# 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 5.45e-02 1lktA 104 3.18e-01 1lktA b.90.1.1 28398 1zkdA 387 6.54e-01 1yx1A 264 7.66e-01 2c3vA 102 9.43e-01 1tp6A 128 1.03e+00 d.17.4.12 107184 2cr5A 109 1.41e+00 1m93C 41 1.84e+00 1cqyA 99 2.27e+00 1b9zA b.3.1.1 22527 2a2pA 129 2.53e+00 1pm1X 180 2.70e+00 b.60.1.1 104189 1ui0A 205 2.96e+00 c.18.1.2 99411 1ijqA 316 2.98e+00 1ijqA b.68.5.1,g.3.11.1 62506,62507 1xvqA 175 3.67e+00 1yaxA 153 4.05e+00 1tqzA 133 4.28e+00 1xt9A 212 4.29e+00 1qx4A 274 4.43e+00 b.43.4.2,c.25.1.1 104624,104625 1h6hA 143 5.09e+00 d.189.1.1 65681 1vq2A 193 5.25e+00 1m7xA 617 5.25e+00 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1itcA 516 5.73e+00 b.3.1.1,c.1.8.1 83705,83706 1vemA 516 5.82e+00 1wm3A 72 6.12e+00 1qhoA 686 6.12e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1mkeA 152 6.14e+00 b.55.1.4 79231 1txkA 498 6.21e+00 b.1.18.2,b.30.5.9 107425,107426 1v74A 107 6.49e+00 d.243.1.1 100442 1ffyA 917 6.70e+00 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1zndA 174 6.71e+00 1qy1A 174 6.71e+00 b.60.1.1 96568 3ezmA 101 6.80e+00 3ezmA b.89.1.1 28395 1jv4A 162 6.86e+00 b.60.1.1 67343 1qmvA 197 6.95e+00 1qq2A c.47.1.10 33066 1ztcA 221 7.16e+00 1qhdA 398 7.35e+00 1qhdA a.115.1.2,b.19.1.1 63324,63325 1mxiA 160 7.43e+00 c.116.1.1 79646 1xfsA 178 7.86e+00 d.129.3.5 109589 2bkqA 212 8.15e+00 1h4rA 314 8.64e+00 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1euoA 180 8.66e+00 1np1A b.60.1.1 27163 1f00I 282 8.97e+00 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1dcjA 81 9.21e+00 1dcjA d.68.3.3 59115 1qwdA 177 9.33e+00 b.60.1.1 96471 1lwdA 413 9.46e+00 c.77.1.1 78265 1ndh 272 9.53e+00 1ndh b.43.4.2,c.25.1.1 25662,31552 1ryaA 160 9.58e+00 d.113.1.5 105122 1i05A 180 9.61e+00 1mup b.60.1.1 27130 1w9hA 427 9.69e+00 1jofA 365 9.98e+00 b.69.10.1 71775 1i06A 180 9.99e+00 1mup b.60.1.1 27131 1ecfA 504 1.00e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1vr9A 213 1.02e+01 2cu3A 64 1.07e+01 1ne9A 335 1.08e+01 d.108.1.4,d.108.1.4 91839,91840 1omiA 248 1.09e+01 b.82.3.3,a.4.5.4 87079,87080 1cdq 77 1.13e+01 1cds g.7.1.3 44459 1byrA 155 1.14e+01 1byrA d.136.1.1 41450 1cv8 174 1.16e+01 1cv8 d.3.1.1 37089 1peeA 180 1.17e+01 b.60.1.1 104126 2bzoB 79 1.24e+01 1iwdA 215 1.29e+01 d.3.1.1 83756 1i7pA 274 1.32e+01 b.43.4.2,c.25.1.1 66048,66049 1z2mA 155 1.32e+01 1kb0A 677 1.34e+01 a.3.1.6,b.70.1.1 68378,68379 3nul 130 1.37e+01 3nul d.110.1.1 40891 1mup 166 1.38e+01 1mup b.60.1.1 27133 1l0bA 229 1.43e+01 c.15.1.3,c.15.1.3 73391,73392 2pil 159 1.46e+01 2pil d.24.1.1 38376 1gmuA 143 1.49e+01 b.107.1.1,d.58.38.1 65335,65336 1kllA 130 1.50e+01 d.32.1.2 72720 1dg9A 157 1.51e+01 1dg9A c.44.1.1 32637 1qauA 112 1.54e+01 1qauA b.36.1.1 24779 1xwwA 157 1.65e+01 1c0eA 157 1.66e+01 1dg9A c.44.1.1 32638 1hw6A 278 1.68e+01 1frb c.1.7.1 61296 1wywA 230 1.69e+01 1q9iA 571 1.71e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1p2hA 571 1.71e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1y0pA 571 1.72e+01 1a4yB 123 1.73e+01 7rsa d.5.1.1 37296 1l6rA 227 1.75e+01 c.108.1.10 77768 1y8cA 246 1.76e+01 1xc3A 302 1.76e+01 1umkA 275 1.78e+01 1e3uA 246 1.79e+01 1fofA e.3.1.1 42755 2c6cA 707 1.80e+01 1e39A 571 1.80e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 2cohA 202 1.80e+01 1kssA 571 1.82e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1uh6A 100 1.84e+01 d.15.1.1 99394 1qjpA 171 1.86e+01 1bxwA f.4.1.1 43742 1b9wA 89 1.87e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1k55A 246 1.88e+01 e.3.1.1 68156 1iscA 192 1.89e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1uasA 362 1.94e+01 b.71.1.1,c.1.8.1 88388,88389 1vjfA 180 1.96e+01 d.116.1.1 100809 1qb5D 99 1.98e+01 b.40.2.1 88357 1hw7A 255 2.00e+01 1i7fA d.193.1.1 61297 2ghrA 302 2.01e+01 1b24A 188 2.02e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1q7fA 286 2.03e+01 b.68.9.1 96036 1tiiD 99 2.03e+01 1tiiD b.40.2.1 24965 1k2fA 190 2.04e+01 b.8.1.2 68054 1uhvA 500 2.08e+01 b.71.1.2,c.1.8.3 99402,99403 1xkiA 162 2.17e+01 1z02A 446 2.21e+01 2cfuA 658 2.35e+01 2bjbA 462 2.38e+01 1un3A 123 2.38e+01 d.5.1.1 99646 1b8aA 438 2.41e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 2fbmA 291 2.44e+01 1npeA 267 2.45e+01 b.68.5.1 92032 1uu1A 335 2.47e+01 c.67.1.1 99993 1tzaA 134 2.54e+01 b.1.23.1 107468 2bkrA 212 2.57e+01 2fhxA 246 2.58e+01 1uvqA 197 2.61e+01 b.1.1.2,d.19.1.1 100062,100063 1h0hA 977 2.62e+01 b.52.2.2,c.81.1.1 76435,76436 1p57A 114 2.67e+01 d.170.1.2 94125 1gsa 316 2.67e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 2ap1A 327 2.75e+01 1y88A 199 2.76e+01 1q18A 332 2.79e+01 c.55.1.7,c.55.1.7 104470,104471 2gcc 70 2.81e+01 2gcc d.10.1.2 37484 1w41A 101 2.83e+01 1iow 306 2.85e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1x0rA 249 2.89e+01 2bs9A 503 2.90e+01 1obpA 159 2.91e+01 1obpA b.60.1.1 27092 1nzjA 298 2.95e+01 c.26.1.1 92377 1szoA 257 2.96e+01 c.14.1.3 106164 1vetA 124 2.96e+01 d.110.7.1 108553 1o8uA 257 2.96e+01 c.14.1.3 81194 1hn2A 159 2.98e+01 b.60.1.1 65890 1gt1A 159 2.98e+01 b.60.1.1 90515 2fh5A 185 3.01e+01 1n13B 113 3.05e+01 1h7mA 102 3.05e+01 d.79.3.1 83485 1wgoA 123 3.13e+01 1vkiA 181 3.13e+01 d.116.1.1 108664 1skoA 143 3.14e+01 d.110.7.1 105676 1wrvA 308 3.16e+01 1fjgP 88 3.24e+01 1emwA d.27.1.1 38444 1d4oA 184 3.24e+01 1d4oA c.31.1.4 31748 2esnA 310 3.26e+01 1tljA 213 3.27e+01 d.282.1.1 107126 1obr 326 3.28e+01 1aye c.56.5.2 33828 1lrwA 600 3.31e+01 b.70.1.1 91111 1r77A 103 3.37e+01 1zyeA 220 3.37e+01 1bco 327 3.41e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1a8q 274 3.41e+01 1brt c.69.1.12 34702 2bgiA 272 3.44e+01 2cvzA 289 3.48e+01 2bfgA 503 3.50e+01 1wfyA 104 3.52e+01 2gfoA 396 3.60e+01 1cq0A 28 3.61e+01 j.6.1.1 46108 2b59B 172 3.62e+01 1iakA 199 3.71e+01 1iakA b.1.1.2,d.19.1.1 21625,38199 1yqtA 538 3.72e+01 1nrlA 316 3.79e+01 a.123.1.1 92091 2evrA 246 3.83e+01 1jj2R 84 3.84e+01 1ffkP d.12.1.1 63103 1s72S 85 3.84e+01 d.12.1.1 105338 2prd 174 3.89e+01 2prd b.40.5.1 25435 2gu3A 136 3.93e+01 1kaeA 434 3.96e+01 c.82.1.2 72247 1zu0A 529 3.98e+01 1ttzA 87 3.99e+01 c.47.1.1 107309 2a25A 193 3.99e+01 1vbvA 105 3.99e+01 1vqoS 85 4.01e+01 1xxqA 161 4.06e+01 1m9sA 605 4.15e+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 1kutA 230 4.17e+01 d.143.1.1 73017 1u0tA 307 4.19e+01 e.52.1.1 107567 1sur 215 4.20e+01 1sur c.26.2.2 31620 1mqeA 207 4.22e+01 d.113.1.1 91394 1j09A 468 4.25e+01 a.97.1.1,c.26.1.1 77025,77026 2fnjA 226 4.25e+01 1pylA 97 4.25e+01 d.1.1.2 104391 1htrB 329 4.34e+01 1smrA 2h3jA 75 4.38e+01 1b0uA 262 4.44e+01 1b0uA c.37.1.12 32370 1g8kA 825 4.44e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1xkgA 312 4.55e+01 2dg5B 190 4.62e+01 2aa4A 289 4.66e+01 1tyyA 339 4.67e+01 1z0wA 207 4.75e+01 2gwnA 452 4.76e+01 1am2 199 4.80e+01 1am2 b.86.1.2 28381 1vjvA 415 4.80e+01 d.3.1.9 108632 1w6sA 599 4.81e+01 1qg7A 67 4.86e+01 1a15A d.9.1.1 37449 1vcdA 126 4.92e+01 1icxA 155 4.93e+01 d.129.3.1 71191 1htqA 477 4.93e+01 d.15.9.1,d.128.1.1 71035,71036 1bwzA 274 4.98e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1dmhA 311 5.03e+01 1dmhA b.3.6.1 22633 1u00A 227 5.03e+01 1dpgA 485 5.03e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 2db9A 149 5.04e+01 1gqzA 274 5.08e+01 d.21.1.1,d.21.1.1 83311,83312 2azqA 311 5.11e+01 1nqcA 217 5.19e+01 d.3.1.1 86024 1h80A 464 5.26e+01 b.80.1.8 65714 1u58A 253 5.27e+01 1kpsB 171 5.28e+01 a.118.12.1 68787 1y8qB 640 5.32e+01 1wdvA 152 5.32e+01 1huxA 270 5.33e+01 1huxA c.55.1.5 61278 1uocA 289 5.34e+01 c.55.3.9 99686 2bzuA 181 5.36e+01 1e25A 282 5.38e+01 1e25A e.3.1.1 42731 1gln 468 5.38e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1i0cA 60 5.40e+01 1aojA b.34.2.1 61485 2fq9A 225 5.42e+01 1pda 315 5.43e+01 1pda c.94.1.1,d.50.2.1 35751,38794 1tedA 393 5.47e+01 c.95.1.2 106807 1rewC 135 5.53e+01 g.7.1.3 97336 1va4A 279 5.55e+01 c.69.1.12 108458 1sz2A 332 5.69e+01 1jmmA 377 5.70e+01 b.30.6.1 71749 2c26A 260 5.72e+01 1f2tB 148 5.76e+01 1f2tB 1bbt1 213 5.77e+01 1qqp1 1xvsA 126 5.79e+01 1v30A 124 5.90e+01 1pufB 73 5.93e+01 a.4.1.1 95132 1i8aA 189 6.00e+01 1i82A b.1.9.2 61951 1zglM 209 6.05e+01 1m4jA 142 6.05e+01 d.109.1.2 78602 1kfwA 435 6.10e+01 c.1.8.5,d.26.3.1 77376,77377 1xk5A 204 6.11e+01 1jb0E 75 6.16e+01 1pse b.34.4.2 62824 1pjxA 314 6.18e+01 b.68.6.1 104167 1b72B 87 6.18e+01 1akhA a.4.1.1 16001 1e1aA 314 6.19e+01 1e1aA b.68.6.1 59155 1ispA 181 6.27e+01 c.69.1.18 76778 1oxxK 353 6.29e+01 b.40.6.3,c.37.1.12 93715,93716 2crvA 120 6.29e+01 1y9wA 140 6.38e+01 1gpeA 587 6.38e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1z47A 355 6.40e+01 1c96A 753 6.40e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1ppjD 241 6.45e+01 a.3.1.3,f.23.11.1 104258,104259 1b22A 114 6.45e+01 1b22A a.60.4.1 17969 1oxsC 353 6.50e+01 b.40.6.3,c.37.1.12 87519,87520 1i6wA 181 6.52e+01 1i6wA c.69.1.18 61859 1wejH 223 6.55e+01 1igtB b.1.1.1,b.1.1.2 20361,21353 1u7pA 164 6.58e+01 1qqp1 213 6.62e+01 1qqp1 1oapA 109 6.65e+01 d.79.7.1 92706 1ju2A 536 6.72e+01 c.3.1.2,d.16.1.1 77169,77170 2cx5A 158 6.73e+01 2cw9A 194 6.82e+01 1ospO 257 6.87e+01 1ospO b.76.1.1 27971 2go8A 122 6.98e+01 1eg9A 449 7.02e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1de4C 640 7.06e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1o7nA 449 7.07e+01 b.33.1.2,d.129.3.3 81162,81163 1a88A 275 7.07e+01 1brt c.69.1.12 34707 2bjfA 329 7.09e+01 4ubpC 570 7.10e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1zfpE 98 7.10e+01 1griA d.93.1.1 40465 1xqaA 113 7.12e+01 2grrB 170 7.13e+01 1k8kA 418 7.17e+01 c.55.1.1,c.55.1.1 68305,68306 1pvmA 184 7.21e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 2a74B 188 7.24e+01 1vplA 256 7.25e+01 1g5aA 628 7.26e+01 b.71.1.1,c.1.8.1 65152,65153 1l2tA 235 7.30e+01 c.37.1.12 73514 1bxyA 60 7.38e+01 1bxyA d.59.1.1 39525 1oshA 232 7.43e+01 a.123.1.1 93496 1pamA 686 7.57e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 2a15A 139 7.60e+01 1ri9A 102 7.60e+01 b.34.2.1 97506 1te7A 103 7.64e+01 1u5xA 140 7.65e+01 1eceA 358 7.71e+01 1eceA c.1.8.3 28813 1k07A 263 7.72e+01 d.157.1.1 77218 2g09A 297 7.74e+01 2b3yA 888 7.75e+01 2a5hA 416 7.76e+01 1bywA 110 7.77e+01 1bywA d.110.3.6 40912 1ugiA 84 7.77e+01 1ugiA d.17.5.1 38125 1pulA 125 7.77e+01 1qveA 126 7.85e+01 d.24.1.1 104594 1zq7A 207 7.93e+01 1pwaA 162 7.94e+01 b.42.1.1 95211 1lgpA 116 7.94e+01 b.26.1.2 73890 1pqzA 238 7.99e+01 b.1.1.2,d.19.1.1 104297,104298 1sr8A 298 8.12e+01 e.54.1.1 105959 1cr5A 189 8.16e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1oz7A 131 8.17e+01 d.169.1.1 93806 1qlwA 328 8.18e+01 1qlwA c.69.1.15 34722 1wj9A 211 8.18e+01 1x6oA 174 8.22e+01 b.34.5.2,b.40.4.5 109493,109494 1wn5A 130 8.22e+01 1w4tA 299 8.26e+01 1avpA 204 8.27e+01 1avpA d.3.1.7 37132 1g8aA 227 8.32e+01 c.66.1.3 90506 1xrkA 124 8.34e+01 1xf1A 926 8.36e+01 1ef1A 294 8.40e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 1j1tA 233 8.45e+01 b.29.1.18 90771 1ykjA 394 8.47e+01 1pot 325 8.49e+01 1pot c.94.1.1 35807 2bgcA 238 8.51e+01 1jlnA 297 8.52e+01 1pty c.45.1.2 63172 2akrA 285 8.64e+01 1xksA 450 8.65e+01 1atg 231 8.71e+01 1atg c.94.1.1 35834 1q1uA 144 8.80e+01 b.42.1.1 95608 2cc0A 195 8.85e+01 1or0B 528 8.95e+01 1s9aA 257 8.96e+01 b.3.6.1 105379 1j58A 385 8.98e+01 b.82.1.2 71531 1j79A 347 8.99e+01 1j79A c.1.9.4 62675