# List of top-scoring protein chains for t2k-w0.5 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 1h0oA 390 7.51e-01 1xsm 390 7.51e-01 1xsm a.25.1.2 16804 1qrdA 273 1.43e+00 1d4aA c.23.5.3 31217 1bg1A 722 3.34e+00 1bg1A a.47.1.1 17767 b.2.5.1 22461 d.93.1.1 40527 1im8A 244 3.76e+00 c.66.1.14 66212 1kewA 361 4.43e+00 c.2.1.2 68544 1qlzA 210 6.39e+00 1b10A d.6.1.1 37309 1bo4A 168 7.65e+00 1bo4A d.108.1.1 40798 1bo4B 168 7.65e+00 1bo4A d.108.1.1 40799 2sbt 275 8.08e+00 1gci c.41.1.1 32539 1sbt 275 8.08e+00 1gci c.41.1.1 32538 1f16A 192 9.07e+00 1f16A f.1.4.1 43400 1h69A 273 1.12e+01 c.23.5.3 60665 1qbgA 272 1.13e+01 1d4aA c.23.5.3 31227 1d4aA 273 1.13e+01 1d4aA c.23.5.3 31219 1kbqA 273 1.13e+01 c.23.5.3 68391 1dxqA 273 1.26e+01 1d4aA c.23.5.3 31213 1qdqA 253 1.32e+01 1theB d.3.1.1 37064 1l0mA 212 1.33e+01 1thg 544 1.43e+01 1thg c.69.1.17 34763 1f50A 227 1.43e+01 1c3wA f.2.1.1 43406 1e0pA 228 1.46e+01 1c3wA f.2.1.1 43416 1qfsA 710 1.48e+01 1qfmA b.69.7.1 27677 c.69.1.4 34645 1e8nA 710 1.50e+01 1qfmA b.69.7.1 27675 c.69.1.4 34643 1fiuA 286 1.50e+01 1fiuA c.52.1.10 33317 1pd21 199 1.51e+01 1pd21 1qfmA 710 1.57e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1iruN 219 1.58e+01 1qs8A 329 1.61e+01 1smrA b.50.1.2 26887 1kgbA 231 1.64e+01 f.2.1.1 68581 1qhjA 248 1.65e+01 1c3wA f.2.1.1 43409 2at9 247 1.65e+01 1c3wA f.2.1.1 43427 1brd 248 1.65e+01 1c3wA f.2.1.1 43404 1cwqA 248 1.68e+01 1c3wA f.2.1.1 43412 1e5tA 710 1.73e+01 1qfmA b.69.7.1 27676 c.69.1.4 34644 1ft2A 315 1.82e+01 1ft1A a.118.6.1 19190 1m0kA 262 1.88e+01 1qs0A 407 2.01e+01 1qs0A c.36.1.3 31829 1csbB 205 2.10e+01 1theB 1eweA 363 2.15e+01 1fbaA c.1.10.1 29136 1j4eA 363 2.37e+01 c.1.10.1 66375 1repC 251 2.46e+01 1repC a.4.5.10 16125 a.4.5.10 16126 1fc2D 224 2.47e+01 1igtB b.1.1.2 21516 b.1.1.2 21517 1fc1A 224 2.47e+01 1igtB b.1.1.2 21520 b.1.1.2 21521 2nef 136 2.48e+01 1efnB d.102.1.1 40704 1iisB 224 2.49e+01 1igtB b.1.1.2 62456 b.1.1.2 62457 1jv7A 249 2.50e+01 f.2.1.1 67347 1avxB 172 2.51e+01 1wba b.42.4.1 25600 1iixB 224 2.51e+01 1igtB b.1.1.2 62464 b.1.1.2 62465 1jv6A 249 2.52e+01 f.2.1.1 67346 1e4kA 225 2.53e+01 1igtB b.1.1.2 21526 b.1.1.2 21527 1pbk 116 2.68e+01 1fkj d.26.1.1 38428 1m6iA 493 2.85e+01 1qflA 389 2.93e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1ewdA 363 3.03e+01 1fbaA c.1.10.1 29132 1k7jA 206 3.05e+01 3pbh 317 3.06e+01 1theB d.3.1.1 37053 1ftrA 296 3.06e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 6aldA 363 3.08e+01 1fbaA c.1.10.1 29144 1gmyA 261 3.08e+01 1ar2 109 3.10e+01 8fabA b.1.1.1 20522 1fbkA 248 3.29e+01 1c3wA f.2.1.1 43426 1fkx 349 3.31e+01 1a4mA c.1.9.1 29018 1guyC 309 3.33e+01 c.2.1.5 65584 d.162.1.1 65585 1dqlL 106 3.38e+01 32c2A b.1.1.1 19828 2gtuA 217 3.44e+01 1b8xA a.45.1.1 17605 c.47.1.5 32899 1mirA 322 3.48e+01 1theB d.3.1.1 37062 1kopA 223 3.57e+01 2cba b.74.1.1 27966 1l6xA 207 3.61e+01 1koqA 222 3.65e+01 2cba b.74.1.1 27964 1fccA 206 3.66e+01 1igtB b.1.1.2 21524 b.1.1.2 21525 1hna 217 3.69e+01 1b8xA a.45.1.1 17604 c.47.1.5 32898 1cy7A 599 3.74e+01 1ecl e.10.1.1 43244 1frtC 205 3.74e+01 1igtB b.1.1.2 21544 b.1.1.2 21545 1hm4A 336 3.81e+01 1kepA 348 3.83e+01 c.2.1.2 68536 1koqB 221 3.88e+01 2cba b.74.1.1 27965 1ps1A 337 3.90e+01 1ps1A a.128.1.4 19450