# List of top-scoring protein chains for t06-100-30-stride-ebghtl-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 9.24e-35 1w98B 283 1.72e-28 1aisB 200 2.79e-18 1aisB a.74.1.2,a.74.1.2 18384,18385 1f5qB 252 1.25e-17 1f5qB a.74.1.1,a.74.1.1 18362,18363 1ve1A 304 5.02e-02 1xjjA 644 6.99e-02 1qo7A 394 7.55e-02 1qo7A c.69.1.11 34697 1gpjA 404 2.13e-01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1tn6A 382 3.75e-01 1t2dA 322 4.46e-01 c.2.1.5,d.162.1.1 99084,99085 1g5hA 454 5.54e-01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1r29A 127 6.06e-01 d.42.1.1 96856 2f1kA 279 6.47e-01 1vmeA 410 6.54e-01 c.23.5.1,d.157.1.3 108893,108894 1w5tA 412 6.63e-01 1yrcA 414 6.87e-01 1n40A 396 7.25e-01 a.104.1.1 79977 1pzgA 331 8.60e-01 c.2.1.5,d.162.1.1 95425,95426 1nh1A 330 9.14e-01 e.45.1.1 91871 1m6sA 347 9.99e-01 c.67.1.1 78701 1jboB 172 1.04e+00 a.1.1.3 84151 1ks9A 291 1.06e+00 a.100.1.7,c.2.1.6 68857,68858 1xl7A 612 1.13e+00 1zghA 260 1.16e+00 1n97A 389 1.17e+00 a.104.1.1 80335 1x7yA 400 1.29e+00 1ezfA 340 1.40e+00 1ezfA a.128.1.2 19440 1cpcB 172 1.50e+00 1qgwC a.1.1.3 15644 1r0dA 206 2.01e+00 a.216.1.1 104715 1a8rA 221 2.06e+00 1a8rA d.96.1.1 40587 1wovA 250 2.08e+00 1unlD 208 2.14e+00 1wyzA 242 2.25e+00 2fiyA 309 2.26e+00 1qbzA 123 2.47e+00 1qbzA h.3.2.1 45729 1wiwA 290 2.52e+00 1jftA 340 2.70e+00 a.35.1.5,c.93.1.1 66652,66653 1sumB 235 2.71e+00 a.7.12.1 106025 1xfhA 422 2.75e+00 1c3pA 375 3.48e+00 1c3pA c.42.1.2 32606 1q52A 314 3.66e+00 c.14.1.3 95846 1k04A 162 4.12e+00 a.24.14.1 67904 1o58A 303 4.21e+00 c.79.1.1 92491 1yzxA 226 4.47e+00 1jdhA 529 4.75e+00 a.118.1.1 66549 1g8sA 230 4.84e+00 c.66.1.3 90507 1f8mA 429 4.87e+00 1dquA c.1.12.7 29315 1or0A 160 4.91e+00 d.153.1.2 93445 1fmjA 351 4.93e+00 c.37.1.5 59879 1uruA 244 5.10e+00 h.4.14.1 99835 1sv0C 82 5.18e+00 a.60.1.1 106037 1qqfA 277 5.21e+00 1c3d a.102.4.4 18875 1khdA 345 5.25e+00 a.46.2.1,c.27.1.1 77400,77401 1hyeA 313 5.25e+00 2cmd c.2.1.5,d.162.1.1 61400,61401 2bfdA 400 5.25e+00 1qoyA 318 5.40e+00 1qoyA h.4.4.1 45788 2cbiA 594 5.72e+00 1n93X 375 5.77e+00 a.206.1.1 91707 1obbA 480 5.79e+00 c.2.1.5,d.162.1.2 86760,86761 2aheA 267 5.96e+00 1u1iA 392 5.98e+00 c.2.1.3,d.81.1.3 107582,107583 1ls1A 295 6.04e+00 a.24.13.1,c.37.1.10 78170,78171 1o69A 394 6.12e+00 c.67.1.4 92560 1n1cA 217 6.73e+00 a.184.1.1 85254 1dwkA 156 7.00e+00 1dw9A a.35.1.4,d.72.1.1 17075,39606 1w7lA 422 7.21e+00 c.67.1.1 109226 1vqrA 297 7.33e+00 2bsjA 133 7.35e+00 2bgkA 278 7.67e+00 1x0rA 249 8.29e+00 1up7A 417 8.40e+00 1ohuA 175 8.60e+00 f.1.4.1 93029 1wkbA 810 8.66e+00 1wmgA 103 8.74e+00 1gs5A 258 8.77e+00 c.73.1.2 70395 1ksoA 101 8.88e+00 a.39.1.2 72926 1wbeA 209 9.03e+00 1x9mA 698 9.08e+00 1m32A 366 9.21e+00 c.67.1.3 78508 2fk8A 318 9.38e+00 1dqaA 467 9.47e+00 1dqaA d.58.20.1,d.179.1.1 39364,42585 1ouoA 210 9.93e+00 d.4.1.6 93554 1nlfA 279 1.01e+01 c.37.1.11 85850 1wljA 189 1.02e+01 1m5wA 243 1.03e+01 c.1.24.1 84836 1uuyA 167 1.04e+01 c.57.1.1 108059 1yf2A 425 1.06e+01 1mdoA 393 1.09e+01 c.67.1.4 79013 1z1zA 131 1.11e+01 1rktA 205 1.11e+01 a.4.1.9,a.121.1.1 97623,97624 1v72A 356 1.12e+01 1uanA 227 1.14e+01 c.134.1.1 99135 1w77A 228 1.15e+01 1nu7D 282 1.16e+01 a.8.6.1,a.8.6.1 92191,92192 1j0dA 341 1.19e+01 c.79.1.1 83902 1f0nA 285 1.25e+01 1dqyA c.69.1.3 34636 1ars 396 1.26e+01 1ajsA c.67.1.1 34287 2csbA 519 1.28e+01 2ezk 99 1.29e+01 2ezk a.4.1.2 16027 1o6yA 299 1.30e+01 d.144.1.7 81106 1i2sA 282 1.31e+01 e.3.1.1 71104 2fdrA 229 1.37e+01 2fbhA 146 1.43e+01 1ukkA 142 1.44e+01 d.227.1.1 99491 1or4A 178 1.47e+01 a.1.1.2 93447 1n83A 270 1.53e+01 a.123.1.1 80276 1l2tA 235 1.53e+01 c.37.1.12 73514 1dzlA 505 1.54e+01 1dzlA b.121.6.1 23586 1uzmA 247 1.61e+01 1qgoA 264 1.62e+01 1qgoA c.92.1.2 35596 1t0qA 498 1.64e+01 a.25.1.2 106220 1wstA 417 1.70e+01 2f5uA 447 1.71e+01 1guxB 152 1.72e+01 1guxB a.74.1.3 18389 1zkeA 83 1.76e+01 1j5xA 342 1.78e+01 c.80.1.1 71591 1yt3A 375 1.79e+01 1zd3A 555 1.80e+01 1d2nA 272 1.82e+01 1d2nA c.37.1.20 32428 2g3bA 208 1.83e+01 2d4rA 147 1.87e+01 1vpdA 299 1.88e+01 1rtwA 220 1.91e+01 a.132.1.3 97823 1swxA 209 1.95e+01 a.224.1.1 106075 1xahA 354 1.96e+01 2d5cA 263 1.97e+01 1rt8A 513 2.01e+01 a.40.1.1 105095 1kb9B 352 2.02e+01 d.185.1.1,d.185.1.1 77313,77314 1s2xA 206 2.02e+01 a.47.3.1 105229 1v71A 323 2.03e+01 1wa5C 960 2.05e+01 1whsA 255 2.05e+01 1ivyA c.69.1.5 34649 1xkyA 301 2.08e+01 1r59O 505 2.08e+01 1yw3A 208 2.08e+01 1y2kA 349 2.11e+01 2bhoA 130 2.12e+01 1mwmA 320 2.15e+01 c.55.1.1,c.55.1.1 79580,79581 1ww8A 439 2.18e+01 1y8qA 346 2.20e+01 1m48A 133 2.20e+01 a.26.1.2 74443 1om4A 422 2.20e+01 d.174.1.1 87067 1ulyA 192 2.23e+01 1q15A 503 2.25e+01 c.26.2.1,d.153.1.1 95538,95539 2d5xB 146 2.27e+01 1r88A 280 2.32e+01 c.69.1.3 97219 1irdB 146 2.33e+01 a.1.1.2 66287 2fd5A 180 2.35e+01 1ymiA 334 2.38e+01 1ppjC 379 2.38e+01 f.32.1.1,f.21.1.2 104256,104257 1fiqB 350 2.39e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 1u6zA 513 2.39e+01 1a7w 69 2.39e+01 1a7w a.22.1.2 16477 1v93A 296 2.39e+01 c.1.23.1 100532 1r12A 258 2.40e+01 e.4.1.1 96780 1khtA 192 2.42e+01 c.37.1.1 84401 2b67A 204 2.44e+01 1kl9A 182 2.47e+01 b.40.4.5 72681 1tn6B 437 2.49e+01 1sziA 247 2.55e+01 a.24.23.1 106159 1u04A 771 2.59e+01 b.34.14.1,c.55.3.10 107539,107540 1t4nA 94 2.62e+01 d.50.1.1 106424 1umqA 81 2.75e+01 a.4.1.12 99625 2yhx 457 2.76e+01 2yhx i.12.1.1 46024 1vkmA 297 2.79e+01 c.138.1.1 108670 1j34B 123 2.80e+01 d.169.1.1 84049 2gkpA 167 2.81e+01 2fuvA 549 2.90e+01 1keaA 221 2.93e+01 a.96.1.2 68491 1tr0A 108 2.99e+01 d.58.4.4 107261 2fp3A 316 3.05e+01 1wyuA 438 3.07e+01 1dc1A 323 3.10e+01 1dc1A c.52.1.11 33321 2aebA 322 3.11e+01 1qusA 322 3.13e+01 1ltm d.2.1.6 36991 1cnt1 187 3.15e+01 1cnt3 1khbA 625 3.16e+01 c.91.1.1,c.109.1.1 68606,68607 2bkkA 264 3.18e+01 1xd8A 289 3.21e+01 2f5gA 133 3.27e+01 1n1bA 549 3.36e+01 a.102.4.1,a.128.1.3 79799,79800 1bob 320 3.37e+01 1bob d.108.1.1 40816 1a59 378 3.40e+01 1aj8A a.103.1.1 18902 1iznB 277 3.41e+01 e.43.1.2 83848 1pp0A 199 3.49e+01 d.103.1.1 104211 1q7zA 566 3.50e+01 c.1.21.2,c.1.26.1 96090,96091 1r9lA 309 3.53e+01 c.94.1.1 97262 1ek9A 428 3.54e+01 1ek9A f.5.1.1 43809 1h2wA 710 3.55e+01 b.69.7.1,c.69.1.4 76596,76597 1u7nA 336 3.56e+01 c.77.1.4 107726 1uyrA 737 3.60e+01 c.14.1.4,c.14.1.4 100188,100189 1z6mA 175 3.61e+01 1s6cA 183 3.66e+01 a.39.1.5 98594 1vb3A 428 3.67e+01 1oz9A 150 3.67e+01 d.92.1.15 93808 1gwiA 411 3.69e+01 a.104.1.1 76364 2au3A 407 3.70e+01 1go3F 107 3.72e+01 a.60.8.2 65407 2c3nA 247 3.77e+01 1ppjE 196 3.79e+01 b.33.1.1,f.23.12.1 104260,104261 2cxcA 144 3.85e+01 1womA 271 3.88e+01 1kjnA 157 3.89e+01 c.115.1.1 72614 1xszA 356 3.90e+01 2a2fX 325 3.94e+01 1o7qA 289 3.95e+01 c.68.1.9 92626 2fcwA 109 3.97e+01 1vr5A 547 4.03e+01 1e3oC 160 4.03e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1ihgA 370 4.09e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 1aj8A 371 4.09e+01 1aj8A a.103.1.1 18900 1cnzA 363 4.11e+01 1cnzA c.77.1.1 35061 2cxhA 217 4.16e+01 1omhA 293 4.24e+01 d.89.1.5 93348 2fnoA 248 4.26e+01 1bea 127 4.26e+01 1bea a.52.1.2 17826 2bs3C 256 4.27e+01 1h3oB 76 4.29e+01 a.22.1.3 76645 1vrtA 560 4.32e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1lh0A 213 4.34e+01 c.61.1.1 73896 1dqpA 230 4.37e+01 1dqnA c.61.1.1 34069 1b0b 142 4.43e+01 2fal a.1.1.2 15010 1gqiA 708 4.44e+01 c.1.8.10,d.92.2.2 76279,76280 2vhbA 146 4.48e+01 2vhbA a.1.1.2 15629 2dfkA 402 4.53e+01 1l5oA 356 4.58e+01 c.39.1.1 77711 1mkyA 439 4.61e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 2bdeA 470 4.67e+01 1zejA 293 4.69e+01 1bjt 793 4.72e+01 1bjt e.11.1.1 43249 1ufbA 127 4.79e+01 a.24.16.3 99331 1z98A 281 4.89e+01 2ftuA 118 4.90e+01 2f5tX 233 4.90e+01 1nox 205 4.92e+01 1nox d.90.1.1 40242 1zk4A 251 4.95e+01 1q4rA 112 4.99e+01 d.58.4.4 95823 1iirA 415 5.02e+01 1iirA c.87.1.5 62453 1jb9A 316 5.03e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1kshA 186 5.03e+01 c.37.1.8 72914 1pz1A 333 5.04e+01 c.1.7.1 95390 1pprM 312 5.06e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1tedA 393 5.06e+01 c.95.1.2 106807 1hywA 68 5.07e+01 1hywA d.186.1.1 61425 1z8oA 404 5.08e+01 1mun 225 5.09e+01 1mun a.96.1.2 18744 1jnrA 643 5.15e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1nxcA 478 5.20e+01 a.102.2.1 92293 1zzmA 259 5.21e+01 1lj8A 493 5.22e+01 a.100.1.9,c.2.1.6 90392,90393 1z8sA 146 5.25e+01 1dj7A 117 5.28e+01 1dj7A g.36.1.1 44997 1y7lA 316 5.31e+01 1xfiA 367 5.37e+01 e.50.1.1 109584 1v92A 46 5.46e+01 a.5.2.3 100531 1t7rA 269 5.51e+01 a.123.1.1 106635 1oqcA 125 5.51e+01 a.24.15.1 87264 1y14A 187 5.52e+01 2c5uA 375 5.53e+01 1ash 150 5.57e+01 1ash a.1.1.2 15622 1yh3A 256 5.61e+01 1o6zA 303 5.61e+01 c.2.1.5,d.162.1.1 81107,81108 1wrvA 308 5.63e+01 2a19A 175 5.66e+01 1w8sA 263 5.67e+01 2fq3A 104 5.71e+01 1io2A 213 5.76e+01 1ekeA c.55.3.1 62612 2cy7A 396 5.83e+01 1o4wA 147 5.84e+01 c.120.1.1 86629 2b99A 156 5.85e+01 1vfrA 218 5.87e+01 1vfrA d.90.1.1 40247 2b0tA 738 5.90e+01 2ex5A 207 5.90e+01 1kxpD 458 5.93e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1cp2A 269 5.94e+01 1cp2A c.37.1.10 32269 1xfkA 336 5.97e+01 1pzwA 80 5.98e+01 g.39.1.10 95483 1u9lA 70 5.99e+01 a.60.4.2 107751 1jb0A 755 6.00e+01 1jb0A f.29.1.1 62820 1otsA 465 6.00e+01 f.20.1.1 87415 2c4jA 218 6.07e+01 1in6A 334 6.10e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1oaoA 674 6.14e+01 e.26.1.2 86744 1ajsA 412 6.23e+01 1ajsA c.67.1.1 34276 1vr6A 350 6.31e+01 2dp5A 332 6.34e+01 1u19A 349 6.38e+01 1f20A 435 6.38e+01 b.43.4.1,c.25.1.4 64932,64933 1dqzA 280 6.38e+01 1dqyA c.69.1.3 34638 2faoA 309 6.42e+01 2bswA 146 6.45e+01 1on2A 142 6.47e+01 a.4.5.24,a.76.1.1 87103,87104 1wyuB 474 6.48e+01 1hlvA 131 6.51e+01 a.4.1.7,a.4.1.7 65854,65855 1za0A 275 6.58e+01 1qz9A 416 6.59e+01 c.67.1.3 96621 1wleA 501 6.59e+01 1b3uA 588 6.60e+01 1b3uA a.118.1.2 19135 1wy9A 147 6.71e+01 2fjbA 643 6.75e+01 1ls9A 91 6.80e+01 a.3.1.1 78177 1h6kA 757 6.83e+01 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 1n4qB 377 6.83e+01 a.102.4.3 91636 1e8gA 560 6.87e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1wolA 122 6.94e+01 1sqsA 242 6.99e+01 c.23.5.5 98968 1w0mA 226 7.05e+01 c.1.1.1 109027 1rcwA 231 7.06e+01 a.132.1.4 97299 1cg5B 141 7.13e+01 1cg5B a.1.1.2 15585 1b65A 375 7.16e+01 1b65A d.154.1.1 42020 1e29A 135 7.28e+01 1e29A a.3.1.1 59161 1wmiB 67 7.29e+01 1xkpA 246 7.30e+01 1v9nA 360 7.33e+01 1j6oA 268 7.44e+01 c.1.9.12 77088 1j1jA 240 7.49e+01 a.118.16.1 90762 2ajgA 196 7.65e+01 1t95A 240 7.71e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1n62A 166 7.72e+01 a.56.1.1,d.15.4.2 80090,80091 1orvA 728 7.72e+01 b.70.3.1,c.69.1.24 87354,87355 1g55A 343 7.73e+01 1g55A c.66.1.26 34247 1qwiA 143 7.77e+01 d.227.1.1 96474 1u4bA 580 7.77e+01 c.55.3.5,e.8.1.1 107664,107665 1y9iA 178 7.81e+01 1jmsA 381 7.84e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1zsqA 528 7.85e+01 2a6pA 208 7.89e+01 1p0kA 349 7.94e+01 c.1.4.1 87648 2f96A 224 7.97e+01 1zz1A 369 7.98e+01 1vflA 356 8.00e+01 1wkvA 389 8.05e+01 1wmuB 146 8.07e+01 a.1.1.2 109417 1nn6A 228 8.09e+01 b.47.1.2 85893 1qtwA 285 8.12e+01 1qumA c.1.15.1 29392 1vkuA 100 8.13e+01 a.28.1.1 108690 1jbeA 128 8.15e+01 3chy c.23.1.1 62845 2dc3A 193 8.28e+01 1quuA 250 8.31e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1aihA 170 8.32e+01 1aihA d.163.1.1 42149 1bupA 386 8.32e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1tx9A 151 8.35e+01 1ummA 172 8.39e+01 a.3.1.1 107958 2c8sA 172 8.39e+01 1k3yA 221 8.41e+01 a.45.1.1,c.47.1.5 77245,77246 1bbhA 131 8.44e+01 1bbhA a.24.3.2 16546 2f1rA 171 8.50e+01 1f6fA 199 8.54e+01 1f6fA a.26.1.1 16839 1hnjA 317 8.54e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1zb9A 143 8.57e+01 1vzyA 291 8.58e+01 1gpeA 587 8.67e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1v5iB 76 8.68e+01 1hs6A 611 8.70e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1s6bA 119 8.77e+01 a.133.1.2 98592 1wb9A 800 8.79e+01 1wv2A 265 8.81e+01 1idrA 136 8.81e+01 1dlyA a.1.1.1 62301 2glzA 153 8.83e+01 1wtjA 343 8.85e+01 1zowA 313 8.86e+01 1v7bA 185 8.87e+01 1ej6D 418 8.98e+01 i.7.1.1 45970 1hynP 379 8.98e+01 1hynP d.112.1.2 61408