# List of top-scoring protein chains for t2k-100-30-near-backbone-11-scores 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.soe.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 3cbnA 151 2.24e-01 1pa2A 306 1.15e+00 1bgp a.93.1.1 18693 1gwuA 309 1.50e+00 a.93.1.1 83351 2atjA 308 1.92e+00 1bgp a.93.1.1 18675 1qgjA 300 1.95e+00 1bgp a.93.1.1 18691 1s35A 214 2.24e+00 a.7.1.1,a.7.1.1 98420,98421 7atjA 308 2.66e+00 1bgp a.93.1.1 18673 1kufA 203 3.24e+00 d.92.1.9 73007 1x3cA 73 3.56e+00 g.37.1.1 121660 1cdy 178 4.47e+00 1cdy 1m7sA 484 4.80e+00 e.5.1.1 74574 1a4eA 488 5.46e+00 1cf9A e.5.1.1 42806 1d2eA 397 5.60e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1bgpA 309 6.23e+00 a.93.1.1 18690 1oohA 126 6.43e+00 a.39.2.1 93383 2olpA 152 8.75e+00 1y8xA 160 9.48e+00 d.20.1.1 122769 3cnqP 80 9.53e+00 1scjB 71 9.58e+00 1scjB d.58.3.2 39069 1mfmA 153 9.73e+00 1mfmA b.1.8.1 22246 1lxjA 104 9.96e+00 d.58.48.1 84736 2hq7A 146 1.02e+01 b.45.1.1 136657 1kugA 203 1.04e+01 d.92.1.9 73008 2hqhE 25 1.05e+01 2ny1B 184 1.20e+01 b.1.1.1,b.1.1.3 138764,138765 1o4rA 108 1.30e+01 d.93.1.1 92469 1danT 80 1.38e+01 1boy b.1.2.1 21953 1j0tA 78 1.44e+01 a.163.1.1 77051 1zxuA 217 1.47e+01 d.23.1.2 125796 2omlA 189 1.60e+01 1ifrA 121 1.60e+01 b.1.16.1 71203 1nrzA 164 1.61e+01 c.38.1.1 86131 2p0aA 344 1.64e+01 1oaa 259 1.65e+01 1oaa 1oaaA 259 1.66e+01 c.2.1.2 29829 2cfxA 144 1.66e+01 a.4.5.32,d.58.4.2 130395,130396 1ayjA 51 1.67e+01 g.3.7.5 44177 1dqpA 230 1.67e+01 1dqnA c.61.1.1 34069 2aydA 76 1.74e+01 1adtA 356 1.75e+01 a.54.1.1,g.51.1.1,g.51.1.1 17887,45362,45368 1adt 356 1.75e+01 1anv 2gysA 419 1.75e+01 b.1.2.1,b.1.2.1,b.1.2.1,b.1.2.1 135865,135866,135867,135868 1f2fA 104 1.78e+01 1fmk d.93.1.1 40455 2furA 209 1.90e+01 b.45.1.1 134185 2r6hA 290 2.02e+01 1ru0A 105 2.05e+01 d.74.1.1 111937 2pftA 571 2.06e+01 1vih 71 2.12e+01 1vih 1d0dA 60 2.13e+01 1kigI g.8.1.2 44566 2uywA 130 2.19e+01 1ikpA 613 2.25e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 2dyuA 334 2.29e+01 1eu3A 210 2.32e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1g61A 228 2.33e+01 1g61A d.126.1.1 41126 2jgnA 185 2.35e+01 1dqnA 230 2.36e+01 1dqnA c.61.1.1 34067 2vl6A 268 2.38e+01 1shaA 104 2.39e+01 1fmk d.93.1.1 40424 2gwfA 157 2.43e+01 c.46.1.4 135802 2obtA 327 2.44e+01 1wj2A 78 2.46e+01 g.79.1.1 114689 1vblA 416 2.60e+01 2qgoA 141 2.61e+01 1shdA 107 2.62e+01 1fmk d.93.1.1 40440 1z5oA 242 2.63e+01 2q4mA 217 2.71e+01 d.23.1.2 139870 1dmhA 311 2.77e+01 1dmhA b.3.6.1 22633 1efuA 385 2.83e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1h03P 125 2.84e+01 g.18.1.1,g.18.1.1 83411,83412 1um5H 217 2.87e+01 b.1.1.1,b.1.1.2 113302,113303 1i7nA 309 2.90e+01 c.30.1.5,d.142.1.3 83681,83682 1kw3B 292 3.05e+01 d.32.1.3,d.32.1.3 77549,77550 1z5nA 242 3.09e+01 1xneA 113 3.33e+01 b.122.1.6 115579 1fmk 452 3.34e+01 1fmk 2ebjA 192 3.38e+01 2i5nM 323 3.40e+01 f.26.1.1 137067 1l7dA 384 3.44e+01 c.2.1.4,c.23.12.2 77774,77775 1zuoA 186 3.46e+01 d.20.1.1 125680 1w9aA 147 3.57e+01 b.45.1.1 114408 1lkkA 105 3.61e+01 1lckA d.93.1.1 40412 1edqA 540 3.77e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1d9eA 284 3.87e+01 1d9eA c.1.10.4 29195 3cniA 156 3.88e+01 1k4tA 592 3.91e+01 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 1ft9A 222 3.94e+01 1ft9A a.4.5.4,b.82.3.1 16107,28131 1zrnA 232 3.96e+01 c.108.1.1 43323 1tf6A 190 4.04e+01 1tf6A g.37.1.1,g.37.1.1,g.37.1.1,g.37.1.1,g.37.1.1,g.37.1.1 45060,45061,45062,45063,45064,45065 1ctn 540 4.05e+01 1ctn 1jysA 242 4.08e+01 c.56.2.1 77216 1k9tA 540 4.18e+01 b.1.18.2,c.1.8.5,d.26.3.1 77298,77299,77300 1dpeA 507 4.27e+01 c.94.1.1 35799 1i8dA 213 4.28e+01 b.43.4.3,b.43.4.3 61953,61954 2z0tA 109 4.29e+01 3bnwA 181 4.40e+01 1z6jT 211 4.50e+01 b.1.2.1,b.1.2.1 124527,124528 3biyA 380 4.52e+01 6prcM 323 4.57e+01 6prcM f.26.1.1 43435 2genA 197 4.58e+01 a.4.1.9,a.121.1.1 135062,135063 1auvA 311 4.60e+01 1auvA c.30.1.5,d.142.1.3 31723,41558 1jhsA 188 4.61e+01 d.107.1.1 84172 1jxgA 100 4.62e+01 b.6.1.1 67413 2fn9A 290 4.72e+01 1lcjA 109 4.72e+01 1qadA d.93.1.1 40414 1wqbA 32 4.74e+01 1xf1A 926 4.75e+01 1go4A 205 4.78e+01 d.135.1.1 70292 1u5kA 244 4.86e+01 b.40.4.13,g.45.1.2 113038,113039 1qxmA 300 4.88e+01 b.42.2.1,b.42.2.1 96533,96534 2j01P 150 5.02e+01 1a34A 159 5.13e+01 1a34A b.121.7.1 23286 2e27H 126 5.19e+01 2h5xA 196 5.22e+01 1zvhA 134 5.26e+01 1iz6A 138 5.26e+01 b.34.5.2,b.40.4.5 76976,76977 1tf3A 92 5.40e+01 1aayA g.37.1.1,g.37.1.1,g.37.1.1 45057,45058,45059 2htiA 185 5.41e+01 b.45.1.1 136744 2d7eA 105 5.48e+01 1b9dA 163 5.51e+01 1b9dA c.55.3.2 33649 1i1nA 226 5.54e+01 c.66.1.7 71102 1aipA 405 5.62e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1b2wH 220 5.65e+01 1igtB b.1.1.1,b.1.1.2 20307,21299 1ir6A 424 5.66e+01 c.107.1.2 71342 1tmxA 293 5.89e+01 2rmpA 361 5.91e+01 2rmpA b.50.1.2 26825 1jk0B 345 5.93e+01 a.25.1.2 63143 2hu9A 130 5.98e+01 1pgjA 478 6.22e+01 2pgd a.100.1.1,c.2.1.6 18783,30195 1lkdA 297 6.22e+01 d.32.1.3,d.32.1.3 78059,78060 1klqA 197 6.24e+01 d.135.1.1 68689 2hsbA 126 6.27e+01 1wadA 112 6.33e+01 a.138.1.1 19658 1a36A 592 6.33e+01 1a36A a.2.8.1,d.163.1.2,e.15.1.1 15715,42173,43266 1q0eA 152 6.35e+01 b.1.8.1 95504 2nrqA 159 6.36e+01 1rlmA 271 6.37e+01 c.108.1.10 111860 1g2bA 62 6.42e+01 1tud b.34.2.1 24488 1agjA 242 6.45e+01 1agjA b.47.1.1 25827 2iihA 157 6.52e+01 2b3yA 888 6.59e+01 c.8.2.1,c.83.1.1 127803,127804 1zc1A 208 6.61e+01 2pmvA 399 6.67e+01 2d00A 109 6.91e+01 1hyvA 166 6.98e+01 1b9dA c.55.3.2 61424 2hbwA 235 7.02e+01 1d1qA 161 7.02e+01 1dg9A c.44.1.1 32642 1to4A 156 7.07e+01 b.1.8.1 107162 2hq9A 149 7.12e+01 b.45.1.1 136659 2azqA 311 7.31e+01 1bl3A 160 7.32e+01 1b9dA c.55.3.2 33655 1han 297 7.36e+01 1han 1x13A 401 7.37e+01 1t1iA 364 7.37e+01 c.41.1.2 106248 1fo1A 271 7.51e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 2hi6A 141 7.81e+01 c.8.2.3 136523 2p3nA 256 7.84e+01 1eq6A 189 7.95e+01 1eq6A d.107.1.1 40796