# List of top-scoring protein chains for t2k.100-30-str 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.soe.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 3h3lA 241 2.15e-29 3hbkA 245 4.14e-29 3immA 201 3.98e-23 2a6zA 222 7.84e-06 b.29.1.13 126319 1oq1A 223 9.95e-05 b.29.1.17 93408 1epwA 1290 3.13e-04 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1o4yA 288 3.93e-03 b.29.1.2 92473 2uwaA 274 4.98e-03 1gv9A 260 1.14e-02 b.29.1.13 70596 1dypA 271 1.16e-02 1dypA b.29.1.2 24185 3ilfA 268 1.46e-02 1ca1 370 1.78e-02 1ca1 1ca1A 370 1.78e-02 a.124.1.1 19340 b.12.1.3 23648 1qu0A 191 1.88e-02 1dykA b.29.1.4 24225 1mveA 243 2.64e-02 b.29.1.2 85140 2a6vA 226 2.69e-02 b.29.1.13 126312 2wxuA 370 2.92e-02 1yo8A 634 3.19e-02 3juuA 280 3.36e-02 1umzA 278 4.30e-02 b.29.1.2 99639 1kdkA 177 5.50e-02 b.29.1.4 72351 2ayh 214 6.27e-02 1axkA 2ayhA 214 6.27e-02 b.29.1.2 24172 1d2sA 170 6.41e-02 1d2sA b.29.1.4 24221 1f5fA 205 6.48e-02 1d2sA b.29.1.4 24222 1ux6A 350 7.14e-02 b.29.1.16 100145 g.75.1.1 100146 1hdkA 141 7.38e-02 b.29.1.3 65807 1uaiA 224 7.54e-02 b.29.1.18 107761 1lcl 142 7.71e-02 1lcl 1dykA 394 8.35e-02 1dykA b.29.1.4 24223 b.29.1.4 24224 3hr9A 241 9.09e-02 2hykA 245 1.06e-01 1upsA 420 1.08e-01 b.29.1.2 113394 b.42.2.3 113395 2zzjA 238 1.24e-01 1khoA 370 1.45e-01 a.124.1.1 72489 b.12.1.3 72490 2v73A 191 1.79e-01 2vu9A 444 1.81e-01 3b9cA 144 2.01e-01 2r16A 182 2.21e-01 2zglA 167 2.25e-01 1d0hA 469 2.53e-01 1a8d b.29.1.6 24265 b.42.4.2 25610 2zhnA 148 2.72e-01 1gbg 214 3.17e-01 1axkA 1gbgA 214 3.17e-01 b.29.1.2 24171 2ealA 148 3.23e-01 1a8d 452 3.54e-01 1a8d 1a8dA 452 3.54e-01 b.29.1.6 24262 b.42.4.2 25607 3hmyA 450 3.72e-01 2erfA 209 4.02e-01 b.29.1.4 132287 1cpnA 208 4.13e-01 b.29.1.2 24175 3gneA 252 4.33e-01 2w68A 195 4.40e-01 1ww7A 160 4.48e-01 1diwA 441 4.65e-01 1a8d b.29.1.6 24264 b.42.4.2 25609 3butA 136 4.68e-01 2cwsA 237 4.82e-01 1kit 757 5.09e-01 1kit 1axkA 394 5.13e-01 1axkA b.29.1.2 24181 b.29.1.11 24315 2yv8A 164 7.14e-01 2vxrA 482 7.30e-01 2sli 679 8.37e-01 2sli 2sliA 679 8.37e-01 b.29.1.9 24274 b.68.1.1 27611 2f99A 153 8.77e-01 d.17.4.9 147011 1gwyA 175 9.67e-01 b.97.1.1 83356 2jd4A 383 9.99e-01 2uurA 245 1.08e+00 1efuA 385 1.09e+00 1efcA b.43.3.1 25682 b.44.1.1 25722 c.37.1.8 32115 1wmxA 205 1.13e+00 b.18.1.24 109418 1w0pA 781 1.16e+00 b.29.1.8 109038 b.29.1.8 109039 b.68.1.1 109040 2dq6A 870 1.23e+00 3b34A 891 1.23e+00 1efcA 393 1.26e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 2vy0A 264 1.28e+00 3km5A 180 1.54e+00 1fx5A 242 1.57e+00 1led b.29.1.1 24135 2h0bA 184 1.71e+00 3ks7A 397 1.88e+00 2durA 253 2.12e+00 2jkbA 686 2.17e+00 2c78A 405 2.20e+00 b.43.3.1 130037 b.44.1.1 130038 c.37.1.8 130039 3dgtA 280 2.21e+00 2vw2A 697 2.23e+00 1bkzA 135 2.40e+00 1a3k b.29.1.3 24202 3flpA 217 2.43e+00 2w39A 298 2.44e+00 1gnyA 153 2.55e+00 b.18.1.11 65404 2cl2A 298 2.57e+00 1mppA 361 2.61e+00 b.50.1.2 26856 2r0hA 164 2.63e+00 1ncwL 219 2.75e+00 b.1.1.1 85557 b.1.1.2 85558 1zoxA 113 2.77e+00 1pvc1 301 2.90e+00 1pov1 3ei3A 1158 2.91e+00 1tq5A 242 3.22e+00 b.82.1.12 119311 2j04A 588 3.25e+00 2d6mA 159 3.33e+00 3bywA 177 3.44e+00 1d2eA 397 3.47e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 2p8eA 307 3.62e+00 1yi9A 309 3.68e+00 b.121.1.2 123276 b.121.1.2 123277 3ecqA 1531 3.69e+00 1zud1 251 3.80e+00 1bd2D 204 3.86e+00 1tcrA b.1.1.1 20622 b.1.1.2 21557 3ejaA 208 3.96e+00 1ar61 302 4.08e+00 1pov1 1al21 302 4.34e+00 1pov1 1exmA 405 4.59e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1ar71 302 4.69e+00 1pov1 3etpA 187 4.70e+00 2dfuA 264 4.87e+00 1jhnA 424 4.90e+00 b.29.1.12 70060 b.104.1.1 66722 1vavA 222 5.00e+00 b.29.1.18 108472 1ikpA 613 5.04e+00 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1aipA 405 5.09e+00 1efcA b.43.3.1 25697 b.44.1.1 25737 c.37.1.8 32132 2nn8A 138 5.11e+00 b.29.1.3 138392 1suwA 249 5.19e+00 e.52.1.1 106027 1kjlA 146 5.19e+00 b.29.1.3 118689 2wjrA 214 5.21e+00 1nbcA 155 5.24e+00 1nbcA b.2.2.2 22390 2d93A 134 5.27e+00 1a3k 137 5.30e+00 1a3k 3itaA 352 5.37e+00 1iazA 179 5.50e+00 1iazA b.97.1.1 62131 2kl6A 114 5.51e+00 1z0sA 278 5.53e+00 e.52.1.1 124328 2rh0A 157 5.54e+00 2yyoA 171 5.90e+00 2vjxA 846 6.00e+00 b.1.4.1 153203 b.1.4.1 153204 b.1.4.1 153205 b.18.1.5 153206 c.1.8.3 153207 2c9wA 169 6.01e+00 a.271.1.1 145023 d.93.1.1 145024 1gwmA 153 6.08e+00 b.18.1.19 83348 1pov1 302 6.13e+00 1pov1 3gnmL 219 6.16e+00 1j1lA 290 6.33e+00 b.82.1.12 90766 2vr4A 846 6.55e+00 b.1.4.1 153495 b.1.4.1 153496 b.1.4.1 153497 b.18.1.5 153498 c.1.8.3 153499 3e0cA 1140 6.81e+00 3k2iA 422 6.85e+00 2c4xA 260 6.89e+00 1ajkA 214 6.91e+00 1axkA b.29.1.2 24176 1sdwA 314 6.93e+00 b.121.1.2 98810 b.121.1.2 98811 1hxs1 302 7.09e+00 1guiA 155 7.13e+00 b.18.1.14 76351 1cx1A 153 7.22e+00 1ulo b.18.1.14 23770 1a4kA 217 7.26e+00 8fabA b.1.1.1 20236 b.1.1.2 21248 3iduA 127 7.38e+00 3eb7A 589 7.50e+00 1phm 310 7.50e+00 1phm 1xwnA 174 7.60e+00 b.62.1.1 122404 2nw2B 243 7.60e+00 1yt5A 258 7.77e+00 1ciy 590 7.81e+00 1ciy 1ciyA 590 7.81e+00 b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1gttA 429 7.93e+00 d.177.1.1 70529 d.177.1.1 70530 1bymA 97 7.96e+00 1bi0 b.34.1.2 24458 1h4gA 207 8.13e+00 b.29.1.11 70863 1is3A 135 8.27e+00 b.29.1.3 76773 1wkyA 464 8.35e+00 b.18.1.31 120992 c.1.8.3 120993 2ajuL 216 8.40e+00 1p9rA 418 8.51e+00 c.37.1.11 94399 1ojjA 402 8.55e+00 b.29.1.10 93130 1zglP 249 8.56e+00 b.1.1.1 125047 b.1.1.2 125048 1ajoA 214 8.58e+00 1axkA b.29.1.2 24179 3f3fA 351 8.61e+00 1uuzA 137 8.73e+00 d.233.1.1 100024 1flrL 219 8.81e+00 8fabA b.1.1.1 19904 b.1.1.2 20998 2zuyA 620 8.96e+00 1ylnA 252 9.07e+00 b.45.2.1 123657 b.45.2.2 123658 1a4jA 217 9.35e+00 8fabA b.1.1.1 20232 b.1.1.2 21244 1dymA 402 9.44e+00 1celA b.29.1.10 24304 2w08A 204 9.52e+00 3bikB 134 9.72e+00 b.1.1.1 155309 2cpcA 113 9.77e+00 2iyeA 263 1.01e+01 1vcaA 202 1.01e+01 1vcaA b.1.1.3 21649 b.1.1.4 21685 3bp5A 117 1.01e+01 b.1.1.1 155462 1ynaA 194 1.02e+01 b.29.1.11 24335 1nukA 183 1.05e+01 1nukA b.18.1.4 23721 1f5jA 199 1.08e+01 1axkA b.29.1.11 24342 2rftA 344 1.10e+01 1h30A 422 1.11e+01 b.29.1.4 76604 b.29.1.4 76605 1sjwA 144 1.15e+01 d.17.4.9 98899 1f8eA 388 1.17e+01 2qwc b.68.1.1 59694 3kt7A 633 1.23e+01 1sacA 204 1.25e+01 1sacA b.29.1.5 24237 1tetL 216 1.26e+01 32c2A b.1.1.1 19902 b.1.1.2 20996 2qwc 388 1.29e+01 2qwc 1kd6A 179 1.32e+01 b.97.1.1 68459 2adgA 214 1.32e+01 1npuA 117 1.40e+01 b.1.1.1 92038 3d3aA 612 1.40e+01 2k46A 190 1.41e+01 1qhdA 398 1.42e+01 1qhdA a.115.1.2 63324 b.19.1.1 63325 1gr3A 160 1.43e+01 b.22.1.1 65476 2ownA 262 1.43e+01 d.38.1.8 149045 d.38.1.8 149046 1yewA 382 1.44e+01 3beqA 385 1.45e+01 2rfwA 430 1.46e+01 1d7qA 143 1.47e+01 1d7qA b.40.4.5 25331 1x99A 145 1.47e+01 b.97.1.2 114978 1mpuA 138 1.47e+01 d.169.1.1 85040 2rdeA 251 1.48e+01 b.45.2.1 151924 b.45.2.2 151925 3gzuC 397 1.49e+01 1wckA 220 1.55e+01 3bp6A 117 1.55e+01 1e87A 118 1.55e+01 1b6e d.169.1.1 42327 1gpiA 431 1.56e+01 b.29.1.10 65450 1gzwA 134 1.56e+01 b.29.1.3 90535 2j9jA 99 1.56e+01 2aexA 346 1.57e+01 1vjuA 309 1.61e+01 d.248.1.1 100835 1uy4A 145 1.65e+01 b.18.1.10 108131 2ba1A 179 1.67e+01 1w2tA 432 1.68e+01 b.29.1.19 120607 b.67.2.3 120608 3iflL 219 1.68e+01 3hupA 130 1.69e+01 1uypA 432 1.69e+01 b.29.1.19 100176 b.67.2.3 100177 3l9yA 154 1.71e+01 2vvfA 269 1.72e+01 1ukgA 252 1.74e+01 b.29.1.1 99489 3cyeA 387 1.75e+01 2eb4A 267 1.77e+01 2dtr 226 1.77e+01 1bi0 1h8eA 510 1.80e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1axsA 211 1.80e+01 8fabA b.1.1.1 20200 b.1.1.2 21216 3iswA 99 1.81e+01 3db5A 151 1.81e+01 1rc6A 261 1.84e+01 b.82.1.11 97287 3e8uL 216 1.84e+01 2gf6A 135 1.84e+01 d.38.1.1 135077 2vsmA 416 1.86e+01 3kz4C 397 1.87e+01 1h3iA 293 1.88e+01 b.76.2.1 76635 b.85.7.1 76636 1kgyA 181 1.88e+01 b.18.1.4 72449 1sq9A 397 1.91e+01 b.69.4.1 105889 1axtL 216 1.92e+01 8fabA b.1.1.1 20304 b.1.1.2 21296 1w6nA 134 1.93e+01 b.29.1.3 114275 1uwwA 191 1.94e+01 b.18.1.23 108079 2oyzA 94 1.97e+01 b.82.1.22 149082 2z5wA 136 1.97e+01 1sefA 274 2.03e+01 b.82.1.11 105452 3fcgA 90 2.04e+01 1pgs 314 2.07e+01 1pgs 1pgsA 314 2.07e+01 b.121.1.1 23653 b.121.1.1 23654 3dieA 106 2.10e+01 1nfdA 203 2.10e+01 1tcrA b.1.1.1 20612 b.1.1.2 21550 1yemA 179 2.10e+01 d.63.1.2 116646 1vclA 432 2.11e+01 b.42.2.1 108498 b.42.2.1 108499 d.281.1.1 108500 3bp1A 290 2.12e+01 1kmtA 141 2.15e+01 b.1.18.8 77442 2fytA 340 2.15e+01 c.66.1.6 134391 2oxgA 108 2.16e+01 1q87A 221 2.16e+01 e.47.1.1 96192 1sawA 225 2.23e+01 d.177.1.1 112050 1q72L 218 2.24e+01 b.1.1.1 96016 b.1.1.2 96017 3f3qA 109 2.25e+01 3d8kA 377 2.25e+01 2oztA 332 2.32e+01 2it1A 362 2.33e+01 1rhfA 182 2.35e+01 b.1.1.1 97469 b.1.1.4 97470 1xynA 178 2.38e+01 b.29.1.11 24322 2fhqA 141 2.38e+01 b.45.1.1 133497 2w80C 253 2.39e+01 3b7eA 385 2.41e+01 1wwbX 103 2.43e+01 1wwcA b.1.1.4 21777 1o91A 178 2.45e+01 b.22.1.1 92656 3psgA 370 2.45e+01 b.50.1.2 26841 1d2pA 373 2.47e+01 1d2oA b.3.5.1 22629 b.3.5.1 22630 b.3.5.1 22631 b.3.5.1 22632 1o0wA 252 2.60e+01 a.149.1.1 80751 d.50.1.1 80752 2isnA 364 2.60e+01 2aabL 218 2.69e+01 b.1.1.1 144795 b.1.1.2 144796 2kdyA 261 2.70e+01 2vsdA 105 2.72e+01 2jdiA 510 2.73e+01 a.69.1.1 145683 b.49.1.1 145684 c.37.1.11 145685 2nv4A 147 2.75e+01 1shwB 181 2.75e+01 b.18.1.4 105563 1ao7D 204 2.75e+01 1tcrA b.1.1.1 20623 1h6hA 143 2.77e+01 d.189.1.1 65681 1wyuB 474 2.81e+01 c.67.1.7 121453 1ush 550 2.84e+01 1ush 3inbA 466 2.86e+01 1okiA 210 2.89e+01 b.11.1.1 93255 b.11.1.1 93256 1v0aA 178 2.90e+01 b.18.1.30 119815 1ebpA 211 2.93e+01 1eerB b.1.2.1 22023 b.1.2.1 22024 2a5zA 262 2.93e+01 b.29.1.24 126184 3k5rA 218 2.93e+01 1r17A 343 2.95e+01 b.2.3.4 96796 b.2.3.4 96797 3k1qA 1299 2.98e+01 1bec 238 3.00e+01 1bec 1becA 238 3.00e+01 b.1.1.1 20627 b.1.1.2 21561 1v8hA 107 3.02e+01 b.1.18.19 119870 2dfbA 190 3.04e+01 b.29.1.11 131470 1q2bA 434 3.06e+01 b.29.1.10 95624 3i94A 248 3.11e+01 3fiqA 157 3.11e+01 2cvkA 110 3.18e+01 2x10A 545 3.19e+01 1ft9A 222 3.20e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 3hhvA 110 3.21e+01 1rurL 217 3.23e+01 b.1.1.1 97881 b.1.1.2 97882 2yzuA 109 3.26e+01 1r8oA 96 3.26e+01 b.42.4.1 104852 3cqnA 185 3.27e+01 2oqbA 117 3.28e+01 1v5vA 401 3.32e+01 b.44.2.1 113539 d.250.1.1 113540 3gwjA 674 3.33e+01 1c1lA 136 3.34e+01 1c1lA b.29.1.3 24219 2b1mA 246 3.37e+01 3ebhA 889 3.38e+01 1fm5A 199 3.44e+01 1fm5A d.169.1.1 42330 2q86B 254 3.45e+01 b.1.1.1 150120 b.1.1.2 150121 3keyA 185 3.46e+01 1d1rA 116 3.47e+01 1d1rA d.64.1.1 39548 1gm6A 175 3.48e+01 b.60.1.1 70272 2ismA 352 3.51e+01 1q90A 292 3.55e+01 b.2.6.1 96238 b.84.2.2 96239 f.23.23.1 96240 1hp1A 516 3.55e+01 d.114.1.1 70976 d.159.1.2 70977 2hdiA 639 3.56e+01 1f3lA 321 3.56e+01 1g6q2 c.66.1.6 59630 2d1eA 248 3.56e+01 1lenA 181 3.58e+01 1led b.29.1.1 24032 3gisX 121 3.59e+01 2j23A 121 3.61e+01 3e9tA 114 3.62e+01 1e2wA 251 3.66e+01 1hcz b.2.6.1 22466 b.84.2.2 28252 1wcuA 153 3.68e+01 1lf6A 684 3.68e+01 a.102.1.5 77918 b.30.5.5 77919 3fljA 155 3.77e+01 1n9eA 787 3.82e+01 b.30.2.1 91708 d.17.2.1 91709 d.17.2.1 91710 1rypG 244 3.86e+01 d.153.1.4 41938 1qw1A 121 3.90e+01 b.34.1.2 145772 2ak4D 211 3.90e+01 b.1.1.1 144808 b.1.1.2 144809 1xfsA 178 3.91e+01 d.129.3.5 109589 3lyrA 243 3.94e+01 2qgqA 304 3.94e+01 1b2iA 83 3.95e+01 5hpgA g.14.1.1 44640 3brnA 157 3.96e+01 1f3rB 257 3.97e+01 1f3rB b.1.1.1 20417 b.1.1.1 20416 2j2zB 173 3.97e+01 b.2.3.2 145642