.1 28395 1iwdA 215 8.01e+00 d.3.1.1 83756 1xt9A 212 8.37e+00 1v74A 107 8.49e+00 d.243.1.1 100442 1h4rA 314 8.61e+00 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 2a2pA 129 8.82e+00 1m7xA 617 9.01e+00 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1lwdA 413 9.07e+00 c.77.1.1 78265 1p2hA 571 1.01e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1y0pA 571 1.01e+01 1q9iA 571 1.01e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1mkeA 152 1.05e+01 b.55.1.4 79231 3nul 130 1.06e+01 3nul d.110.1.1 40891 1z2mA 155 1.07e+01 2fhxA 246 1.08e+01 1ryaA 160 1.09e+01 d.113.1.5 105122 1qb5D 99 1.11e+01 b.40.2.1 88357 1kssA 571 1.12e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1e39A 571 1.14e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 2pil 159 1.14e+01 2pil d.24.1.1 38376 1tiiD 99 1.14e+01 1tiiD b.40.2.1 24965 1uasA 362 1.27e+01 b.71.1.1,c.1.8.1 88388,88389 1w4tA 299 1.28e+01 1qx4A 274 1.32e+01 b.43.4.2,c.25.1.1 104624,104625 1l6rA 227 1.37e+01 c.108.1.10 77768 1pufB 73 1.48e+01 a.4.1.1 95132 1y88A 199 1.49e+01 1txkA 498 1.51e+01 b.1.18.2,b.30.5.9 107425,107426 1gmuA 143 1.54e+01 b.107.1.1,d.58.38.1 65335,65336 1wm3A 72 1.61e+01 1cdq 77 1.62e+01 1cds g.7.1.3 44459 1vjfA 180 1.63e+01 d.116.1.1 100809 1w9hA 427 1.67e+01 1vcdA 126 1.68e+01 1a8q 274 1.69e+01 1brt c.69.1.12 34702 1zndA 174 1.69e+01 1xxqA 161 1.72e+01 1jv4A 162 1.76e+01 b.60.1.1 67343 1a4yB 123 1.77e+01 7rsa d.5.1.1 37296 1b72B 87 1.80e+01 1akhA a.4.1.1 16001 1npeA 267 1.83e+01 b.68.5.1 92032 1qy1A 174 1.85e+01 b.60.1.1 96568 1cv8 174 1.87e+01 1cv8 d.3.1.1 37089 2cohA 202 1.94e+01 1uvqA 197 2.06e+01 b.1.1.2,d.19.1.1 100062,100063 1p57A 114 2.07e+01 d.170.1.2 94125 1hw7A 255 2.07e+01 1i7fA d.193.1.1 61297 1kb0A 677 2.09e+01 a.3.1.6,b.70.1.1 68378,68379 1gqzA 274 2.09e+01 d.21.1.1,d.21.1.1 83311,83312 1tljA 213 2.12e+01 d.282.1.1 107126 1zu0A 529 2.13e+01 1wdvA 152 2.17e+01 1qg7A 67 2.18e+01 1a15A d.9.1.1 37449 1ne9A 335 2.22e+01 d.108.1.4,d.108.1.4 91839,91840 1kaeA 434 2.22e+01 c.82.1.2 72247 1nrlA 316 2.26e+01 a.123.1.1 92091 1ndh 272 2.27e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1q7fA 286 2.30e+01 b.68.9.1 96036 2ap1A 327 2.32e+01 1un3A 123 2.33e+01 d.5.1.1 99646 1u0tA 307 2.34e+01 e.52.1.1 107567 1vr9A 213 2.34e+01 1pm1X 180 2.45e+01 b.60.1.1 104189 1c96A 753 2.48e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1jofA 365 2.49e+01 b.69.10.1 71775 2bkqA 212 2.50e+01 1de4C 640 2.54e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1xc3A 302 2.56e+01 1i06A 180 2.57e+01 1mup b.60.1.1 27131 1i05A 180 2.57e+01 1mup b.60.1.1 27130 2cfuA 658 2.59e+01 1zyeA 220 2.61e+01 2cu3A 64 2.68e+01 1bwzA 274 2.69e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1wgoA 123 2.71e+01 2basA 431 2.73e+01 1vetA 124 2.75e+01 d.110.7.1 108553 2bzuA 181 2.75e+01 1voqa 90 2.75e+01 1uh6A 100 2.78e+01 d.15.1.1 99394 1u58A 253 2.86e+01 1psdA 409 2.97e+01 1psdA c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1m9sA 605 3.03e+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 2go8A 122 3.06e+01 1qauA 112 3.10e+01 1qauA b.36.1.1 24779 1xvqA 175 3.14e+01 1sc6A 404 3.20e+01 1huxA 270 3.26e+01 1huxA c.55.1.5 61278 1u5xA 140 3.26e+01 2akrA 285 3.27e+01 2bzoB 79 3.29e+01 1vbvA 105 3.33e+01 1b9wA 89 3.39e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 2bs9A 503 3.47e+01 1hn2A 159 3.51e+01 b.60.1.1 65890 1gt1A 159 3.51e+01 b.60.1.1 90515 1f00I 282 3.52e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1obpA 159 3.58e+01 1obpA b.60.1.1 27092 1x6oA 174 3.61e+01 b.34.5.2,b.40.4.5 109493,109494 1xkiA 162 3.68e+01 2cw9A 194 3.70e+01 1i7pA 274 3.73e+01 b.43.4.2,c.25.1.1 66048,66049 1l0bA 229 3.73e+01 c.15.1.3,c.15.1.3 73391,73392 2bfgA 503 3.82e+01 1b8aA 438 3.82e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1mqeA 207 3.82e+01 d.113.1.1 91394 1w6sA 599 3.94e+01 1n3gA 113 3.97e+01 d.204.1.1 79962 1vecA 206 3.97e+01 c.37.1.19 100575 1qjpA 171 3.98e+01 1bxwA f.4.1.1 43742 1mdwA 328 4.07e+01 d.3.1.3 84934 1y9wA 140 4.12e+01 1byrA 155 4.12e+01 1byrA d.136.1.1 41450 1l2tA 235 4.15e+01 c.37.1.12 73514 1o7zA 77 4.16e+01 d.9.1.1 86660 1nqcA 217 4.22e+01 d.3.1.1 86024 1iow 306 4.27e+01 1iow c.30.1.2,d.142.1.1 31713,41481 2crvA 120 4.31e+01 1n13B 113 4.35e+01 2ghrA 302 4.38e+01 2fq9A 225 4.40e+01 1e25A 282 4.40e+01 1e25A e.3.1.1 42731 2fikA 287 4.41e+01 1vkiA 181 4.47e+01 d.116.1.1 108664 1lrwA 600 4.49e+01 b.70.1.1 91111 1pqzA 238 4.54e+01 b.1.1.2,d.19.1.1 104297,104298 2bjbA 462 4.54e+01 1jtkA 136 4.55e+01 c.97.1.1 71862 1mup 166 4.55e+01 1mup b.60.1.1 27133 1iakA 199 4.58e+01 1iakA b.1.1.2,d.19.1.1 21625,38199 1itbB 315 4.59e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 1q18A 332 4.61e+01 c.55.1.7,c.55.1.7 104470,104471 1skoA 143 4.65e+01 d.110.7.1 105676 1pylA 97 4.72e+01 d.1.1.2 104391 1q0qA 406 4.77e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 2cvzA 289 4.78e+01 2evrA 246 4.79e+01 1xkgA 312 4.82e+01 1h0hA 977 4.92e+01 b.52.2.2,c.81.1.1 76435,76436 1oz7A 131 4.94e+01 d.169.1.1 93806 2gfoA 396 4.94e+01 1z5lA 285 4.97e+01 1ri9A 102 5.07e+01 b.34.2.1 97506 1hw5A 210 5.08e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1k55A 246 5.12e+01 e.3.1.1 68156 2fv7A 331 5.13e+01 1ztcA 221 5.19e+01 8acn 754 5.27e+01 1amj c.8.2.1,c.83.1.1 30724,35400 2gjdA 157 5.27e+01 1jvsA 400 5.29e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 1kicA 339 5.33e+01 c.70.1.1 72510 1vplA 256 5.33e+01 1htrB 329 5.34e+01 1smrA 1i8aA 189 5.40e+01 1i82A b.1.9.2 61951 1v30A 124 5.44e+01 1bco 327 5.44e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1iscA 192 5.45e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1jj2R 84 5.46e+01 1ffkP d.12.1.1 63103 2bgiA 272 5.46e+01 1s72S 85 5.46e+01 d.12.1.1 105338 1tyyA 339 5.48e+01 1uhvA 500 5.56e+01 b.71.1.2,c.1.8.3 99402,99403 1pjxA 314 5.57e+01 b.68.6.1 104167 1e1aA 314 5.57e+01 1e1aA b.68.6.1 59155 1wrvA 308 5.59e+01 1h80A 464 5.64e+01 b.80.1.8 65714 1wba 175 5.65e+01 1wba b.42.4.1 25591 1l0wA 580 5.69e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1umkA 275 5.74e+01 1uwzA 136 5.78e+01 c.97.1.1 108081 1nzjA 298 5.78e+01 c.26.1.1 92377 1zfpE 98 5.82e+01 1griA d.93.1.1 40465 2aa4A 289 5.85e+01 1vqoS 85 5.87e+01 1htjF 210 5.88e+01 1htjF a.91.1.1 61254 1r77A 103 5.91e+01 1e3uA 246 5.98e+01 1fofA e.3.1.1 42755 1x0rA 249 5.99e+01 1y8cA 246 6.00e+01 1z0wA 207 6.06e+01 1qlaA 656 6.06e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1g5aA 628 6.09e+01 b.71.1.1,c.1.8.1 65152,65153 1lfdA 87 6.11e+01 1lfdA d.15.1.5 37622 2a2lA 145 6.12e+01 3il8 72 6.22e+01 1tvxA d.9.1.1 37356 2bkrA 212 6.22e+01 1omiA 248 6.27e+01 b.82.3.3,a.4.5.4 87079,87080 2b59B 172 6.28e+01 1kfuL 699 6.37e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1xqaA 113 6.41e+01 2he7A 283 6.42e+01 1b0uA 262 6.44e+01 1b0uA c.37.1.12 32370 1euoA 180 6.47e+01 1np1A b.60.1.1 27163 1ywlA 96 6.50e+01 1rewC 135 6.52e+01 g.7.1.3 97336 1ny1A 240 6.52e+01 c.6.2.3 86395 1u14A 172 6.54e+01 c.51.4.3 107579 1peeA 180 6.59e+01 b.60.1.1 104126 2bs3A 656 6.73e+01 1fjgP 88 6.76e+01 1emwA d.27.1.1 38444 2fnjA 226 6.81e+01 2fbmA 291 6.82e+01 1k2fA 190 6.85e+01 b.8.1.2 68054 2c26A 260 6.94e+01 1d4oA 184 7.08e+01 1d4oA c.31.1.4 31748 1lrzA 426 7.11e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1msc 129 7.12e+01 1msc d.85.1.1 40039 1tvxA 75 7.12e+01 1tvxA d.9.1.1 37441 1ecfA 504 7.16e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1vbiA 344 7.21e+01 2gkeA 274 7.32e+01 1w41A 101 7.34e+01 1m9xC 146 7.41e+01 a.73.1.1 84907 2b3yA 888 7.42e+01 1obr 326 7.42e+01 1aye c.56.5.2 33828 1ccwB 483 7.48e+01 1cb7B c.1.19.2 29646 1e19A 314 7.49e+01 1b7bA c.73.1.1 34967 1tedA 393 7.50e+01 c.95.1.2 106807 2bf6A 449 7.50e+01 1pot 325 7.53e+01 1pot c.94.1.1 35807 2dchX 216 7.56e+01 1fvrA 327 7.69e+01 d.144.1.7 60047 1vjvA 415 7.75e+01 d.3.1.9 108632 1oxxK 353 7.78e+01 b.40.6.3,c.37.1.12 93715,93716 1qwyA 291 7.79e+01 b.84.3.2 96509 1h7mA 102 7.80e+01 d.79.3.1 83485 1oxsC 353 7.84e+01 b.40.6.3,c.37.1.12 87519,87520 1yqtA 538 7.87e+01 1zq7A 207 7.87e+01 1bywA 110 7.90e+01 1bywA d.110.3.6 40912 2a74B 188 7.94e+01 2dg5B 190 7.95e+01 1xksA 450 7.96e+01 2aobA 99 7.99e+01 1ttwA 138 8.00e+01 d.198.1.1 107308 1icxA 155 8.00e+01 d.129.3.1 71191 1ru3A 732 8.02e+01 e.26.1.3 97835 1ospO 257 8.02e+01 1ospO b.76.1.1 27971 2b7kA 200 8.05e+01 2c7xA 436 8.11e+01 1x54A 434 8.25e+01 1btn 106 8.30e+01 1btn b.55.1.1 26952 1ryjA 70 8.37e+01 d.15.3.2 98104 2g6bA 180 8.39e+01 1op3H 225 8.47e+01 b.1.1.1,b.1.1.2 87208,87209 2gaiA 633 8.49e+01 1v5tA 90 8.50e+01 d.15.1.1 108385 1am2 199 8.71e+01 1am2 b.86.1.2 28381 2cl1A 279 8.72e+01 1n9lA 109 8.78e+01 d.110.3.6 85468 1ifqA 138 8.84e+01 1ifqA d.110.4.1 62350 2prd 174 8.87e+01 2prd b.40.5.1 25435 1hdmB 193 8.95e+01 1hdmB b.1.1.2,d.19.1.1 21584,38158 1zglM 209 8.99e+01 1dpjA 329 8.99e+01 1smrA b.50.1.2 26828