# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1oshA 232 1.80e-01 1v4eA 299 2.31e-01 1nktA 922 2.70e-01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1q0gA 117 3.67e-01 1h6gA 256 4.89e-01 1h6gA a.24.9.1 60669 a.24.9.1 60670 1aew 174 5.89e-01 2fha a.25.1.1 16676 256bA 106 5.90e-01 256bA a.24.3.1 16539 1m6nA 802 6.03e-01 a.162.1.1 78697 a.172.1.1 78698 c.37.1.19 78699 c.37.1.19 78700 1fcyA 236 6.34e-01 2lbd a.123.1.1 19282 1ovlA 271 9.71e-01 a.123.1.1 87455 4lbd 267 1.01e+00 2lbd a.123.1.1 19289 1abwA 283 1.02e+00 1abwA a.1.1.2 15288 a.1.1.2 15289 1rqjA 299 1.22e+00 1dat 174 1.27e+00 2fha a.25.1.1 16677 1un8A 552 1.34e+00 1vh6A 145 1.38e+00 1h96A 182 1.41e+00 2fha a.25.1.1 60811 1lb3A 182 1.41e+00 a.25.1.1 77873 1lf6A 684 1.53e+00 a.102.1.5 77918 b.30.5.5 77919 1io7A 368 1.55e+00 1f4tA a.104.1.1 18971 2lbd 267 1.57e+00 2lbd a.123.1.1 19287 1dz4A 414 1.98e+00 1phd a.104.1.1 18903 1rxwA 336 2.04e+00 1qmqA 414 2.42e+00 1phd a.104.1.1 18907 1keyA 235 2.74e+00 a.118.16.1 72389 1phg 414 3.00e+00 1phd a.104.1.1 18910 1phd 414 3.00e+00 1phd a.104.1.1 18913 1gtmA 419 3.00e+00 1hwyA c.2.1.7 30223 c.58.1.1 33871 5cpp 414 3.67e+00 1phd a.104.1.1 18935 1h6pA 203 4.62e+00 a.146.1.1 60690 1g7oA 215 5.63e+00 1g7oA a.45.1.1 60332 c.47.1.5 60333 2mhr 118 6.16e+00 2mhr a.24.4.1 16581 1nubA 229 6.19e+00 1sra a.39.1.3 17191 g.3.11.3 44330 g.15.1.1 44715 1or4A 178 6.23e+00 1ir6A 424 6.31e+00 c.107.1.2 71342 1jpxA 84 6.36e+00 h.3.2.1 71783 1l8dA 112 6.37e+00 h.4.12.1 73687 1d3uB 201 7.33e+00 1aisB a.74.1.2 18386 a.74.1.2 18387 1eb6A 177 7.46e+00 d.92.1.12 64895 1a87 321 7.78e+00 1a87 f.1.1.1 43380 1i7gA 287 8.06e+00 a.123.1.1 71121 1usuA 260 9.11e+00 1o0wA 252 9.82e+00 a.149.1.1 80751 d.50.1.1 80752 1phb 414 9.92e+00 1phd a.104.1.1 18906 1m2tA 254 1.02e+01 d.165.1.1 84761 1l0oA 150 1.02e+01 d.122.1.3 73403 1fs7A 485 1.05e+01 1qdbA a.138.1.3 19691 1o04A 500 1.15e+01 c.82.1.1 86508 1hvd 319 1.18e+01 1avc a.65.1.1 18154 1vin 268 1.24e+01 1vin a.74.1.1 18354 a.74.1.1 18355 1f4tA 368 1.25e+01 1f4tA a.104.1.1 18973 2occB 227 1.28e+01 2occB b.6.1.2 23027 f.17.2.1 43519 1b43A 340 1.29e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 1uddA 226 1.29e+01 1j1jA 240 1.33e+01 1h6oA 204 1.34e+01 a.146.1.1 60689 1lkvX 232 1.43e+01 a.118.14.1 73980 1anxA 319 1.45e+01 1avc a.65.1.1 18161 1k8kG 151 1.45e+01 a.118.13.1 68313 1qu7A 227 1.47e+01 1qu7A h.4.5.1 45789 1qmzB 259 1.48e+01 1vin a.74.1.1 18338 a.74.1.1 18339 1vls 146 1.52e+01 1vls a.24.2.1 16532 2ligA 164 1.57e+01 1vls a.24.2.1 16530 5ukdA 194 1.57e+01 1zin c.37.1.1 31851 1jr8A 117 1.57e+01 a.24.15.1 67115 1hl2A 297 1.57e+01 c.1.10.1 83581 1eemA 241 1.58e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 1fdyA 297 1.58e+01 1nal3 c.1.10.1 29071 1is2A 661 1.67e+01 a.29.3.2 71382 a.29.3.2 71383 e.6.1.2 71384 1aijL 281 1.68e+01 6prcL f.26.1.1 43461 1qazA 351 1.75e+01 1qazA a.102.3.1 18848 1aisB 200 1.80e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1ffkM 148 1.82e+01 1ffkM a.94.1.1 18740 1ysc 421 1.84e+01 1ivyA c.69.1.5 34652 1obbA 480 1.86e+01 c.2.1.5 86760 d.162.1.2 86761 1ldg 316 1.86e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1qf9A 194 1.88e+01 1zin c.37.1.1 31848 1mxrA 375 1.96e+01 a.25.1.2 85197 1jj2O 148 1.99e+01 1ffkM a.94.1.1 63100 1n7sA 63 2.01e+01 h.1.15.1 80271 1i5nA 146 2.03e+01 1i5nA a.24.10.3 61805 1jfzA 154 2.13e+01 a.149.1.1 66655 1jqcA 375 2.16e+01 1xikA a.25.1.2 63229 1xikA 375 2.24e+01 1xikA a.25.1.2 16784 1nal1 297 2.24e+01 1nal3 1kyqA 274 2.32e+01 c.2.1.11 73281 e.37.1.1 73282 1ash 150 2.34e+01 1ash a.1.1.2 15622 1uox 296 2.34e+01 1uox d.96.1.4 40673 d.96.1.4 40674 1db1A 259 2.37e+01 1db1A a.123.1.1 19329 1jraA 117 2.39e+01 a.24.15.1 67117 1pd21 199 2.40e+01 1pd21 1r4uA 301 2.41e+01 1f5nA 592 2.42e+01 1dg3A a.114.1.1 19077 c.37.1.8 32152 1t5jA 313 2.52e+01 1i4tB 224 2.54e+01 h.4.7.1 61730 1bg7 176 2.55e+01 2fha a.25.1.1 16686 1e52A 63 2.55e+01 1e52A a.2.9.1 59256 1pn1A 176 2.58e+01 1s0pA 176 2.58e+01 1q16C 225 2.62e+01 1qdbA 473 2.63e+01 1qdbA a.138.1.3 19688 1pk5A 248 2.67e+01 a.123.1.1 88139 1jqiA 388 2.71e+01 a.29.3.1 67087 e.6.1.1 67088 1t2dA 322 2.74e+01 1ka2A 499 2.76e+01 d.92.1.5 77305 1mn3A 54 2.76e+01 a.5.2.4 85024 1efnB 152 2.86e+01 1efnB d.102.1.1 40699 1hkxA 147 2.88e+01 d.17.4.7 83567 1a7vA 125 2.93e+01 1cpq a.24.3.2 16562 1ej6D 418 2.95e+01 i.7.1.1 45970 1v54B 227 2.96e+01 1i4sA 147 3.05e+01 a.149.1.1 66026 1fm9D 272 3.07e+01 2prgA a.123.1.1 19313 1fkmA 396 3.11e+01 1fkmA a.69.2.1 18315 a.69.2.1 18316 1sfcA 96 3.13e+01 1sfcA h.1.15.1 45643 1prgA 270 3.13e+01 2prgA a.123.1.1 19314 1ithA 141 3.20e+01 1ithA a.1.1.2 15623 3ertA 261 3.22e+01 3erdA a.123.1.1 19292 1ceqA 316 3.23e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 1f7uA 607 3.23e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1e2xA 243 3.24e+01 1e2xA a.4.5.6 16113 a.78.1.1 18443 1r2fA 319 3.25e+01 1r2fA a.25.1.2 16800 1j7nB 776 3.26e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1babA 143 3.26e+01 1abwA a.1.1.2 15235 1oqcA 125 3.27e+01 a.24.15.1 87264 1up8A 598 3.28e+01 1scfA 273 3.28e+01 1exzA a.26.1.2 16873 1qe3A 489 3.29e+01 2bce c.69.1.1 34630 1tgoA 773 3.30e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1l2iA 261 3.37e+01 a.123.1.1 73503 1sfcE 96 3.44e+01 1sfcE h.1.15.1 45647 1o20A 427 3.45e+01 c.82.1.1 86556 1ie9A 259 3.46e+01 1db1A a.123.1.1 62318 1oe8A 211 3.47e+01 a.45.1.1 86905 c.47.1.5 86906 1orjA 130 3.59e+01 3nodB 423 3.60e+01 1nseA d.174.1.1 42513 1irdA 141 3.67e+01 a.1.1.2 66286 1eca 136 3.69e+01 1flp a.1.1.2 15209 1ecd 136 3.69e+01 1flp a.1.1.2 15211 1g5yA 238 3.74e+01 1lbd a.123.1.1 60294 1uouA 474 3.79e+01 1nal3 297 3.80e+01 1nal3 1iv8A 720 3.86e+01 b.71.1.1 76842 c.1.8.1 76843 1jj2U 70 3.91e+01 1ffkS a.2.2.1 63106 1f1eA 154 3.94e+01 a.22.1.2 64927