# List of top-scoring protein chains for t06-100-30-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 2cchB 260 2.91e-36 1w98B 283 4.79e-30 1f5qB 252 5.51e-19 1f5qB a.74.1.1,a.74.1.1 18362,18363 1aisB 200 6.02e-19 1aisB a.74.1.2,a.74.1.2 18384,18385 1ve1A 304 1.21e-01 1xjjA 644 1.43e-01 1g5hA 454 1.55e-01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1unlD 208 1.75e-01 1wbeA 209 1.82e-01 1vmeA 410 2.08e-01 c.23.5.1,d.157.1.3 108893,108894 1r29A 127 2.70e-01 d.42.1.1 96856 1tn6A 382 2.83e-01 1swxA 209 4.91e-01 a.224.1.1 106075 1pzgA 331 5.69e-01 c.2.1.5,d.162.1.1 95425,95426 2f1kA 279 5.82e-01 1gpjA 404 6.37e-01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1t2dA 322 6.66e-01 c.2.1.5,d.162.1.1 99084,99085 1xfhA 422 7.56e-01 1jboB 172 8.14e-01 a.1.1.3 84151 2fiyA 309 9.85e-01 1nh1A 330 1.06e+00 e.45.1.1 91871 1x7yA 400 1.09e+00 1r0dA 206 1.09e+00 a.216.1.1 104715 1qo7A 394 1.15e+00 1qo7A c.69.1.11 34697 1t95A 240 1.15e+00 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1c3pA 375 1.31e+00 1c3pA c.42.1.2 32606 1sv0C 82 1.49e+00 a.60.1.1 106037 1hyeA 313 1.61e+00 2cmd c.2.1.5,d.162.1.1 61400,61401 1up7A 417 1.79e+00 1yrcA 414 2.00e+00 1n97A 389 2.03e+00 a.104.1.1 80335 1w77A 228 2.12e+00 1w5tA 412 2.13e+00 1cpcB 172 2.44e+00 1qgwC a.1.1.3 15644 1rtwA 220 2.68e+00 a.132.1.3 97823 1lqaA 346 2.71e+00 c.1.7.1 84674 1ymiA 334 2.82e+00 1ppjC 379 2.82e+00 f.32.1.1,f.21.1.2 104256,104257 1wkbA 810 2.82e+00 1qqfA 277 3.35e+00 1c3d a.102.4.4 18875 1wiwA 290 3.54e+00 1n40A 396 3.82e+00 a.104.1.1 79977 1wyzA 242 4.09e+00 1x0rA 249 4.09e+00 1ks9A 291 4.31e+00 a.100.1.7,c.2.1.6 68857,68858 1g8sA 230 4.54e+00 c.66.1.3 90507 1o69A 394 4.57e+00 c.67.1.4 92560 1l2tA 235 4.60e+00 c.37.1.12 73514 1uzmA 247 4.74e+00 1obbA 480 4.78e+00 c.2.1.5,d.162.1.2 86760,86761 2cy7A 396 4.84e+00 1ww8A 439 4.89e+00 1wmgA 103 5.11e+00 1qbzA 123 5.11e+00 1qbzA h.3.2.1 45729 1q15A 503 5.20e+00 c.26.2.1,d.153.1.1 95538,95539 1td6A 306 5.40e+00 1uanA 227 5.45e+00 c.134.1.1 99135 1wa5C 960 5.45e+00 1wljA 189 5.61e+00 1s2xA 206 5.74e+00 a.47.3.1 105229 1m6sA 347 6.21e+00 c.67.1.1 78701 1ksoA 101 6.25e+00 a.39.1.2 72926 1n93X 375 6.45e+00 a.206.1.1 91707 2cbiA 594 6.58e+00 1o58A 303 6.58e+00 c.79.1.1 92491 1vqrA 297 6.71e+00 1womA 271 6.83e+00 2aheA 267 6.88e+00 2bfdA 400 7.15e+00 1khdA 345 7.45e+00 a.46.2.1,c.27.1.1 77400,77401 2ex3B 264 7.61e+00 1mwmA 320 7.64e+00 c.55.1.1,c.55.1.1 79580,79581 1fmjA 351 7.88e+00 c.37.1.5 59879 2bsjA 133 8.26e+00 2cwcA 303 8.70e+00 2csbA 519 8.92e+00 1wovA 250 8.94e+00 1qoyA 318 8.96e+00 1qoyA h.4.4.1 45788 1kjnA 157 8.96e+00 c.115.1.1 72614 1jftA 340 9.02e+00 a.35.1.5,c.93.1.1 66652,66653 1v71A 323 9.36e+00 1zuwA 272 9.51e+00 1khbA 625 9.56e+00 c.91.1.1,c.109.1.1 68606,68607 1om4A 422 9.57e+00 d.174.1.1 87067 1zz1A 369 9.63e+00 1u04A 771 9.64e+00 b.34.14.1,c.55.3.10 107539,107540 1j1jA 240 9.68e+00 a.118.16.1 90762 1eiwA 111 1.02e+01 1eiwA c.23.3.1 31130 1vpdA 299 1.03e+01 1wleA 501 1.05e+01 1yf2A 425 1.06e+01 1ouoA 210 1.10e+01 d.4.1.6 93554 1bu6O 501 1.17e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1r9lA 309 1.18e+01 c.94.1.1 97262 1ars 396 1.19e+01 1ajsA c.67.1.1 34287 1rypH 205 1.21e+01 d.153.1.4 41876 1zkeA 83 1.23e+01 1jdhA 529 1.25e+01 a.118.1.1 66549 1vrtA 560 1.25e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1rzhL 281 1.26e+01 f.26.1.1 98164 1hlvA 131 1.28e+01 a.4.1.7,a.4.1.7 65854,65855 1rcwA 231 1.31e+01 a.132.1.4 97299 1oz9A 150 1.33e+01 d.92.1.15 93808 1vflA 356 1.36e+01 1u6zA 513 1.37e+01 1whsA 255 1.41e+01 1ivyA c.69.1.5 34649 1f0nA 285 1.42e+01 1dqyA c.69.1.3 34636 1gwiA 411 1.44e+01 a.104.1.1 76364 2f5gA 133 1.47e+01 2aebA 322 1.49e+01 1hs6A 611 1.51e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1nlfA 279 1.52e+01 c.37.1.11 85850 1uzxA 169 1.54e+01 d.20.1.2 100238 1j34B 123 1.54e+01 d.169.1.1 84049 1s6cA 183 1.56e+01 a.39.1.5 98594 1u4bA 580 1.59e+01 c.55.3.5,e.8.1.1 107664,107665 1xahA 354 1.60e+01 1xl7A 612 1.60e+01 1m5wA 243 1.63e+01 c.1.24.1 84836 2g3bA 208 1.66e+01 1eexG 173 1.66e+01 1dioG a.23.2.1 16490 1n1cA 217 1.67e+01 a.184.1.1 85254 1aj8A 371 1.70e+01 1aj8A a.103.1.1 18900 1yzxA 226 1.70e+01 1zsqA 528 1.72e+01 1i2sA 282 1.72e+01 e.3.1.1 71104 1tedA 393 1.75e+01 c.95.1.2 106807 1tx2A 297 1.76e+01 c.1.21.1 107420 1uruA 244 1.77e+01 h.4.14.1 99835 1y8qA 346 1.79e+01 1ukkA 142 1.80e+01 d.227.1.1 99491 2bkkA 264 1.83e+01 1h2wA 710 1.85e+01 b.69.7.1,c.69.1.4 76596,76597 1dj7A 117 1.85e+01 1dj7A g.36.1.1 44997 2bgkA 278 1.88e+01 2fk8A 318 1.89e+01 1ulyA 192 1.90e+01 1uuyA 167 1.90e+01 c.57.1.1 108059 1rt8A 513 1.93e+01 a.40.1.1 105095 1r88A 280 1.99e+01 c.69.1.3 97219 1vb3A 428 2.00e+01 1mpgA 282 2.03e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1gs5A 258 2.04e+01 c.73.1.2 70395 1pprM 312 2.08e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1x9mA 698 2.16e+01 1oqcA 125 2.19e+01 a.24.15.1 87264 1j5xA 342 2.20e+01 c.80.1.1 71591 2c3nA 247 2.22e+01 2bhoA 130 2.26e+01 1fiqB 350 2.34e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 1rktA 205 2.34e+01 a.4.1.9,a.121.1.1 97623,97624 1kb9B 352 2.34e+01 d.185.1.1,d.185.1.1 77313,77314 1zk4A 251 2.36e+01 1j0hA 588 2.44e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1u4nA 310 2.44e+01 2f5tX 233 2.55e+01 2cxcA 144 2.56e+01 1o6yA 299 2.59e+01 d.144.1.7 81106 1dzlA 505 2.60e+01 1dzlA b.121.6.1 23586 1r8sE 203 2.60e+01 a.118.3.1 97248 1a7w 69 2.60e+01 1a7w a.22.1.2 16477 1or4A 178 2.60e+01 a.1.1.2 93447 1l5oA 356 2.61e+01 c.39.1.1 77711 1p5zB 263 2.63e+01 c.37.1.1 87815 1vhnA 318 2.63e+01 c.1.4.1 100693 1f8mA 429 2.63e+01 1dquA c.1.12.7 29315 2fbhA 146 2.65e+01 1pz1A 333 2.65e+01 c.1.7.1 95390 1idrA 136 2.66e+01 1dlyA a.1.1.1 62301 1kshA 186 2.67e+01 c.37.1.8 72914 1jdlA 121 2.67e+01 a.3.1.1 66557 1b0b 142 2.73e+01 2fal a.1.1.2 15010 2d4rA 147 2.73e+01 1iqvA 218 2.73e+01 1rss a.75.1.1 62661 1h6kA 757 2.73e+01 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 2f5uA 447 2.75e+01 1wusA 180 2.76e+01 1a8rA 221 2.76e+01 1a8rA d.96.1.1 40587 1ummA 172 2.79e+01 a.3.1.1 107958 1y13A 181 2.82e+01 2c8sA 172 2.86e+01 1yt3A 375 2.89e+01 2fb5A 205 2.92e+01 1o7qA 289 2.96e+01 c.68.1.9 92626 1u19A 349 3.04e+01 1dqzA 280 3.11e+01 1dqyA c.69.1.3 34638 1n1bA 549 3.12e+01 a.102.4.1,a.128.1.3 79799,79800 1gpeA 587 3.13e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1bob 320 3.17e+01 1bob d.108.1.1 40816 1yixA 265 3.19e+01 1ekeA 230 3.21e+01 1ekeA c.55.3.1 33572 1ohuA 175 3.22e+01 f.1.4.1 93029 1jtvA 327 3.23e+01 c.2.1.2 84230 1u1iA 392 3.24e+01 c.2.1.3,d.81.1.3 107582,107583 2fulA 178 3.25e+01 1wkvA 389 3.33e+01 2dp5A 332 3.36e+01 1za0A 275 3.37e+01 1oaoA 674 3.38e+01 e.26.1.2 86744 1z1zA 131 3.45e+01 1r12A 258 3.47e+01 e.4.1.1 96780 1guxB 152 3.47e+01 1guxB a.74.1.3 18389 2dfkA 402 3.47e+01 1ykjA 394 3.49e+01 1t4nA 94 3.50e+01 d.50.1.1 106424 2c5uA 375 3.56e+01 1zghA 260 3.56e+01 1zd3A 555 3.58e+01 1reqB 637 3.59e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1rypF 233 3.63e+01 1rypF d.153.1.4 41937 1zsxA 347 3.67e+01 1sziA 247 3.69e+01 a.24.23.1 106159 1j6oA 268 3.72e+01 c.1.9.12 77088 2fnoA 248 3.74e+01 1quuA 250 3.75e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1nu7D 282 3.76e+01 a.8.6.1,a.8.6.1 92191,92192 1q52A 314 3.77e+01 c.14.1.3 95846 1jflA 228 3.82e+01 c.78.2.1,c.78.2.1 71656,71657 1iomA 377 3.84e+01 a.103.1.1 83698 1w7lA 422 3.86e+01 c.67.1.1 109226 1ajsA 412 3.86e+01 1ajsA c.67.1.1 34276 1ihuA 589 3.87e+01 c.37.1.10,c.37.1.10 62394,62395 1qh5A 260 3.88e+01 1qh5A d.157.1.2 42057 1d2nA 272 3.91e+01 1d2nA c.37.1.20 32428 2ezk 99 3.95e+01 2ezk a.4.1.2 16027 1evyA 366 3.99e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1v93A 296 4.00e+01 c.1.23.1 100532 1xppA 115 4.01e+01 1ls1A 295 4.01e+01 a.24.13.1,c.37.1.10 78170,78171 1dk0A 188 4.02e+01 1b2vA d.35.1.1 38530 2a19A 175 4.03e+01 1jq5A 370 4.05e+01 e.22.1.2 67084 1h3oB 76 4.06e+01 a.22.1.3 76645 1cnzA 363 4.07e+01 1cnzA c.77.1.1 35061 2gx9A 129 4.08e+01 1m48A 133 4.10e+01 a.26.1.2 74443 1zzmA 259 4.16e+01 2fjbA 643 4.16e+01 2gkpA 167 4.21e+01 1h97A 147 4.21e+01 1h97A a.1.1.2 60812 1chuA 540 4.27e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1xkyA 301 4.28e+01 1ywfA 296 4.33e+01 2bg5A 324 4.38e+01 2d5cA 263 4.38e+01 1qusA 322 4.41e+01 1ltm d.2.1.6 36991 1wyuB 474 4.44e+01 1e8gA 560 4.45e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1tkeA 224 4.46e+01 2fmlA 273 4.46e+01 1z0xA 220 4.48e+01 1jnrA 643 4.53e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 2bjvA 265 4.54e+01 1tr0A 108 4.60e+01 d.58.4.4 107261 1yisA 478 4.61e+01 1exbA 332 4.62e+01 1qrqA c.1.7.1 28666 1pme 380 4.66e+01 1hcl d.144.1.7 41653 1xxaA 78 4.68e+01 1xxaA d.74.2.1 39700 1eqfA 280 4.71e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1n83A 270 4.81e+01 a.123.1.1 80276 1pvtA 238 4.82e+01 c.74.1.1 95189 1d9cA 121 4.84e+01 1d9cA a.26.1.3 16901 1sumB 235 4.84e+01 a.7.12.1 106025 1je8A 82 4.86e+01 a.4.6.2 77108 1zgyA 272 4.87e+01 1qhtA 775 4.89e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1jb0A 755 4.90e+01 1jb0A f.29.1.1 62820 2bl8A 103 4.99e+01 1owxA 121 4.99e+01 d.58.7.1 87494 1r59O 505 5.00e+01 1w7jA 795 5.01e+01 1r5lA 262 5.03e+01 a.5.3.1,c.13.1.1 97099,97100 1z9hA 290 5.08e+01 1ls9A 91 5.10e+01 a.3.1.1 78177 1dqaA 467 5.13e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1keaA 221 5.20e+01 a.96.1.2 68491 1wolA 122 5.25e+01 1r8mE 203 5.25e+01 a.118.3.1 97242 1i3cA 149 5.29e+01 c.23.1.1 71112 1o4wA 147 5.33e+01 c.120.1.1 86629 1jh6A 189 5.35e+01 d.61.1.1 66707 1zejA 293 5.37e+01 1j0dA 341 5.37e+01 c.79.1.1 83902 1k04A 162 5.41e+01 a.24.14.1 67904 1wvqA 167 5.46e+01 1ujnA 348 5.47e+01 e.22.1.1 99460 2b67A 204 5.52e+01 1h8eA 510 5.52e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1lvwA 295 5.62e+01 c.68.1.6 84723 1u6rA 380 5.62e+01 1mjfA 281 5.65e+01 c.66.1.17 79198 1hywA 68 5.68e+01 1hywA d.186.1.1 61425 1woqA 267 5.70e+01 c.55.1.10,c.55.1.10 109462,109463 1y9iA 178 5.78e+01 1vr5A 547 5.79e+01 1pp0A 199 5.79e+01 d.103.1.1 104211 1p7tA 731 5.88e+01 c.1.13.1 94319 1b43A 340 5.93e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 2vhbA 146 5.98e+01 2vhbA a.1.1.2 15629 1o4sA 389 6.02e+01 c.67.1.1 86620 1y14A 187 6.02e+01 1orvA 728 6.05e+01 b.70.3.1,c.69.1.24 87354,87355 1umqA 81 6.07e+01 a.4.1.12 99625 1vkmA 297 6.08e+01 c.138.1.1 108670 1tu7A 208 6.08e+01 2f2mA 113 6.14e+01 1ufbA 127 6.14e+01 a.24.16.3 99331 2exrA 524 6.14e+01 1wb9A 800 6.27e+01 1uyrA 737 6.28e+01 c.14.1.4,c.14.1.4 100188,100189 1qgoA 264 6.32e+01 1qgoA c.92.1.2 35596 1j5wA 298 6.35e+01 d.104.1.1 71589 1vljA 407 6.38e+01 e.22.1.2 108832 1bkjA 240 6.42e+01 1bkjA d.90.1.1 40243 2fdrA 229 6.52e+01 1pfvA 551 6.61e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1j2zA 270 6.62e+01 b.81.1.1 90805 1ae7 119 6.63e+01 1poa a.133.1.2 19553 1w68A 390 6.72e+01 a.25.1.2 109216 1otkA 249 6.72e+01 a.25.1.2 93521 1odkA 235 6.76e+01 c.56.2.1 86863 2bswA 146 6.85e+01 1zb9A 143 6.90e+01 1ezfA 340 6.90e+01 1ezfA a.128.1.2 19440 1ppjE 196 6.96e+01 b.33.1.1,f.23.12.1 104260,104261 1m32A 366 6.97e+01 c.67.1.3 78508 1hjiB 26 6.98e+01 j.9.5.1 65847 1cfzA 162 6.99e+01 1cfzA c.56.1.1 33754 1go3F 107 7.01e+01 a.60.8.2 65407 1k0iA 394 7.03e+01 c.3.1.2,d.16.1.2 67942,67943 1ckmA 330 7.06e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1aihA 170 7.07e+01 1aihA d.163.1.1 42149 1pzwA 80 7.09e+01 g.39.1.10 95483 1omhA 293 7.15e+01 d.89.1.5 93348 1wh5A 80 7.15e+01 1vfjA 116 7.17e+01 1hrhA 136 7.18e+01 1rthA c.55.3.1 33577 1kxpD 458 7.28e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1ek9A 428 7.28e+01 1ek9A f.5.1.1 43809 1bupA 386 7.29e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1dwkA 156 7.30e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1yrbA 262 7.31e+01 1ef8A 261 7.35e+01 1ef8A c.14.1.3 30921 1pot 325 7.41e+01 1pot c.94.1.1 35807 2fji1 399 7.41e+01 2fymA 431 7.51e+01 1qtwA 285 7.62e+01 1qumA c.1.15.1 29392 1khtA 192 7.68e+01 c.37.1.1 84401 1xkpB 124 7.68e+01 1hyhA 309 7.71e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1yhtA 367 7.73e+01 1sa3A 262 7.78e+01 c.52.1.23 105400 2fn0A 437 7.83e+01 1z8oA 404 7.91e+01 1zrn 232 7.94e+01 1qq5A c.108.1.1 43323 1n45A 233 7.95e+01 a.132.1.1 79981 2arhA 203 7.98e+01 1lh0A 213 7.99e+01 c.61.1.1 73896 1z5hA 780 8.06e+01 1ogiA 303 8.09e+01 b.43.4.2,c.25.1.1 92914,92915 1xd8A 289 8.13e+01 1na3A 91 8.23e+01 k.38.1.1 85481 1t98A 287 8.27e+01 2fcwA 109 8.28e+01 1q4rA 112 8.30e+01 d.58.4.4 95823 2fuvA 549 8.38e+01 1wq6A 72 8.39e+01 2fq3A 104 8.42e+01 1u5kA 244 8.42e+01 1wer 334 8.44e+01 1wer a.116.1.2 19108 1w53A 84 8.49e+01 a.186.1.2 109175 1g6hA 257 8.49e+01 1gajA c.37.1.12 60318 2yhx 457 8.51e+01 2yhx i.12.1.1 46024 1knzA 164 8.56e+01 e.34.1.1 68709 2fp3A 316 8.57e+01 1wdvA 152 8.60e+01 1cnt1 187 8.60e+01 1cnt3 1xkpA 246 8.63e+01 1kcmA 270 8.66e+01 d.129.3.4 72300 1p0kA 349 8.69e+01 c.1.4.1 87648 1y2kA 349 8.71e+01 1xnzA 264 8.71e+01 1oneA 436 8.74e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1or0A 160 8.74e+01 d.153.1.2 93445 1qyrA 252 8.76e+01 c.66.1.24 104657 1ej6D 418 8.77e+01 i.7.1.1 45970 1z98A 281 8.78e+01 2al1A 436 8.80e+01 2d1yA 256 8.82e+01 1l0wA 580 8.85e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1v92A 46 8.87e+01 a.5.2.3 100531 1z6mA 175 8.91e+01 2dcnA 311 8.93e+01