# 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.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 1zq9A 285 1.47e-25 1a3aA 148 8.14e-01 1a3aA d.112.1.1 40917 1j8uA 325 1.01e+00 d.178.1.1 71611 1mvwC 147 1.03e+00 i.15.1.1 79525 1lvaA 258 1.11e+00 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 4pah 308 1.17e+00 4pah d.178.1.1 42576 1yf3A 259 1.29e+00 2astA 159 1.42e+00 1yadA 221 1.67e+00 1dk0A 188 1.67e+00 1b2vA d.35.1.1 38530 2ax3A 502 1.73e+00 1fs1B 141 1.81e+00 1vcbB a.157.1.1,d.42.1.1 19252,38664 1cnzA 363 1.83e+00 1cnzA c.77.1.1 35061 1xclA 235 2.28e+00 2f4lA 297 2.30e+00 1g8kA 825 2.71e+00 1g8jA b.52.2.2,c.81.1.1 26920,35328 1ynuA 473 3.00e+00 1i58A 189 3.05e+00 1b3qA d.122.1.3 61773 1q0sA 259 3.05e+00 c.66.1.28 95509 1i4wA 353 3.43e+00 c.66.1.24 66028 1y82A 157 3.47e+00 1m7yA 435 3.56e+00 c.67.1.4 78761 1mlwA 301 3.77e+00 d.178.1.1 79289 2ch4A 320 3.85e+00 1b8gA 429 4.46e+00 1b8gA c.67.1.4 34499 1cy5A 97 4.48e+00 1cy5A a.77.1.3 18430 1cem 363 5.14e+00 1cem a.102.1.2 18826 1tffA 234 5.23e+00 d.3.1.11 106854 2bjfA 329 5.28e+00 1nxuA 333 5.47e+00 c.122.1.1 86389 1dp3A 55 5.98e+00 1dp3A a.55.1.2 59128 1w7jB 151 6.10e+00 2azqA 311 6.18e+00 1t4hA 290 6.24e+00 d.144.1.7 106420 1kwfA 363 6.58e+00 a.102.1.2 73078 1ioj 57 6.67e+00 1ioj j.39.1.1 46293 1hlvA 131 6.79e+00 a.4.1.7,a.4.1.7 65854,65855 2prd 174 6.80e+00 2prd b.40.5.1 25435 1v97A 1332 6.86e+00 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1qyrA 252 7.09e+00 c.66.1.24 104657 1zcoA 262 7.13e+00 1fo4A 1332 7.17e+00 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1y1xA 191 7.22e+00 1w33A 181 7.32e+00 1riqA 465 7.88e+00 a.203.1.1,d.104.1.1 97516,97517 1zrn 232 8.23e+00 1qq5A c.108.1.1 43323 1abv 134 8.44e+00 1abv a.70.1.1 18317 2cwyA 94 9.17e+00 1yarA 233 9.32e+00 2ba2A 85 9.67e+00 1wwiA 148 1.06e+01 1j6pA 418 1.08e+01 b.92.1.4,c.1.9.9 77089,77090 1ctj 89 1.10e+01 1ctj a.3.1.1 15798 1p1mA 406 1.12e+01 b.92.1.4,c.1.9.9 87696,87697 1wy1A 172 1.13e+01 2fz4A 237 1.18e+01 1yfsA 465 1.20e+01 2gfnA 209 1.20e+01 1zeeA 403 1.27e+01 1p57B 255 1.28e+01 b.47.1.2 94126 1mgtA 174 1.30e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1jalA 363 1.30e+01 c.37.1.8,d.15.10.2 84138,84139 1i5nA 146 1.34e+01 1i5nA a.24.10.3 61805 1xqoA 256 1.35e+01 1a4pA 96 1.37e+01 1b4cA a.39.1.2 17176 1eljA 381 1.37e+01 4mbp c.94.1.1 35791 1fiqC 763 1.38e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1q8cA 151 1.46e+01 a.79.1.2 96202 2ah5A 210 1.52e+01 1m65A 245 1.56e+01 c.6.3.1 84847 2fm9A 215 1.65e+01 1lj9A 144 1.70e+01 a.4.5.28 78035 1it2A 146 1.70e+01 a.1.1.2 66365 1p1cA 199 1.72e+01 c.66.1.16 87669 2bvpA 276 1.72e+01 1gcvB 136 1.74e+01 1cg5B a.1.1.2 15589 1cjgA 62 1.78e+01 1pru a.35.1.5 17112 1p35A 299 1.80e+01 1p35A b.28.1.1 23925 1h3lA 87 1.81e+01 a.177.1.1 76639 1ujmA 342 1.81e+01 1top 162 1.82e+01 1ncx a.39.1.5 17223 1j6rA 214 1.89e+01 d.173.1.2 71598 1vb3A 428 1.90e+01 1dmhA 311 1.96e+01 1dmhA b.3.6.1 22633 1x0vA 354 2.02e+01 1fnnA 389 2.04e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1y1pA 342 2.06e+01 1dseA 292 2.07e+01 1ryc a.93.1.1 59130 1q16C 225 2.08e+01 f.21.3.1 95549 1n9dA 199 2.09e+01 a.26.1.1 85464 1mwyA 73 2.14e+01 d.58.17.1 79616 1a7s 221 2.15e+01 1a7s b.47.1.2 26284 1g2nA 264 2.21e+01 1lbd a.123.1.1 60227 1wy6A 172 2.24e+01 1l8nA 679 2.28e+01 c.1.8.10,d.92.2.2 84564,84565 1zk8A 183 2.28e+01 1g6hA 257 2.30e+01 1gajA c.37.1.12 60318 1onqA 283 2.30e+01 b.1.1.2,d.19.1.1 93365,93366 1mkrA 294 2.31e+01 a.93.1.1 84997 1xiuA 230 2.32e+01 1vljA 407 2.34e+01 e.22.1.2 108832 2bjcA 62 2.38e+01 1cxqA 162 2.41e+01 1cxqA c.55.3.2 33621 1tvlA 454 2.44e+01 c.1.16.4 107366 1mijA 152 2.44e+01 a.4.1.1 79150 1wmhB 86 2.45e+01 1vsd 152 2.49e+01 1cxqA c.55.3.2 33625 1xg7A 250 2.50e+01 1jmsA 381 2.51e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1h8dH 260 2.53e+01 5ptp 1o1zA 234 2.54e+01 c.1.18.3 86555 1pyoB 105 2.70e+01 1j75A 67 2.72e+01 a.4.5.19 62673 1zthA 258 2.72e+01 1sh7A 284 2.81e+01 1x3sA 195 2.83e+01 2a5vA 213 2.84e+01 2g7gA 213 2.84e+01 1ru3A 732 2.85e+01 e.26.1.3 97835 1j1hA 144 2.88e+01 b.111.1.1 77056 1s5lA 344 2.90e+01 2awpA 198 2.92e+01 1ockA 412 2.92e+01 c.117.1.1 86802 1eq1A 166 2.93e+01 a.63.1.1 64910 1zu4A 320 2.97e+01 1w36B 1180 2.97e+01 1v0dA 329 3.02e+01 d.4.1.7 108204 1v96A 149 3.03e+01 2fz0A 149 3.03e+01 1o0yA 260 3.10e+01 c.1.10.1 80756 1tib 269 3.15e+01 3tgl c.69.1.17 34738 2eutA 294 3.16e+01 1byrA 155 3.24e+01 1byrA d.136.1.1 41450 2byjA 439 3.32e+01 1ta9A 450 3.33e+01 1q5qA 259 3.34e+01 d.153.1.4 95904 2btoA 473 3.35e+01 1h8eD 482 3.38e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1y89A 238 3.39e+01 1ng6A 148 3.41e+01 a.182.1.1 85670 1fexA 59 3.42e+01 a.4.1.3 59803 1vqtA 213 3.44e+01 2f05A 105 3.47e+01 1y5iC 225 3.61e+01 1wf3A 301 3.61e+01 1s2wA 295 3.62e+01 c.1.12.7 98407 1qf5A 431 3.69e+01 1adeA c.37.1.10 32212 1xl7A 612 3.71e+01 1rloA 271 3.72e+01 1oatA 439 3.72e+01 2dkb c.67.1.4 34461 1ton 235 3.76e+01 5ptp b.47.1.2 26307 1jdrA 294 3.87e+01 1ryc a.93.1.1 62908 2ethA 154 3.90e+01 1i7dA 659 3.94e+01 1d6mA e.10.1.1 61886 1s3aA 102 3.95e+01 1vl5A 260 3.98e+01 c.66.1.41 108720 1lqtA 456 3.98e+01 c.3.1.1,c.4.1.1 74198,74199 1wmbA 260 4.00e+01 1z53A 294 4.01e+01 1gr0A 367 4.01e+01 c.2.1.3,d.81.1.3 70379,70380 1prxA 224 4.02e+01 1prxA c.47.1.10 33076 2f4mA 295 4.04e+01 1zbyA 294 4.06e+01 1xpxA 163 4.09e+01 1q0rA 298 4.23e+01 c.69.1.28 95508 1ddgA 374 4.23e+01 1amoA b.43.4.1,c.25.1.4 25671,31559 2bylA 439 4.24e+01 1hr6B 443 4.25e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1ciy 590 4.25e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 2oatA 439 4.29e+01 2dkb c.67.1.4 34452 1mym 154 4.35e+01 1a6m a.1.1.2 15054 1gt6A 269 4.42e+01 c.69.1.17 76342 1zlqA 502 4.43e+01 1oxjA 173 4.47e+01 a.60.1.2,a.118.1.13 87517,87518 1o50A 157 4.47e+01 d.37.1.1,d.37.1.1 92478,92479 1pjr 724 4.56e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1e3oC 160 4.58e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1oa4A 222 4.61e+01 b.29.1.11 86731 1wz7A 111 4.66e+01 1qy6A 274 4.69e+01 b.47.1.1 96574 2f62A 161 4.70e+01 1vj5A 555 4.84e+01 c.108.1.2,c.69.1.11 100799,100800 1mll 154 4.93e+01 1a6m a.1.1.2 15057 1uarA 285 4.93e+01 c.46.1.2,c.46.1.2 107762,107763 2f06A 144 4.97e+01 1mlg 154 4.99e+01 1a6m a.1.1.2 15104 2a0kA 161 5.00e+01 2f2tA 161 5.00e+01 1u60A 310 5.07e+01 e.3.1.2 107692 1zd3A 555 5.07e+01 1cyj 90 5.07e+01 1ctj a.3.1.1 15805 1guxB 152 5.08e+01 1guxB a.74.1.3 18389 1paqA 189 5.12e+01 a.118.1.14 94413 2b9lA 394 5.18e+01 1q60A 99 5.19e+01 1uiuA 502 5.22e+01 c.94.1.1 99434 1t3cA 421 5.22e+01 d.92.1.7 106343 1ym3A 215 5.25e+01 1uhnA 189 5.26e+01 a.39.1.5 99399 2pii 112 5.30e+01 2pii d.58.5.1 39071 1fcyA 236 5.31e+01 2lbd a.123.1.1 19282 2fh5A 185 5.34e+01 2rslA 140 5.35e+01 2rslA c.53.1.1 33345 1ofdA 1520 5.35e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1oz9A 150 5.36e+01 d.92.1.15 93808 1aquA 297 5.42e+01 1aquA c.37.1.5 31942 6gsvA 217 5.45e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1np8A 159 5.47e+01 a.39.1.8 92022 1wbpA 397 5.47e+01 2ff4A 388 5.58e+01 103m 154 5.60e+01 1a6m a.1.1.2 15124 1mod 154 5.62e+01 1a6m a.1.1.2 15107 2cruA 118 5.62e+01 1scuA 288 5.64e+01 2scuA c.2.1.8,c.23.4.1 30307,31135 1mlo 154 5.65e+01 1a6m a.1.1.2 15085 1a79A 171 5.65e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1pymA 295 5.66e+01 1pymA c.1.12.7 29308 1sgwA 214 5.67e+01 c.37.1.12 105541 1eg7A 557 5.67e+01 1eg7A c.37.1.10 32241 1sczA 233 5.73e+01 c.43.1.1 98802 1pvmA 184 5.75e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1vi0A 206 5.77e+01 a.4.1.9,a.121.1.1 100720,100721 1g2cB 43 5.86e+01 1g2cB 2a74A 643 5.92e+01 1xvjA 109 5.94e+01 1o1xA 155 5.95e+01 c.121.1.1 86553 1yqfA 203 5.96e+01 1c02A 166 5.96e+01 1qspA a.24.10.2 16633 1kyqA 274 6.00e+01 c.2.1.11,e.37.1.1 73281,73282 1wvfA 520 6.01e+01 1alvA 173 6.03e+01 1alvA a.39.1.8 17370 1ydyA 356 6.08e+01 1qe3A 489 6.09e+01 2bce c.69.1.1 34630 1g73A 162 6.16e+01 1fewA a.7.4.1 16332 1wrvA 308 6.20e+01 1g3qA 237 6.20e+01 1hyqA c.37.1.10 60237 2mgb 154 6.22e+01 1a6m a.1.1.2 15102 1umdA 367 6.22e+01 c.36.1.11 99599 2b67A 204 6.23e+01 2cfqA 417 6.26e+01 1w9gA 104 6.27e+01 1vlwA 217 6.28e+01 c.1.10.1 108868 1ni4B 341 6.28e+01 c.36.1.7,c.48.1.2 85729,85730 1vgoA 253 6.28e+01 1a6m 151 6.29e+01 1a6m a.1.1.2 15018 2furA 209 6.34e+01 1qy1A 174 6.36e+01 b.60.1.1 96568 1eo1A 124 6.38e+01 1eo1A c.55.5.1 33739 1ihgA 370 6.40e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 1lmzA 187 6.41e+01 a.96.1.4 74037 1go3F 107 6.42e+01 a.60.8.2 65407 2cw6A 298 6.44e+01 1o6dA 163 6.45e+01 c.116.1.3 92567 1b4pA 217 6.48e+01 a.45.1.1,c.47.1.5 83158,83159 1t8qA 336 6.55e+01 c.1.18.3 106669 1zclA 180 6.58e+01 3thiA 371 6.59e+01 2thiA c.94.1.1 35792 2bvlA 543 6.60e+01 2f3yA 148 6.61e+01 1qcwA 410 6.62e+01 1gox c.1.4.1 28622 1hwxA 501 6.63e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 2abk 211 6.66e+01 2abk a.96.1.1 18743 1ebdC 41 6.69e+01 1ebdC a.9.1.1 16355 2fywA 267 6.70e+01 2spl 154 6.76e+01 1a6m a.1.1.2 15047 1q0vA 81 6.79e+01 j.105.1.1 95514 1zcxA 178 6.81e+01 2av1A 275 6.81e+01 1r1dA 247 6.93e+01 c.69.1.29 96813 1jv4A 162 6.99e+01 b.60.1.1 67343 1dugA 234 7.01e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1zwwA 256 7.04e+01 2g0qA 173 7.05e+01 1kxu 333 7.07e+01 1jkw a.74.1.1,a.74.1.1 18358,18359 1rypC 244 7.10e+01 1rypC d.153.1.4 41934 1vzqH 250 7.10e+01 1tqhA 247 7.13e+01 c.69.1.29 107225 2fexA 188 7.18e+01 1q5dA 419 7.19e+01 a.104.1.1 95891 1qwgA 251 7.22e+01 c.1.27.1 96473 1twfA 1733 7.29e+01 1zndA 174 7.31e+01 1oaoC 729 7.32e+01 e.26.1.3 86746 1kaeA 434 7.41e+01 c.82.1.2 72247 1sd4A 126 7.43e+01 a.4.5.39 105428 1iugA 352 7.45e+01 c.67.1.3 90699 1i05A 180 7.50e+01 1mup b.60.1.1 27130 1i06A 180 7.53e+01 1mup b.60.1.1 27131 1jy5A 212 7.57e+01 d.124.1.1 71940 1khbA 625 7.60e+01 c.91.1.1,c.109.1.1 68606,68607 1y88A 199 7.62e+01 1senA 164 7.62e+01 c.47.1.1 105465 1zgzA 122 7.67e+01 1bzpA 153 7.67e+01 1a6m a.1.1.2 15020 2aaoA 166 7.69e+01 1mtyB 384 7.72e+01 1mtyB a.25.1.2 16740 1mbxC 106 7.73e+01 d.45.1.2 78929 1n25A 368 7.75e+01 c.37.1.20 85264 2a8mA 420 7.78e+01 1f20A 435 7.79e+01 b.43.4.1,c.25.1.4 64932,64933 2mgg 154 7.82e+01 1a6m a.1.1.2 15069 1rypL 212 7.84e+01 d.153.1.4 41880 1ojrA 274 7.84e+01 c.74.1.1 93147 1r6oC 106 7.94e+01 1rlmA 271 7.95e+01 1xw5A 217 8.03e+01 2evaA 307 8.03e+01 1nrfA 262 8.05e+01 e.3.1.1 92086 1kgnA 329 8.09e+01 a.25.1.2 68584 2c4jA 218 8.14e+01 1lxa 262 8.15e+01 1lxa b.81.1.1 28052 1lwjA 441 8.16e+01 b.71.1.1,c.1.8.1 74303,74304 1l7vA 326 8.17e+01 f.22.1.1 73672 2g0wA 296 8.18e+01 1dkzA 219 8.21e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1rlmB 271 8.23e+01 2fhpA 187 8.38e+01 2av7A 275 8.44e+01 1jdpA 441 8.48e+01 c.93.1.1 62906 2anxA 146 8.49e+01 1rwtA 232 8.51e+01 f.43.1.1 97992 1c7nA 399 8.53e+01 1d2fA c.67.1.3 34413 1mr7A 209 8.54e+01 b.81.1.3 91430 1izcA 339 8.61e+01 c.1.12.5 83838 1om1A 332 8.71e+01 d.144.1.7 93347 1oahA 519 8.77e+01 a.138.1.3 86736 1z82A 335 8.77e+01 1x31D 99 8.78e+01 1wmaA 276 8.81e+01 1wa3A 205 8.93e+01 1fp2A 352 8.94e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 2f4qA 346 8.94e+01 1x93A 55 8.95e+01 1nox 205 8.97e+01 1nox d.90.1.1 40242