# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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.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 1rfeA 162 1.84e-15 2asfA 137 2.58e-12 2fg9A 178 5.36e-11 2aq6A 147 3.77e-09 1xxoA 147 1.71e-08 2fhqA 141 1.72e-08 1w9aA 147 2.08e-08 2furA 209 2.13e-08 1dnlA 199 1.21e-07 1ci0A b.45.1.1 25753 1g79A 218 1.33e-07 1ci0A b.45.1.1 25752 1t9mA 214 4.59e-06 1w3oA 216 1.88e-05 1nrgA 261 3.49e-05 b.45.1.1 80694 1vl7A 157 3.77e-05 b.45.1.1 108732 1ty9A 222 1.42e-04 1ejeA 192 2.89e-04 1ejeA b.45.1.2 25757 1axj 122 4.26e-04 1axj b.45.1.1 25749 2arzA 247 2.41e-03 1flmA 122 2.79e-03 1axj b.45.1.1 25747 1ci0A 228 1.41e-02 1ci0A b.45.1.1 25750 1xhnA 184 1.60e-01 2fsqA 243 8.76e-01 2d93A 134 2.03e+00 1pvtA 238 2.29e+00 c.74.1.1 95189 1gc1G 321 3.49e+00 1gc1G d.172.1.1 42493 1rzjG 321 3.55e+00 d.172.1.1 98200 1m40A 263 4.18e+00 e.3.1.1 74437 1g9mG 321 4.37e+00 1gc1G d.172.1.1 42492 1cmxA 236 4.49e+00 1uch d.3.1.6 37130 2fywA 267 4.88e+00 1fqgA 263 5.38e+00 1btl e.3.1.1 42699 1ermA 263 5.44e+00 1btl e.3.1.1 42690 1ko3A 230 5.99e+00 d.157.1.1 90974 1sdjA 310 6.16e+00 d.21.1.2,d.21.1.2 98807,98808 1qyaA 307 6.78e+00 d.21.1.2,d.21.1.2 104653,104654 1qryA 80 7.10e+00 2hddA a.4.1.1 16016 1aquA 297 7.89e+00 1aquA c.37.1.5 31942 1btl 263 8.12e+00 1btl e.3.1.1 42691 2bw2A 140 9.41e+00 2fvgA 340 9.67e+00 1fxjA 331 1.17e+01 1fwyA b.81.1.4,c.68.1.5 28062,34520 1yqdA 366 1.23e+01 2fauA 341 1.26e+01 1fwyA 331 1.36e+01 1fwyA b.81.1.4,c.68.1.5 28064,34522 1hv9A 456 1.44e+01 1fwyA b.81.1.4,c.68.1.5 28060,34518 2ftzA 284 1.46e+01 1pbuA 162 1.48e+01 d.58.46.1 88030 2pcdM 238 1.54e+01 3pchM b.3.6.1 22760 1v39 322 1.59e+01 3mag c.66.1.25 34206 1mc0A 368 1.69e+01 d.110.2.1,d.110.2.1 78937,78938 1m6yA 301 1.70e+01 a.60.13.1,c.66.1.23 78716,78717 1vp9 322 1.74e+01 3mag c.66.1.25 34210 1xewX 182 1.75e+01 3pcgM 238 1.82e+01 3pchM b.3.6.1 22742 1rbp 182 1.82e+01 1aqb b.60.1.1 27085 1xt9A 212 1.92e+01 1kt6A 183 1.92e+01 b.60.1.1 84466 2gptA 523 1.94e+01 1hbp 183 1.99e+01 1aqb b.60.1.1 27079 1qqsA 174 2.02e+01 1nglA b.60.1.1 27143 1zymA 258 2.05e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1wmmA 145 2.11e+01 1enp 312 2.19e+01 1enp c.2.1.2 29906 1h9sA 140 2.22e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 1zo2A 129 2.23e+01 1avc 673 2.24e+01 1avc a.65.1.1,a.65.1.1 18178,18179 1yymG 313 2.28e+01 1gky 187 2.42e+01 1gky c.37.1.1 31839 1wbpA 397 2.48e+01 1fr1A 361 2.50e+01 1gceA e.3.1.1 42734 1vpt 348 2.51e+01 3mag c.66.1.25 34207 1uuzA 137 2.51e+01 d.233.1.1 100024 1amuA 563 2.59e+01 1amuA e.23.1.1 43351 1aqb 183 2.81e+01 1aqb b.60.1.1 27084 1bbpA 173 2.82e+01 1bbpA b.60.1.1 27147 1jsxA 207 2.84e+01 c.66.1.20 71846 1g3mA 294 2.93e+01 c.37.1.5 83268 1ex7A 186 2.94e+01 1gky c.37.1.1 59537 1hy3A 294 2.95e+01 c.37.1.5 71090 2bbsA 290 2.96e+01 3mag 307 3.05e+01 3mag c.66.1.25 34205 1eza 259 3.08e+01 1zymA a.60.10.1,c.8.1.2 18113,30708 1a31A 538 3.11e+01 1a36A d.163.1.2,e.15.1.1 42170,43263 2ew8A 249 3.15e+01 1r6lA 239 3.16e+01 d.14.1.4,d.101.1.1 97153,97154 1eno 312 3.23e+01 1enp c.2.1.2 29905 1a35A 538 3.28e+01 1a36A d.163.1.2,e.15.1.1 42171,43264 1a6dA 545 3.32e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 1pzwA 80 3.33e+01 g.39.1.10 95483 3pchM 238 3.43e+01 3pchM b.3.6.1 22748 1ej9A 563 3.61e+01 1a36A d.163.1.2,e.15.1.1 42172,43265 1rgyA 360 3.66e+01 e.3.1.1 97456 1bdb 277 3.70e+01 1bdb c.2.1.2 29874 1gpwB 201 3.72e+01 c.23.16.1 65461 1oe4A 247 3.76e+01 c.18.1.3 86895 2ga9A 297 3.81e+01 1ass 159 4.03e+01 1a6dA c.8.5.2 30818 2es9A 115 4.03e+01 1k4tA 592 4.24e+01 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 1bfi 112 4.28e+01 1qadA d.93.1.1 40499 1a36A 592 4.29e+01 1a36A a.2.8.1,d.163.1.2,e.15.1.1 15715,42173,43266 2cxaA 256 4.31e+01 1o5oA 221 4.32e+01 c.61.1.1 92509 1fobA 334 4.36e+01 c.1.8.3 83255 1rhi3 236 4.41e+01 1aym3 1b9mA 265 4.42e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1hbq 183 4.49e+01 1aqb b.60.1.1 27078 1chrA 370 4.50e+01 1mucA c.1.11.2,d.54.1.1 29252,38896 1av6A 289 4.57e+01 3mag c.66.1.25 34218 1vs0A 310 4.59e+01 1d7oA 297 4.59e+01 1enp c.2.1.2 29907 1j4wA 174 4.63e+01 d.51.1.1,d.51.1.1 71529,71530 1k9vF 201 4.69e+01 c.23.16.1 68365 1xv2A 237 4.77e+01 1sjwA 144 4.79e+01 d.17.4.9 98899 1cj3A 392 4.92e+01 1pbe c.3.1.2,d.16.1.2 30347,37878 1a22A 180 4.98e+01 1huw a.26.1.1 16833 1vi1A 345 5.02e+01 c.77.1.4 100724 1pi4A 358 5.04e+01 e.3.1.1 94700 2bkrA 212 5.10e+01 2ffyA 358 5.14e+01 1mvfA 135 5.18e+01 b.1.1.1 85141 2cmwA 310 5.18e+01 1agjA 242 5.22e+01 1agjA b.47.1.1 25827 1kvlA 358 5.24e+01 e.3.1.1 73062 2bjrA 368 5.25e+01 1t3kA 152 5.31e+01 c.46.1.1 106357 1w98B 283 5.42e+01 1ytaA 180 5.48e+01 1garA 212 5.52e+01 2gar c.65.1.1 34162 1asx 159 5.68e+01 1a6dA c.8.5.2 30821 2ca6A 386 5.86e+01 1bp3A 191 5.87e+01 1huw a.26.1.1 16838 1qksA 567 5.91e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1e2wA 251 5.97e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1igtB 444 5.97e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 19765,20867,20868,20869 1sr4A 206 6.00e+01 b.42.2.1 105948 1rcqA 357 6.16e+01 b.49.2.2,c.1.6.1 104882,104883 2etvA 346 6.32e+01 1lm6A 215 6.34e+01 d.167.1.1 84628 1zboA 210 6.36e+01 1axiA 191 6.49e+01 1huw a.26.1.1 16832 1v9sA 208 6.49e+01 1gifA 115 6.55e+01 1dptA d.80.1.3 39837 1gmlA 178 6.60e+01 c.8.5.2 70273 1tf5A 844 6.65e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1h9jA 145 6.76e+01 1h9jA b.40.6.2,b.40.6.2 60829,60830 2phh 394 6.76e+01 1pbe c.3.1.2,d.16.1.2 30353,37884 1w5rA 278 6.78e+01 1k82A 268 6.79e+01 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 1d2rB 326 6.87e+01 1d2rB c.26.1.1 31573 1x71A 178 6.99e+01 1cwoA 165 7.00e+01 2cpl b.62.1.1 27445 1d2rA 326 7.03e+01 1d2rB c.26.1.1 31572 1x89A 178 7.09e+01 1vk8A 106 7.12e+01 d.58.48.1 108636 1igtD 444 7.13e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 19767,20871,20872,20873 1aoqA 567 7.29e+01 1qksA a.3.1.2,b.70.2.1 15934,27692 1l0gA 358 7.31e+01 e.3.1.1 73400 1yemA 179 7.43e+01 1oapA 109 7.45e+01 d.79.7.1 92706 1pguA 615 7.47e+01 b.69.4.1,b.69.4.1 88069,88070 1gd0A 122 7.49e+01 1dptA d.80.1.3 39834 1awqA 164 7.67e+01 2cpl b.62.1.1 27461 1yrgA 385 7.70e+01 1yrgA c.10.1.2 30854 1yrgB 385 7.75e+01 1yrgA c.10.1.2 30855 1ti6B 274 7.78e+01 b.3.5.1,d.58.1.5 106976,106977 1j0mA 752 7.86e+01 a.102.3.2,b.24.1.1,b.30.5.2 83910,83911,83912 2agyA 361 7.90e+01 1yndA 165 8.04e+01 2bnfB 241 8.10e+01 1lt3A 240 8.10e+01 1lt3A d.166.1.1 42230 1widA 130 8.13e+01 1dgwX 79 8.29e+01 1caxB b.82.1.2 28091 1fchA 368 8.32e+01 1fchA a.118.8.1 19212 1wwhA 119 8.37e+01 1c0aA 585 8.46e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 2cpl 165 8.49e+01 2cpl b.62.1.1 27420 1ykjA 394 8.49e+01 1btkB 169 8.51e+01 1btkA b.55.1.1 26960