# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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 1lam 484 2.58e-79 1lam c.50.1.1,c.56.5.3 33166,33829 1vkhA 273 1.00e-02 c.69.1.32 108662 1gc0A 398 2.50e-01 c.67.1.3 70168 1yd9A 193 3.55e-01 1iw7C 1119 5.86e-01 e.29.1.1 71474 1h5wA 309 7.15e-01 e.27.1.1 65635 1uz5A 402 1.30e+00 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1ijgA 309 1.37e+00 1fouA e.27.1.1 62493 1vkwA 218 1.48e+00 d.90.1.2 108695 1kpgA 287 1.79e+00 c.66.1.18 68735 1qwoA 442 2.15e+00 c.60.1.2 104620 1tx4B 178 2.46e+00 1ctqA c.37.1.8 32045 1jdpA 441 2.79e+00 c.93.1.1 62906 1krhA 338 3.42e+00 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 2etvA 346 3.54e+00 2f06A 144 3.55e+00 1wkbA 810 4.60e+00 2fflA 756 5.64e+00 1cs1A 386 6.61e+00 1ibjA c.67.1.3 34399 1spvA 184 6.85e+00 c.50.1.2 98957 1e4fT 419 7.11e+00 1e4fT c.55.1.1,c.55.1.1 33453,33454 1dpgA 485 7.26e+00 1dpgA c.2.1.3,d.81.1.5 30074,39989 1qxyA 252 7.41e+00 d.127.1.1 96565 1kmqA 184 7.70e+00 c.37.1.8 84412 1ve1A 304 8.21e+00 1x13A 401 8.29e+00 1yobA 179 8.40e+00 1ky3A 182 8.41e+00 c.37.1.8 73193 1yirA 408 8.72e+00 1iloA 77 9.07e+00 c.47.1.1 66205 1q6hA 224 9.11e+00 d.26.1.1 95975 1bvyF 191 9.34e+00 1bvyF c.23.5.1 31207 1o4tA 133 9.65e+00 b.82.1.9 86622 2a6hC 1119 9.98e+00 1zr5A 214 1.02e+01 1xppA 115 1.05e+01 1x6mA 196 1.08e+01 1h1yA 228 1.09e+01 c.1.2.2 76506 1r3dA 264 1.09e+01 1vqzA 341 1.10e+01 2ck3A 510 1.20e+01 2fcr 173 1.22e+01 1rcf c.23.5.1 31151 2fh5A 185 1.27e+01 1e3jA 352 1.33e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1e79A 510 1.33e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1xnzA 264 1.36e+01 1u2eA 289 1.38e+01 1ua4A 455 1.39e+01 c.72.1.3 99128 1c24A 263 1.39e+01 1c24A d.127.1.1 41148 1nf3A 195 1.43e+01 c.37.1.8 85594 1e94F 449 1.44e+01 1do0A c.37.1.20 32443 1qc5A 192 1.46e+01 1aoxA c.62.1.1 34147 1u2pA 163 1.49e+01 1h8eA 510 1.50e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1z0sA 278 1.51e+01 1smbA 154 1.56e+01 d.111.1.1 105756 2atxA 194 1.66e+01 1vkfA 188 1.68e+01 c.1.29.1 108656 1oltA 457 1.69e+01 c.1.28.2 93334 1uuyA 167 1.71e+01 c.57.1.1 108059 1ja1A 622 1.71e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1qwlA 505 1.75e+01 e.5.1.1 96483 2fliA 220 1.75e+01 1fvpA 231 1.76e+01 1nfp c.1.16.2 29556 1l2uA 245 1.77e+01 c.1.2.3 73516 1q6uA 245 1.77e+01 d.26.1.1 95998 1f46A 140 1.79e+01 1f46A d.129.4.1 59643 1ag9A 175 1.80e+01 1rcf c.23.5.1 31178 1x9zA 188 1.82e+01 1pv9A 348 1.91e+01 c.55.2.1,d.127.1.1 95157,95158 1g8pA 350 1.94e+01 1g8pA c.37.1.20 60376 1qwnA 1045 1.96e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 2ajrA 331 2.00e+01 2d69A 430 2.00e+01 1yovA 537 2.01e+01 1dkqA 410 2.02e+01 1dklA c.60.1.2 33998 1c3hA 137 2.02e+01 b.22.1.1 90405 1x9iA 302 2.04e+01 1vj0A 380 2.04e+01 b.35.1.2,c.2.1.1 100786,100787 1i1rB 181 2.06e+01 1i1rB a.26.1.1 61548 1pt6A 213 2.06e+01 c.62.1.1 95091 2cwxA 430 2.08e+01 1g8iA 190 2.13e+01 1rec a.39.1.5 60363 1tx2A 297 2.13e+01 c.1.21.1 107420 1tzbA 302 2.15e+01 c.80.1.1 107470 1iq8A 582 2.19e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1w5fA 353 2.24e+01 1suwA 249 2.25e+01 e.52.1.1 106027 1s8fA 177 2.29e+01 c.37.1.8 105370 1rec 201 2.39e+01 1rec a.39.1.5 17326 1rifA 282 2.40e+01 c.37.1.23 97507 1ehyA 294 2.48e+01 1ehyA c.69.1.11 34693 8prn 289 2.49e+01 3prn f.4.3.1 43767 1ho1A 242 2.51e+01 1ho1A c.1.24.1 61097 1yqeA 282 2.52e+01 1t0hB 224 2.57e+01 c.37.1.1 106208 1prn 289 2.58e+01 3prn f.4.3.1 43762 1wmsA 177 2.61e+01 c.37.1.8 109414 1fnsA 196 2.64e+01 1auq c.62.1.1 34136 3prn 289 2.68e+01 3prn f.4.3.1 43761 1i9sA 210 2.70e+01 1i9sA c.45.1.1 62099 1omrA 201 2.74e+01 a.39.1.5 93349 2apjA 260 2.75e+01 1mp8A 281 2.79e+01 d.144.1.7 91384 1vj7A 393 2.80e+01 a.211.1.1,d.218.1.8 100801,100802 1pyfA 312 2.84e+01 c.1.7.1 95334 1x88A 359 2.85e+01 1uf2A 1019 2.88e+01 e.28.1.2 99289 1i1iP 681 2.88e+01 1i1iP d.92.1.5 40297 1rybA 212 2.89e+01 c.56.3.1 98098 1y3nA 490 2.99e+01 1dq3A 454 3.03e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1gjwA 637 3.04e+01 b.71.1.1,c.1.8.1 60582,60583 1e3aA 260 3.07e+01 1ajqA d.153.1.2 41838 2b2nA 344 3.16e+01 1v71A 323 3.17e+01 1hs6A 611 3.19e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1ec7A 446 3.20e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 2ng1 293 3.26e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1axn 323 3.28e+01 1avc a.65.1.1 18149 2ck3D 482 3.33e+01 1nh1A 330 3.33e+01 e.45.1.1 91871 1pl8A 356 3.33e+01 b.35.1.2,c.2.1.1 94878,94879 1f4pA 147 3.34e+01 5nul c.23.5.1 59651 1ijbA 202 3.35e+01 c.62.1.1 71229 1yz4A 160 3.41e+01 1fiy 883 3.41e+01 1fiy c.1.12.3 29307 2g5cA 281 3.42e+01 1jb9A 316 3.46e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1l2lA 457 3.54e+01 c.72.1.3 77656 1kz7A 353 3.54e+01 a.87.1.1,b.55.1.1 73333,73334 2c46A 241 3.56e+01 1m0wA 491 3.58e+01 c.30.1.4,d.142.1.6 78363,78364 1ez0A 510 3.58e+01 1eyyA c.82.1.1 35385 1kz1A 159 3.61e+01 c.16.1.1 73318 1ni9A 338 3.62e+01 e.7.1.2 85739 1wy1A 172 3.65e+01 1j27A 102 3.73e+01 d.58.50.1 90778 1zjcA 418 3.74e+01 1fcyA 236 3.76e+01 2lbd a.123.1.1 19282 1z47A 355 3.88e+01 1m5wA 243 3.93e+01 c.1.24.1 84836 1d5rA 324 3.97e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1j1iA 296 3.98e+01 c.69.1.10 83977 2b3hA 329 4.00e+01 1pu1A 94 4.02e+01 d.266.1.1 104307 1ptvA 321 4.03e+01 1pty c.45.1.2 32665 1kao 167 4.03e+01 1ctqA c.37.1.8 32014 1tikA 213 4.12e+01 c.23.5.3 107003 1g8fA 511 4.12e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1syyA 346 4.13e+01 a.25.1.2 106126 1wloA 136 4.13e+01 1vplA 256 4.13e+01 1lucB 324 4.14e+01 1lucA c.1.16.1 29548 1jqnA 883 4.15e+01 c.1.12.3 77159 1djxA 624 4.22e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 3daaA 277 4.27e+01 1daaA e.17.1.1 43272 1ckiA 317 4.27e+01 1csn d.144.1.7 41660 1ireB 228 4.28e+01 b.34.4.4 76770 1bh9B 89 4.28e+01 1bh9B a.22.1.3 16485 1ugpB 226 4.28e+01 b.34.4.4 107832 1h4lD 147 4.33e+01 a.74.1.1 70873 1ihcA 188 4.36e+01 1di6A c.57.1.1 62379 1xocA 520 4.38e+01 1u1iA 392 4.38e+01 c.2.1.3,d.81.1.3 107582,107583 2fh7A 595 4.39e+01 1cqxA 403 4.40e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1xaoA 121 4.41e+01 1pg4A 652 4.47e+01 e.23.1.1 88067 1aisB 200 4.51e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1n7kA 234 4.53e+01 c.1.10.1 85374 1g291 372 4.54e+01 1g291 1jljA 189 4.57e+01 c.57.1.1 63169 1dbiA 280 4.59e+01 1gci c.41.1.1 32543 1svdA 473 4.64e+01 1r5iD 216 4.71e+01 a.202.1.1 97091 2cybA 323 4.76e+01 1n91A 108 4.77e+01 d.206.1.1 80326 1hc7A 477 4.77e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1v5wA 343 4.80e+01 c.37.1.11 108387 1hbzA 498 4.83e+01 1cf9A e.5.1.1 60937 1ursA 402 4.89e+01 c.94.1.1 99833 1v73A 342 4.92e+01 1o4uA 285 4.94e+01 c.1.17.1,d.41.2.1 86624,86625 1lrzA 426 4.97e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1yub 245 5.00e+01 2ercA c.66.1.24 34219 1rvkA 382 5.01e+01 c.1.11.2,d.54.1.1 97928,97929 1djxB 624 5.02e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1pvtA 238 5.08e+01 c.74.1.1 95189 2bkkA 264 5.09e+01 1k3eA 156 5.12e+01 d.198.1.1 68103 1uanA 227 5.22e+01 c.134.1.1 99135 1dqaA 467 5.24e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1wf3A 301 5.25e+01 1xqoA 256 5.26e+01 1tidB 119 5.30e+01 c.13.2.1 107000 1ovlA 271 5.30e+01 a.123.1.1 87455 1ohtA 215 5.32e+01 d.118.1.1 87036 2gf9A 189 5.35e+01 1puiA 210 5.38e+01 c.37.1.8 88292 1wu7A 434 5.38e+01 2azpA 318 5.40e+01 1v7wA 807 5.47e+01 a.102.1.4,b.30.5.3 108411,108412 2ci1A 275 5.49e+01 1qqfA 277 5.56e+01 1c3d a.102.4.4 18875 1rz4A 226 5.59e+01 a.4.5.53,a.118.1.18 105131,105132 1vg8A 207 5.74e+01 c.37.1.8 108606 2bvfA 459 5.78e+01 1phk 298 5.80e+01 1cdkA d.144.1.7 41635 1j1uA 306 5.80e+01 c.26.1.1 83980 1zupA 315 5.97e+01 1vphA 149 5.97e+01 2bjkA 516 5.97e+01 1fsiA 189 6.05e+01 1fsiA d.61.1.1 39536 1jjtA 228 6.09e+01 1a7tA d.157.1.1 63139 1bob 320 6.10e+01 1bob d.108.1.1 40816 1ofuA 320 6.11e+01 c.32.1.1,d.79.2.1 86972,86973 1i4fA 275 6.13e+01 1agdA b.1.1.2,d.19.1.1 61687,61688 1dkuA 317 6.21e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1qkkA 155 6.24e+01 1dbwA c.23.1.1 31104 1r31A 428 6.29e+01 d.58.20.1,d.179.1.1 96897,96898 1ad1A 266 6.34e+01 1aj2 c.1.21.1 29668 1uiuA 502 6.36e+01 c.94.1.1 99434 1xmaA 145 6.37e+01 1ytvA 366 6.38e+01 1zlqA 502 6.40e+01 2arkA 188 6.42e+01 2cb2A 318 6.47e+01 3csuA 310 6.56e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1n6zA 105 6.58e+01 d.263.1.1 85369 1b1cA 181 6.58e+01 1amoA c.23.5.2 31212 1io2A 213 6.58e+01 1ekeA c.55.3.1 62612 1kutA 230 6.59e+01 d.143.1.1 73017 2f6hX 419 6.63e+01 1qo0D 196 6.68e+01 1qo0D c.23.1.3 31125 1wg8A 285 6.79e+01 1sviA 195 6.83e+01 c.37.1.8 106048 1to3A 304 6.86e+01 c.1.10.1 107161 2eueA 279 6.88e+01 1jysA 242 6.91e+01 c.56.2.1 77216 1b8aA 438 6.92e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1f3vA 179 6.94e+01 1f3vA d.58.22.1 39382 1txnA 328 6.95e+01 1z5oA 242 7.00e+01 1u0kA 288 7.00e+01 d.21.1.2,d.21.1.2 107547,107548 1q1gA 276 7.04e+01 c.56.2.1 95574 1gk9A 260 7.05e+01 d.153.1.2 65246 2av7A 275 7.07e+01 1jkeA 145 7.13e+01 c.110.1.1 66791 1uekA 275 7.15e+01 d.14.1.5,d.58.26.5 88483,88484 1ls1A 295 7.33e+01 a.24.13.1,c.37.1.10 78170,78171 1o54A 277 7.35e+01 c.66.1.13 92482 1m93C 41 7.37e+01 1o0sA 605 7.40e+01 c.2.1.7,c.58.1.3 86540,86541 2f71A 298 7.42e+01 1hynP 379 7.43e+01 1hynP d.112.1.2 61408 1gt91 357 7.43e+01 1yb2A 275 7.45e+01 1nnlA 225 7.51e+01 c.108.1.4 85906 1ur3M 319 7.55e+01 c.1.7.1 99806 1aonO 97 7.58e+01 b.35.1.1 24642 1bkb 136 7.60e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 2be4A 272 7.64e+01 2av1A 275 7.65e+01 1v2bA 177 7.66e+01 d.107.1.2 108279 1o7fA 469 7.66e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1wy2A 351 7.70e+01 1wcgA 464 7.73e+01 1jh6A 189 7.77e+01 d.61.1.1 66707 1vd2A 89 7.83e+01 d.15.2.2 108517 1nm2A 317 7.85e+01 c.19.1.1,d.58.23.1 80654,80655 1lkoA 191 7.89e+01 a.25.1.1,g.41.5.1 78063,78064 1pbwA 216 7.90e+01 1pbwA a.116.1.1 19103 2f2hA 773 7.94e+01 1amp 291 7.98e+01 1amp c.56.5.4 33837 2asbA 251 8.03e+01 1o70A 324 8.03e+01 b.118.1.1,b.118.1.1 81115,81116 1d3yA 301 8.04e+01 1d3yA e.12.1.1 43252 1gk8A 475 8.15e+01 c.1.14.1,d.58.9.1 65234,65235 1z5nA 242 8.16e+01 1k1xA 659 8.19e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1dp4A 435 8.20e+01 1dp4A c.93.1.1 35710 2a0fA 310 8.21e+01 1n0wA 243 8.24e+01 c.37.1.11 79772 1g8kA 825 8.24e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1t1gA 364 8.25e+01 c.41.1.2 106246 1oahA 519 8.25e+01 a.138.1.3 86736 1x3sA 195 8.26e+01 1lokA 291 8.27e+01 c.56.5.4 78122 1n46A 258 8.30e+01 a.123.1.1 85315 1s3jA 155 8.32e+01 a.4.5.28 98437 1v7pC 200 8.33e+01 c.62.1.1 108408 1laxA 370 8.35e+01 c.94.1.1 84576 1hy7A 173 8.44e+01 d.92.1.11 65957 1vcoA 550 8.48e+01 c.23.16.1,c.37.1.10 108508,108509 1hqz1 141 8.50e+01 1uzbA 516 8.57e+01 c.82.1.1 100220 1g7fA 298 8.65e+01 1pty c.45.1.2 60330 1owcA 427 8.65e+01 a.103.1.1 104039 1e79G 272 8.66e+01 1e79G c.49.2.1 33158 1pn0A 665 8.75e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1dkmA 410 8.78e+01 1dklA c.60.1.2 34000 1iso 416 8.78e+01 1iso c.77.1.1 35065 1j8mF 297 8.85e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1k0rA 366 8.88e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 67961,67962,67963,67964 1yh1A 359 8.91e+01 1v1dA 31 8.98e+01