# List of top-scoring protein chains for t2k-100-30-str2 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 1v4eA 299 1.38e-01 1nktA 922 2.20e-01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1q0gA 117 2.77e-01 1h6gA 256 3.70e-01 1h6gA a.24.9.1 60669 a.24.9.1 60670 1oshA 232 4.09e-01 1fcyA 236 6.60e-01 2lbd a.123.1.1 19282 1aew 174 8.21e-01 2fha a.25.1.1 16676 256bA 106 8.29e-01 256bA a.24.3.1 16539 1io7A 368 9.88e-01 1f4tA a.104.1.1 18971 1vh6A 145 1.04e+00 4lbd 267 1.08e+00 2lbd a.123.1.1 19289 1m6nA 802 1.12e+00 a.162.1.1 78697 a.172.1.1 78698 c.37.1.19 78699 c.37.1.19 78700 1h96A 182 1.43e+00 2fha a.25.1.1 60811 1lb3A 182 1.43e+00 a.25.1.1 77873 1dat 174 1.71e+00 2fha a.25.1.1 16677 2lbd 267 1.75e+00 2lbd a.123.1.1 19287 1lf6A 684 1.81e+00 a.102.1.5 77918 b.30.5.5 77919 1dz4A 414 1.83e+00 1phd a.104.1.1 18903 1rqjA 299 2.03e+00 1keyA 235 2.24e+00 a.118.16.1 72389 1qmqA 414 2.38e+00 1phd a.104.1.1 18907 1gtmA 419 2.41e+00 1hwyA c.2.1.7 30223 c.58.1.1 33871 1phd 414 2.60e+00 1phd a.104.1.1 18913 1phg 414 2.65e+00 1phd a.104.1.1 18910 1nubA 229 3.11e+00 1sra a.39.1.3 17191 g.3.11.3 44330 g.15.1.1 44715 1ovlA 271 3.18e+00 a.123.1.1 87455 5cpp 414 3.52e+00 1phd a.104.1.1 18935 1or4A 178 4.04e+00 1h6pA 203 4.50e+00 a.146.1.1 60690 1rxwA 336 4.54e+00 1hvd 319 4.55e+00 1avc a.65.1.1 18154 1pn1A 176 4.83e+00 1s0pA 176 4.83e+00 1ir6A 424 5.43e+00 c.107.1.2 71342 1jpxA 84 6.18e+00 h.3.2.1 71783 1lkvX 232 6.55e+00 a.118.14.1 73980 1g7oA 215 6.60e+00 1g7oA a.45.1.1 60332 c.47.1.5 60333 1anxA 319 8.00e+00 1avc a.65.1.1 18161 1phb 414 8.06e+00 1phd a.104.1.1 18906 1fdyA 297 8.77e+00 1nal3 c.1.10.1 29071 1hl2A 297 8.79e+00 c.1.10.1 83581 1d3uB 201 9.22e+00 1aisB a.74.1.2 18386 a.74.1.2 18387 1l8dA 112 1.03e+01 h.4.12.1 73687 2occB 227 1.11e+01 2occB b.6.1.2 23027 f.17.2.1 43519 1o04A 500 1.17e+01 c.82.1.1 86508 1eb6A 177 1.17e+01 d.92.1.12 64895 2mhr 118 1.18e+01 2mhr a.24.4.1 16581 1mxrA 375 1.22e+01 a.25.1.2 85197 1eemA 241 1.29e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 1usuA 260 1.31e+01 1l0oA 150 1.33e+01 d.122.1.3 73403 1nal1 297 1.34e+01 1nal3 1k8kG 151 1.35e+01 a.118.13.1 68313 1m2tA 254 1.35e+01 d.165.1.1 84761 1f4tA 368 1.36e+01 1f4tA a.104.1.1 18973 1i7gA 287 1.41e+01 a.123.1.1 71121 1jqcA 375 1.43e+01 1xikA a.25.1.2 63229 1h6oA 204 1.46e+01 a.146.1.1 60689 1ldg 316 1.46e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 5ukdA 194 1.47e+01 1zin c.37.1.1 31851 1l2iA 261 1.47e+01 a.123.1.1 73503 1oe8A 211 1.58e+01 a.45.1.1 86905 c.47.1.5 86906 1kyqA 274 1.61e+01 c.2.1.11 73281 e.37.1.1 73282 1o0wA 252 1.61e+01 a.149.1.1 80751 d.50.1.1 80752 1db1A 259 1.66e+01 1db1A a.123.1.1 19329 1vls 146 1.66e+01 1vls a.24.2.1 16532 1fs7A 485 1.68e+01 1qdbA a.138.1.3 19691 1e2aA 105 1.70e+01 1e2aA a.7.2.1 16322 1a87 321 1.71e+01 1a87 f.1.1.1 43380 1j1jA 240 1.73e+01 3ertA 261 1.74e+01 3erdA a.123.1.1 19292 1is2A 661 1.74e+01 a.29.3.2 71382 a.29.3.2 71383 e.6.1.2 71384 1ciy 590 1.78e+01 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 3nodB 423 1.78e+01 1nseA d.174.1.1 42513 2ligA 164 1.79e+01 1vls a.24.2.1 16530 1jk0A 419 1.82e+01 a.25.1.2 63142 1ouvA 273 1.82e+01 1qu7A 227 1.83e+01 1qu7A h.4.5.1 45789 1abwA 283 1.89e+01 1abwA a.1.1.2 15288 a.1.1.2 15289 1ffkM 148 1.90e+01 1ffkM a.94.1.1 18740 1i5nA 146 1.91e+01 1i5nA a.24.10.3 61805 2e2aA 105 1.91e+01 a.7.2.1 88499 1t2dA 322 1.95e+01 1ceqA 316 1.96e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1jj2O 148 2.05e+01 1ffkM a.94.1.1 63100 1e52A 63 2.08e+01 1e52A a.2.9.1 59256 1b43A 340 2.13e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 1qf9A 194 2.16e+01 1zin c.37.1.1 31848 1a8b 318 2.18e+01 1avc a.65.1.1 18171 1xikA 375 2.18e+01 1xikA a.25.1.2 16784 1prgA 270 2.19e+01 2prgA a.123.1.1 19314 1hkxA 147 2.28e+01 d.17.4.7 83567 1nwmX 142 2.28e+01 a.7.8.1 86301 1qazA 351 2.29e+01 1qazA a.102.3.1 18848 1dn1B 267 2.29e+01 1dn1B a.47.2.1 17771 1qqtA 551 2.35e+01 1qqtA a.27.1.1 16923 c.26.1.1 31590 g.41.1.1 45175 3erdA 261 2.37e+01 3erdA a.123.1.1 19293 1f7uA 607 2.38e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1iv8A 720 2.52e+01 b.71.1.1 76842 c.1.8.1 76843 1n7sA 63 2.54e+01 h.1.15.1 80271 2ran 316 2.54e+01 1avc a.65.1.1 18170 1a8a 318 2.55e+01 1avc a.65.1.1 18169 1un8A 552 2.64e+01 1j8uA 325 2.65e+01 d.178.1.1 71611 1dmwA 307 2.65e+01 4pah d.178.1.1 42580 4pah 308 2.65e+01 4pah d.178.1.1 42576 1f1eA 154 2.68e+01 a.22.1.2 64927 1mn3A 54 2.72e+01 a.5.2.4 85024 1ewqA 765 2.75e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1rprA 63 2.83e+01 1nkd a.30.1.1 16989 1a7vA 125 2.85e+01 1cpq a.24.3.2 16562 1nal3 297 2.88e+01 1nal3 1pd21 199 2.90e+01 1pd21 1uddA 226 2.92e+01 1p3qQ 54 2.94e+01 a.5.2.4 87748 1kxpD 458 2.96e+01 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 1jqiA 388 3.01e+01 a.29.3.1 67087 e.6.1.1 67088 1pk5A 248 3.08e+01 a.123.1.1 88139 1qmzB 259 3.11e+01 1vin a.74.1.1 18338 a.74.1.1 18339 1e2xA 243 3.11e+01 1e2xA a.4.5.6 16113 a.78.1.1 18443 1ithA 141 3.12e+01 1ithA a.1.1.2 15623 1r2fA 319 3.16e+01 1r2fA a.25.1.2 16800 1gkxA 388 3.16e+01 a.29.5.1 65266 d.122.1.4 65267 1v54B 227 3.18e+01 1qgrA 876 3.22e+01 1qgrA a.118.1.1 19119 1uox 296 3.28e+01 1uox d.96.1.4 40673 d.96.1.4 40674 1r4uA 301 3.29e+01 1ie9A 259 3.29e+01 1db1A a.123.1.1 62318 1eca 136 3.36e+01 1flp a.1.1.2 15209 1ecd 136 3.36e+01 1flp a.1.1.2 15211 1ej6D 418 3.39e+01 i.7.1.1 45970 1rkeA 262 3.44e+01 1fm9D 272 3.45e+01 2prgA a.123.1.1 19313 1jr8A 117 3.45e+01 a.24.15.1 67115 1k04A 162 3.51e+01 a.24.14.1 67904 1i4lA 224 3.52e+01 1i49A h.4.7.1 61718 1p9bA 442 3.56e+01 1eco 136 3.63e+01 1flp a.1.1.2 15208 1jfzA 154 3.65e+01 a.149.1.1 66655 1aisB 200 3.70e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1g24A 211 3.72e+01 1g24A d.166.1.1 42270 1ash 150 3.78e+01 1ash a.1.1.2 15622 1i1iP 681 3.81e+01 1i1iP d.92.1.5 40297 1hg4A 279 3.82e+01 1lbd a.123.1.1 19333 1bxsA 501 3.83e+01 1bpwA c.82.1.1 35357 1orjA 130 3.91e+01 1gkzA 388 3.93e+01 a.29.5.1 65268 d.122.1.4 65269 1mukA 1267 3.95e+01 e.8.1.4 79492 1uouA 474 3.99e+01