# 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.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 1v4aA 440 8.92e-02 a.24.16.4,d.218.1.9 108350,108351 1n97A 389 3.85e-01 a.104.1.1 80335 2bb6A 414 4.13e-01 1bjt 793 4.45e-01 1bjt 1bjtA 793 4.45e-01 e.11.1.1 43249 2hi4A 495 8.11e-01 2veqA 565 1.79e+00 2d1lA 253 2.00e+00 1pfvA 551 2.01e+00 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1f4lA 551 2.02e+00 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 2rfqA 394 2.08e+00 1ps1A 337 2.83e+00 1ps1A a.128.1.4 19450 3bqoA 211 3.25e+00 1keyA 235 3.65e+00 a.118.16.1 72389 2o9gA 234 3.83e+00 2pg0A 385 3.99e+00 2quqA 562 4.05e+00 2aelA 374 4.79e+00 2bnxA 386 5.16e+00 a.118.1.23 128861 1wwmA 190 5.17e+00 a.132.1.3 121363 1kiyA 374 5.21e+00 a.128.1.5 72555 1yyqA 374 5.22e+00 2va8A 715 5.28e+00 1krqA 167 5.36e+00 a.25.1.1 68855 2ps5A 374 5.44e+00 2f6hX 419 5.63e+00 1za0A 275 5.71e+00 a.25.1.2 124774 1d8cA 723 5.96e+00 1d8cA c.1.13.1 29325 1z2cB 383 6.37e+00 a.118.1.23 124377 2g3bA 208 6.59e+00 a.4.1.9,a.121.1.1 134558,134559 2p6vA 114 7.42e+00 1unlD 208 7.49e+00 a.74.1.1 113326 1t2bA 397 7.53e+00 1v2aA 210 7.89e+00 a.45.1.1,c.47.1.5 100263,100264 1k0iA 394 7.90e+00 c.3.1.2,d.16.1.2 67942,67943 2uxwA 607 7.99e+00 2e1dA 331 8.10e+00 1mxrA 375 8.11e+00 a.25.1.2 85197 3bxjA 507 8.36e+00 3biqA 467 8.38e+00 2qeeA 437 8.49e+00 1xikA 375 8.52e+00 1xikA a.25.1.2 16784 2pnkA 428 8.65e+00 1ykjA 394 8.73e+00 1qmgA 524 8.98e+00 1qmgA a.100.1.2,c.2.1.6 18785,30182 1ovlA 271 1.04e+01 a.123.1.1 87455 1tqyA 424 1.05e+01 c.95.1.1,c.95.1.1 107245,107246 3bdzA 397 1.07e+01 3b96A 587 1.09e+01 2o57A 297 1.09e+01 1qgrA 876 1.12e+01 1qgrA a.118.1.1 19119 1iw0A 215 1.12e+01 a.132.1.1 83720 1uedA 406 1.12e+01 a.104.1.1 99256 1pbe 394 1.12e+01 1pbe 1pbeA 394 1.12e+01 c.3.1.2,d.16.1.2 30338,37869 1wzdA 215 1.16e+01 a.132.1.1 121493 1p7tA 731 1.16e+01 c.1.13.1 94319 1r0dA 206 1.23e+01 a.216.1.1 104715 1alu 186 1.28e+01 1alu 1aluA 186 1.28e+01 a.26.1.1 16826 1guxA 218 1.32e+01 1guxA a.74.1.3 18388 1toaA 313 1.39e+01 1toaA c.92.2.2 35598 1txdA 385 1.40e+01 a.87.1.1,b.55.1.1 107422,107423 2hzlA 365 1.41e+01 3caxA 369 1.45e+01 2aplA 157 1.46e+01 a.258.1.1 127132 2p14A 192 1.48e+01 3ce9A 354 1.50e+01 2ax8A 256 1.50e+01 2px6A 316 1.51e+01 3bg2A 444 1.52e+01 2qwtA 196 1.54e+01 2dfkA 402 1.55e+01 1x7yA 400 1.60e+01 c.36.1.11 114944 1zc6A 305 1.61e+01 c.55.1.5,c.55.1.5 124888,124889 1pu6A 218 1.61e+01 a.96.1.5 95123 1v1rA 400 1.64e+01 c.36.1.11 108272 3boqA 160 1.67e+01 2fm9A 215 1.68e+01 a.257.1.1 133770 1epwA 1290 1.70e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 2occA 514 1.70e+01 2occA f.24.1.1 43518 2rdzA 452 1.78e+01 1cpcA 162 1.79e+01 1cpcA a.1.1.3 15643 2hnhA 910 1.79e+01 1vkeA 133 1.86e+01 a.152.1.2 108650 1ib2A 349 1.87e+01 1ib2A a.118.1.8 62141 1hn0A 1021 1.89e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1zroA 602 1.90e+01 a.264.1.1,a.264.1.1 125551,125552 1i4aA 318 1.97e+01 1avc a.65.1.1 61681 1v54A 514 1.98e+01 f.24.1.1 100321 2dvmA 439 2.02e+01 1nrlA 316 2.03e+01 a.123.1.1 92091 1tbfA 347 2.06e+01 a.211.1.2 106743 1rqjA 299 2.07e+01 a.128.1.1 97744 1sxjA 511 2.08e+01 a.80.1.1,c.37.1.20 106081,106082 1m4rA 151 2.09e+01 a.26.1.3 84799 3b6hA 498 2.11e+01 2jdiA 510 2.13e+01 1nekA 588 2.14e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 2ax9A 256 2.20e+01 a.123.1.1 127481 2iagA 482 2.21e+01 2c2jA 211 2.26e+01 1z3iX 644 2.27e+01 c.37.1.19,c.37.1.19 124406,124407 1zbsA 291 2.31e+01 c.55.1.5,c.55.1.5 124870,124871 2ivsA 314 2.32e+01 2qf9A 179 2.32e+01 2qeuA 141 2.33e+01 1a8rA 221 2.34e+01 1a8rA d.96.1.1 40587 1y76A 62 2.35e+01 a.194.1.1 122683 2awpA 198 2.38e+01 1nktA 922 2.40e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 85830,85831,85832,85833 2or0A 414 2.42e+01 1kxpD 458 2.45e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 2pftA 571 2.45e+01 1furA 467 2.46e+01 1furA a.127.1.1 19403 2pbxA 203 2.51e+01 1h6gA 256 2.51e+01 1h6gA a.24.9.1,a.24.9.1 60669,60670 2nybA 192 2.52e+01 a.2.11.1,d.44.1.1 138804,138805 2csbA 519 2.52e+01 a.60.2.4,a.60.2.4,a.60.2.4,a.60.2.4,a.267.1.1 130751,130752,130753,130754,130755 1xwl 580 2.54e+01 1xwl 1ash 150 2.56e+01 1ash 1ashA 150 2.56e+01 a.1.1.2 15622 2gruA 368 2.58e+01 1z21A 112 2.59e+01 a.243.1.2 124367 1s0pA 176 2.61e+01 a.192.1.1 98300 1y3nA 490 2.61e+01 c.94.1.1 122597 1u4bA 580 2.64e+01 c.55.3.5,e.8.1.1 107664,107665 1lkoA 191 2.68e+01 a.25.1.1,g.41.5.1 78063,78064 1wkbA 810 2.71e+01 1rtwA 220 2.71e+01 a.132.1.3 97823 1r03A 182 2.71e+01 a.25.1.1 104675 1n46A 258 2.79e+01 a.123.1.1 85315 1kblA 873 2.86e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1jsdB 176 2.87e+01 h.3.1.1 63259 2d5bA 500 2.88e+01 a.27.1.1,c.26.1.1 131268,131269 1jf9A 408 2.90e+01 1c0nA c.67.1.3 62931 2p2wA 367 2.94e+01 1csh 435 2.97e+01 1csh 1cshA 435 2.97e+01 a.103.1.1 18880 1cpt 412 2.98e+01 1cpt 2gojA 197 3.00e+01 2aqjA 538 3.03e+01 1z8oA 404 3.06e+01 a.104.1.1 124722 1i5pA 633 3.06e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1u46A 291 3.06e+01 d.144.1.7 107656 1l3sA 580 3.07e+01 c.55.3.5,e.8.1.1 84521,84522 1h3nA 878 3.09e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1k0fA 277 3.10e+01 c.92.2.2 71974 2r6gG 296 3.11e+01 2h79A 269 3.12e+01 1musA 477 3.14e+01 c.55.3.4 79494 2h88A 621 3.17e+01 1q8cA 151 3.17e+01 a.79.1.2 96202 1alvA 173 3.21e+01 1alvA a.39.1.8 17370 2v0cA 878 3.21e+01 1qusA 322 3.23e+01 1ltm d.2.1.6 36991 2c5uA 375 3.23e+01 2idoB 83 3.27e+01 a.237.1.1 137285 1h8eA 510 3.28e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1uyrA 737 3.28e+01 c.14.1.4,c.14.1.4 100188,100189 1nk4A 580 3.31e+01 c.55.3.5,e.8.1.1 91923,91924 2j1oA 268 3.32e+01 2qzcA 214 3.34e+01 1ybhA 590 3.36e+01 c.31.1.3,c.36.1.5,c.36.1.9 122891,122892,122893 2np5A 203 3.37e+01 a.4.1.9,a.121.1.1 138424,138425 1ki1B 352 3.44e+01 a.87.1.1,b.55.1.1 72497,72498 1cptA 428 3.44e+01 a.104.1.1 18968 1fcyA 236 3.47e+01 2lbd a.123.1.1 19282 2b0tA 738 3.47e+01 2fug1 438 3.50e+01 1aorA 605 3.52e+01 1b25A a.110.1.1,d.152.1.1 19042,41794 2dkhA 639 3.54e+01 1a8h 500 3.54e+01 1a8h 1vpdA 299 3.58e+01 a.100.1.1,c.2.1.6 113951,113952 1siqA 392 3.58e+01 a.29.3.1,e.6.1.1 105585,105586 1wr2A 238 3.62e+01 1r1hA 696 3.67e+01 d.92.1.4 104756 3d2fA 675 3.67e+01 1ymtA 246 3.75e+01 1n35A 1267 3.79e+01 e.8.1.4 79935 2dwkA 180 3.85e+01 1sw6A 327 3.87e+01 1sw6A d.211.1.1 19176 2a19B 284 3.89e+01 1b71A 191 3.90e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 2hhvA 580 3.93e+01 c.55.3.5,e.8.1.1 136514,136515 3bg1B 442 3.94e+01 1kfuL 699 3.96e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1oj7A 408 3.97e+01 e.22.1.2 103971 1jk0B 345 3.97e+01 a.25.1.2 63143 1zejA 293 4.00e+01 2i0mA 216 4.05e+01 2etdA 171 4.07e+01 a.29.9.1 132353 2ivnA 330 4.08e+01 1txnA 328 4.12e+01 d.248.1.1 112779 3b5nA 61 4.12e+01 2grmA 317 4.17e+01 1sig 339 4.26e+01 1sig 1sigA 339 4.26e+01 a.177.1.1 19068 2i5uA 83 4.28e+01 2qizA 982 4.28e+01 1kmkA 406 4.28e+01 c.67.1.3 68696 1iqqA 200 4.30e+01 d.124.1.1 66274 2rfpA 171 4.36e+01 1xx7A 184 4.39e+01 a.211.1.1 116143 1jgjA 217 4.43e+01 1c3wA f.13.1.1 62952 2pziA 681 4.46e+01 2a9kB 223 4.47e+01 d.166.1.1 126443 3c1jA 424 4.50e+01 2gb7A 305 4.52e+01 1ihgA 370 4.55e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 2q9rA 200 4.59e+01 2gm6A 208 4.59e+01 1noyA 388 4.60e+01 1clqA c.55.3.5 33713 1ryt 190 4.62e+01 1ryt 2ijmA 281 4.63e+01 2f31A 233 4.65e+01 1jipA 403 4.66e+01 a.104.1.1 66748 2b7aA 293 4.70e+01 2f2bA 246 4.71e+01 1k04A 162 4.73e+01 a.24.14.1 67904 2rccA 346 4.74e+01 1x4tA 92 4.77e+01 a.2.15.1 121698 1jfbA 404 4.90e+01 a.104.1.1 66624 2qqyA 149 4.90e+01 2rfbA 343 4.97e+01 1smbA 154 4.98e+01 d.111.1.1 105756 1h2sA 225 4.99e+01 f.13.1.1 76578 2ouwA 138 5.02e+01 1axn 323 5.02e+01 1avc 1axnA 323 5.02e+01 a.65.1.1 18149 1yoyA 175 5.05e+01 a.211.1.1 123795 2v0pA 234 5.09e+01 1g9gA 629 5.14e+01 a.102.1.2 83279 1t7rA 269 5.24e+01 a.123.1.1 106635 2on5A 206 5.32e+01 2a65A 519 5.34e+01 1oi4A 193 5.36e+01 c.23.16.2 87047 1ajsA 412 5.38e+01 1ajsA c.67.1.1 34276 1l7mA 211 5.43e+01 c.108.1.4 73664 1rp3A 239 5.45e+01 a.4.13.1,a.4.13.2,a.177.1.1 97678,97679,97680 2vqeT 106 5.46e+01 1j97A 211 5.47e+01 1f5sA c.108.1.4 62753 1w2xA 758 5.47e+01 c.14.1.4,c.14.1.4 109134,109135 1sedA 117 5.47e+01 a.219.1.1 105449 3c5rA 137 5.56e+01 2bfdA 400 5.57e+01 1uw4B 248 5.62e+01 a.118.1.14 100072 2uubT 106 5.64e+01 a.7.6.1 139951 2di4A 238 5.65e+01 a.269.1.1 131522 3c8tA 451 5.68e+01 1ee8A 266 5.73e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1gwiA 411 5.75e+01 a.104.1.1 76364 2awiA 317 5.77e+01 a.35.1.11,a.118.8.4 127435,127436 2h1rA 299 5.81e+01 1kgnA 329 5.81e+01 a.25.1.2 68584 1q2zA 120 5.83e+01 a.118.19.1 95656 2b05A 246 5.85e+01 1i5nA 146 5.85e+01 1i5nA a.24.10.3 61805 2pbeA 294 5.89e+01 1j1jA 240 5.90e+01 a.118.16.1 90762 1fc4A 401 5.97e+01 1bs0A c.67.1.4 59760 1jhgA 101 5.98e+01 1jhgA a.4.12.1 19009 1rw2A 152 6.00e+01 a.118.19.1 97961 1izoA 417 6.05e+01 a.104.1.1 83851 2fztA 79 6.07e+01 a.46.3.1 134476 1eg5A 384 6.08e+01 1ecxA c.67.1.3 34429 2yv9A 291 6.09e+01 1mp8A 281 6.09e+01 d.144.1.7 91384 1fgkA 310 6.10e+01 1fgkA d.144.1.7 41693 1wovA 250 6.17e+01 a.132.1.1 121124 2vhxA 377 6.21e+01 1souA 194 6.23e+01 c.124.1.6 105858 2ev1A 222 6.30e+01 2zcoA 293 6.34e+01 1ffyA 917 6.36e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 2fiyA 309 6.37e+01 e.59.1.1 133540 2dlaA 222 6.38e+01 1q52A 314 6.40e+01 c.14.1.3 95846 2genA 197 6.42e+01 a.4.1.9,a.121.1.1 135062,135063 2v7kA 361 6.46e+01 2itbA 206 6.49e+01 1iscA 192 6.51e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1kktA 511 6.51e+01 a.102.2.1 68687 1faeA 629 6.51e+01 1fce a.102.1.2 18837 1lw3A 657 6.52e+01 b.55.1.8,c.45.1.3 91152,91153 1zsqA 528 6.55e+01 b.55.1.8,c.45.1.3 125616,125617 1ifi 50 6.56e+01 1ifi 2ifuA 307 6.61e+01 1uf2A 1019 6.62e+01 e.28.1.2 99289 2rekA 199 6.62e+01 2jbrA 422 6.64e+01 1jboA 162 6.69e+01 a.1.1.3 84150 2hnlA 225 6.72e+01 2olpA 152 6.81e+01 1k1aA 241 6.82e+01 d.211.1.1 67992 3bcgA 215 6.84e+01 2fuvA 549 6.84e+01 2dqsA 995 6.90e+01 2c0wA 50 6.95e+01 1g4yB 101 6.96e+01 1g4yB f.15.1.1 60251 2fj6A 82 6.99e+01 a.60.15.1 133547 2r6aC 143 7.00e+01 2eb2A 334 7.02e+01 2f2gA 221 7.10e+01 a.132.1.3 132816 1wolA 122 7.11e+01 1maz 221 7.25e+01 1maz 1lldA 319 7.34e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 2qxlA 658 7.37e+01 1nh1A 330 7.41e+01 e.45.1.1 91871 1b4pA 217 7.45e+01 a.45.1.1,c.47.1.5 83158,83159 1w99A 558 7.45e+01 1a8i 842 7.55e+01 1a8i 1f24A 402 7.56e+01 1rom a.104.1.1 18953 1s1fA 406 7.60e+01 a.104.1.1 112008 1vquA 374 7.62e+01 2ts1 419 7.62e+01 2ts1 1vz0A 230 7.65e+01 a.4.14.1,d.268.1.1 108929,108930 1sdiA 213 7.69e+01 a.198.1.1 105437 3bpvA 138 7.73e+01 1yiqA 689 7.76e+01 2p0tA 176 7.78e+01 2ax6A 256 7.78e+01 a.123.1.1 127479 2gpcA 194 7.80e+01 2iqtA 296 7.81e+01 4cpvA 108 7.83e+01 a.39.1.4 17198 2reiA 318 7.85e+01 1kxu 333 7.92e+01 1jkw 1kxuA 333 7.92e+01 a.74.1.1,a.74.1.1 18358,18359 2i5nL 273 7.93e+01 f.26.1.1 137066 1yqgA 263 7.94e+01 2iaiA 230 7.97e+01 2ehhA 294 7.97e+01 1wpgA 994 7.98e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 114806,114807,114808,114809 2g5cA 281 8.00e+01 a.100.1.12,c.2.1.6 134646,134647