# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1souA 194 1.21e-27 1k9vF 201 5.75e-01 c.23.16.1 68365 1gpwB 201 9.01e-01 c.23.16.1 65461 1e20A 209 9.58e-01 1e20A c.34.1.1 31759 1l7mA 211 1.08e+00 c.108.1.4 73664 1mvlA 209 1.31e+00 c.34.1.1 85146 1fy2A 229 1.44e+00 1fyeA c.23.16.4 31478 1fyeA 229 1.44e+00 1fyeA c.23.16.4 31477 1poiA 317 1.53e+00 1poiA unknown_sccs 34153 1f5sA 211 1.58e+00 1f5sA c.108.1.4 59656 1e6mA 128 1.90e+00 3chy c.23.1.1 31039 1j97A 211 2.16e+00 1f5sA c.108.1.4 62753 3chy 128 2.27e+00 3chy c.23.1.1 31038 1ka9H 200 2.44e+00 c.23.16.1 77308 1h4vB 421 3.17e+00 1adjA c.51.1.1 60624 d.104.1.1 60625 1m64A 571 3.88e+00 a.138.1.3 78683 c.3.1.4 78684 d.168.1.1 78685 1w2wB 191 3.96e+00 1p77A 272 4.06e+00 c.2.1.7 -5965 c.58.1.5 -6371 1f8xA 157 4.07e+00 1f8xA c.23.14.1 31397 1lj1A 571 4.34e+00 a.138.1.3 78023 c.3.1.4 78024 d.168.1.1 78025 1cye 129 4.61e+00 3chy c.23.1.1 31077 1dqwA 267 4.65e+00 1dqwA c.1.2.3 28551 1kssA 571 4.95e+00 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1jnrA 643 4.97e+00 a.7.3.1 66966 c.3.1.4 66967 d.168.1.1 66968 1efvB 255 5.33e+00 1efvB c.26.2.3 31634 1q9iA 571 5.50e+00 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607 1f8yA 157 5.52e+00 1f8xA c.23.14.1 31395 1jbeA 128 5.62e+00 3chy c.23.1.1 62845 1k68A 140 5.66e+00 c.23.1.1 -6403 1ihoA 283 5.85e+00 1ihoA c.26.1.4 62390 1qjdA 571 5.94e+00 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1j4aA 333 6.22e+00 c.2.1.4 71502 c.23.12.1 71503 1e39A 571 6.45e+00 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1nvmB 312 6.77e+00 c.2.1.3 86251 d.81.1.1 86252 1dpgA 485 6.99e+00 1dpgA c.2.1.3 30074 d.81.1.5 39989 1hdr 244 7.09e+00 1dhr c.2.1.2 29837 1omzA 293 7.43e+00 c.68.1.15 87093 1uu1A 335 7.85e+00 c.67.1.1 -8146 1et0A 269 7.87e+00 1et0A e.17.1.1 43289 7aatA 401 8.06e+00 1ajsA c.67.1.1 34250 1i2kA 269 8.82e+00 e.17.1.1 -11995 1d4oA 184 9.00e+00 1d4oA c.31.1.4 31748 1adjA 421 9.10e+00 1adjA c.51.1.1 33188 d.104.1.1 40737 1pe0A 197 9.49e+00 c.23.16.2 88045 1p5fA 189 9.78e+00 c.23.16.2 -6508 1dl5A 317 1.02e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1nhp 447 1.11e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1qhuA 460 1.14e+01 1qhuA b.66.1.1 27530 b.66.1.1 27531 1wdnA 226 1.21e+01 1lst c.94.1.1 35816 1skyE 473 1.22e+01 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1ijbA 202 1.22e+01 c.62.1.1 71229 1mo9A 523 1.23e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1jmxB 349 1.24e+01 b.69.2.2 66906 2ltnA 181 1.27e+01 1led b.29.1.1 24024 1lbqA 362 1.33e+01 c.92.1.1 77877 1ksiB 642 1.33e+01 1ksiB b.30.2.1 24409 d.17.2.1 38045 d.17.2.1 38046 1fnsA 196 1.35e+01 1auq c.62.1.1 34136 2dpg 485 1.36e+01 1dpgA c.2.1.3 30076 d.81.1.5 39991 1m7gA 211 1.40e+01 c.37.1.4 78724 1g2iA 166 1.47e+01 1g2iA c.23.16.2 31438 1ixkA 315 1.49e+01 unknown_sccs -8099 1vi9A 299 1.50e+01 c.72.1.5 -8393 1srrA 124 1.53e+01 1dz3A c.23.1.1 31110 1aj2 282 1.56e+01 1aj2 c.1.21.1 29665 1vi6A 208 1.57e+01 c.23.15.1 -6489 1n57A 291 1.59e+01 c.23.16.2 85328 1nhs 447 1.64e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1tc5A 194 1.66e+01 1qdlB 195 1.91e+01 1qdlB c.23.16.1 31437 1ls1A 295 1.94e+01 a.24.13.1 78170 c.37.1.10 78171 1joa 447 1.96e+01 1nhp c.3.1.5 30563 c.3.1.5 30564 d.87.1.1 40203 1o4vA 183 1.98e+01 c.23.8.1 86628 1ng1 294 1.99e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1mldA 314 2.02e+01 2cmd c.2.1.5 30122 d.162.1.1 42089 1tufA 434 2.05e+01 1oakA 196 2.08e+01 1auq c.62.1.1 34138 1ooeA 236 2.12e+01 c.2.1.2 87196 1ksiA 642 2.18e+01 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1aj0 282 2.19e+01 1aj2 c.1.21.1 29667 1j8mF 297 2.22e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1giqA 413 2.23e+01 d.166.1.1 76224 d.166.1.1 76225 1auq 208 2.35e+01 1auq c.62.1.1 34137 1twiA 434 2.44e+01 1fpqA 372 2.44e+01 1fpqA a.4.5.29 59947 c.66.1.12 59948 4ubpC 570 2.50e+01 1ubpC b.92.1.1 28431 c.1.9.2 29053 2ng1 293 2.50e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1puzA 82 2.68e+01 1a4pA 96 2.72e+01 1b4cA a.39.1.2 17176 1b16A 254 2.75e+01 1b16A c.2.1.2 29875 1ccwA 137 2.76e+01 1be1 c.23.6.1 31238 1f3lA 321 2.79e+01 1g6q2 c.66.1.6 59630 1a4uA 254 2.81e+01 1b16A c.2.1.2 29878 1pbe 394 2.92e+01 1pbe c.3.1.2 30338 d.16.1.2 37869 5nul 138 2.93e+01 5nul c.23.5.1 31191 1us8A 147 3.04e+01 c.37.1.12 -7194 1m65A 245 3.04e+01 c.6.3.1 84847 1vknA 351 3.06e+01 1gs5A 258 3.17e+01 c.73.1.2 70395 1koe 172 3.18e+01 1koe d.169.1.5 42448 1pvtA 238 3.24e+01 c.74.1.1 -8444 1am3 70 3.42e+01 2nacA 393 3.46e+01 2nadA c.2.1.4 30088 c.23.12.1 31348 1auvA 311 3.47e+01 1auvA c.30.1.5 31723 d.142.1.3 41558 1i1nA 226 3.49e+01 c.66.1.7 71102 2fox 138 3.50e+01 5nul c.23.5.1 31197 1ie7C 570 3.53e+01 1ubpC b.92.1.1 62315 c.1.9.2 62316 1bgj 394 3.58e+01 1pbe c.3.1.2 30352 d.16.1.2 37883 1jpnA 296 3.61e+01 a.24.13.1 67039 c.37.1.10 67040 1g6oA 330 3.65e+01 1g6oA c.37.1.11 32430 1tmy 120 3.67e+01 1dbwA c.23.1.1 31083 1dhr 241 3.70e+01 1dhr c.2.1.2 29832 1b0uA 262 3.72e+01 1b0uA c.37.1.12 32370 1qpzA 340 3.74e+01 1qpzA a.35.1.5 17097 c.93.1.1 35673 1i1qB 192 3.75e+01 1qdlB c.23.16.1 61544 1a8o 70 3.85e+01 1a8o a.28.3.1 16953