# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 3.01e-01 1q0gA 117 6.70e-01 1fcyA 236 1.08e+00 2lbd a.123.1.1 19282 1vh6A 145 1.37e+00 4lbd 267 1.45e+00 2lbd a.123.1.1 19289 1lf6A 684 1.59e+00 a.102.1.5 77918 b.30.5.5 77919 2lbd 267 1.60e+00 2lbd a.123.1.1 19287 256bA 106 1.97e+00 256bA a.24.3.1 16539 1keyA 235 2.39e+00 a.118.16.1 72389 1ovlA 271 2.50e+00 a.123.1.1 87455 1nktA 922 2.77e+00 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1v4eA 299 3.15e+00 1m6nA 802 4.01e+00 a.162.1.1 78697 a.172.1.1 78698 c.37.1.19 78699 c.37.1.19 78700 1h96A 182 4.06e+00 2fha a.25.1.1 60811 1dat 174 4.29e+00 2fha a.25.1.1 16677 1aew 174 4.54e+00 2fha a.25.1.1 16676 1ir6A 424 5.80e+00 c.107.1.2 71342 1gtmA 419 5.85e+00 1hwyA c.2.1.7 30223 c.58.1.1 33871 5cpp 414 6.48e+00 1phd a.104.1.1 18935 1jpxA 84 6.61e+00 h.3.2.1 71783 1qmqA 414 7.22e+00 1phd a.104.1.1 18907 1o0wA 252 7.33e+00 a.149.1.1 80751 d.50.1.1 80752 1o04A 500 7.37e+00 c.82.1.1 86508 1dz4A 414 8.25e+00 1phd a.104.1.1 18903 1lb3A 182 8.32e+00 a.25.1.1 77873 1anxA 319 9.65e+00 1avc a.65.1.1 18161 1fs7A 485 1.05e+01 1qdbA a.138.1.3 19691 1i7gA 287 1.07e+01 a.123.1.1 71121 2ligA 164 1.17e+01 1vls a.24.2.1 16530 1rxwA 336 1.18e+01 1phd 414 1.24e+01 1phd a.104.1.1 18913 1m2tA 254 1.26e+01 d.165.1.1 84761 1phg 414 1.26e+01 1phd a.104.1.1 18910 1phb 414 1.28e+01 1phd a.104.1.1 18906 1vls 146 1.31e+01 1vls a.24.2.1 16532 1un8A 552 1.45e+01 2occB 227 1.53e+01 2occB b.6.1.2 23027 f.17.2.1 43519 1h6oA 204 1.54e+01 a.146.1.1 60689 1l8dA 112 1.69e+01 h.4.12.1 73687 1nubA 229 1.71e+01 1sra a.39.1.3 17191 g.3.11.3 44330 g.15.1.1 44715 1db1A 259 1.75e+01 1db1A a.123.1.1 19329 1jr8A 117 1.77e+01 a.24.15.1 67115 1io7A 368 1.80e+01 1f4tA a.104.1.1 18971 5ukdA 194 1.83e+01 1zin c.37.1.1 31851 1j1jA 240 1.91e+01 1ffkM 148 1.98e+01 1ffkM a.94.1.1 18740 1jj2O 148 2.01e+01 1ffkM a.94.1.1 63100 1usuA 260 2.13e+01 1pn1A 176 2.15e+01 1s0pA 176 2.15e+01 1d3uB 201 2.17e+01 1aisB a.74.1.2 18386 a.74.1.2 18387 1bxsA 501 2.17e+01 1bpwA c.82.1.1 35357 1rqjA 299 2.27e+01 1kyqA 274 2.35e+01 c.2.1.11 73281 e.37.1.1 73282 1or4A 178 2.38e+01 1jraA 117 2.39e+01 a.24.15.1 67117 1f1eA 154 2.44e+01 a.22.1.2 64927 1fdyA 297 2.45e+01 1nal3 c.1.10.1 29071 1h6gA 256 2.45e+01 1h6gA a.24.9.1 60669 a.24.9.1 60670 1g7oA 215 2.47e+01 1g7oA a.45.1.1 60332 c.47.1.5 60333 1obbA 480 2.64e+01 c.2.1.5 86760 d.162.1.2 86761 1a87 321 2.84e+01 1a87 f.1.1.1 43380 1h6pA 203 2.85e+01 a.146.1.1 60690 1qf9A 194 2.89e+01 1zin c.37.1.1 31848 1qmzB 259 2.92e+01 1vin a.74.1.1 18338 a.74.1.1 18339 1fm9D 272 2.93e+01 2prgA a.123.1.1 19313 1uox 296 3.24e+01 1uox d.96.1.4 40673 d.96.1.4 40674 1r4uA 301 3.27e+01 1k8kG 151 3.30e+01 a.118.13.1 68313 1nal1 297 3.36e+01 1nal3 1eb6A 177 3.43e+01 d.92.1.12 64895 1aisB 200 3.51e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1vin 268 3.54e+01 1vin a.74.1.1 18354 a.74.1.1 18355 1oqcA 125 3.56e+01 a.24.15.1 87264 1hl2A 297 3.68e+01 c.1.10.1 83581 1eemA 241 3.69e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 1ej6D 418 3.76e+01 i.7.1.1 45970 1e2xA 243 3.80e+01 1e2xA a.4.5.6 16113 a.78.1.1 18443 1n7sA 63 4.00e+01 h.1.15.1 80271