# List of top-scoring protein chains for t06-100-30-bys-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 1xubA 298 2.41e-02 1o17A 345 9.81e-02 a.46.2.1,c.27.1.1 80765,80766 2gkeA 274 1.09e-01 1gqzA 274 1.49e-01 d.21.1.1,d.21.1.1 83311,83312 1w61A 414 1.58e-01 2b3nA 159 1.72e-01 1dp4A 435 5.45e-01 1dp4A c.93.1.1 35710 1p3dA 475 5.78e-01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1josA 128 5.97e-01 d.52.7.1 84191 1bupA 386 6.62e-01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1sr8A 298 6.63e-01 e.54.1.1 105959 1qx4A 274 6.89e-01 b.43.4.2,c.25.1.1 104624,104625 2azpA 318 1.04e+00 1oe4A 247 1.22e+00 c.18.1.3 86895 1vdkA 466 1.29e+00 a.127.1.1 100561 1xttA 216 1.39e+00 1nnxA 109 1.42e+00 b.40.10.1 92013 2gjgA 248 2.14e+00 1ycoA 279 2.33e+00 2f4nA 273 2.36e+00 1wznA 252 2.40e+00 1ynfA 458 2.45e+00 1nscA 390 2.45e+00 2qwc b.68.1.1 27591 1pj5A 830 2.49e+00 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1ixlA 131 2.85e+00 d.38.1.5 90717 1umkA 275 3.24e+00 2cw8A 537 3.28e+00 1ogsA 497 3.40e+00 b.71.1.2,c.1.8.3 86997,86998 2aioA 269 3.76e+00 1gtzA 156 4.02e+00 c.23.13.1 70539 1mkiA 330 4.06e+00 e.3.1.2 84994 1a8rA 221 4.44e+00 1a8rA d.96.1.1 40587 1sziA 247 4.67e+00 a.24.23.1 106159 3tdt 274 4.79e+00 3tdt b.81.1.2 28053 1qwnA 1045 4.93e+00 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1dmhA 311 5.56e+00 1dmhA b.3.6.1 22633 1o8bA 219 5.95e+00 c.124.1.4,d.58.40.1 81180,81181 1f3uA 118 6.22e+00 1f3uA b.65.1.1 27521 1dkqA 410 6.29e+00 1dklA c.60.1.2 33998 1qjtA 99 6.35e+00 1eh2 a.39.1.6 17335 1g5cA 170 6.52e+00 1g5cA c.53.2.1 60264 1q15A 503 6.91e+00 c.26.2.1,d.153.1.1 95538,95539 1rzhL 281 6.92e+00 f.26.1.1 98164 1wosA 364 6.97e+00 b.44.2.1,d.250.1.1 109468,109469 1dkmA 410 7.06e+00 1dklA c.60.1.2 34000 1vljA 407 7.21e+00 e.22.1.2 108832 1xtqA 177 7.50e+00 1y791 680 7.66e+00 1vl2A 421 7.66e+00 c.26.2.1,d.210.1.1 108708,108709 1jc9A 269 8.07e+00 d.171.1.1 66490 1r44A 202 8.36e+00 d.65.1.4 104787 2h0bA 184 8.37e+00 1s1qA 145 8.72e+00 d.20.1.2 98351 1alu 186 9.19e+00 1alu a.26.1.1 16826 2aliA 158 9.26e+00 1eueA 86 9.29e+00 1cyo d.120.1.1 59504 2fr2A 172 9.40e+00 2bw8A 227 9.70e+00 1gmuA 143 1.02e+01 b.107.1.1,d.58.38.1 65335,65336 2aneA 125 1.04e+01 1z94A 147 1.05e+01 2d93A 134 1.06e+01 2bm3A 166 1.07e+01 1jhjA 171 1.08e+01 b.18.1.9 66714 1wekA 217 1.12e+01 1ru0A 105 1.14e+01 1r5eA 115 1.17e+01 1qipA 183 1.18e+01 1qipA d.32.1.1 38470 1k66A 149 1.19e+01 c.23.1.1 90941 1rsy 152 1.20e+01 1rsy b.7.1.2 23192 1twuA 139 1.25e+01 d.32.1.8 107413 1yqfA 203 1.26e+01 1tafB 70 1.31e+01 1tafB a.22.1.3 16482 1z54A 132 1.32e+01 1iznB 277 1.32e+01 e.43.1.2 83848 1j5pA 253 1.34e+01 d.81.1.3,c.2.1.3 71577,83092 1q87A 221 1.34e+01 e.47.1.1 96192 2a8yA 270 1.37e+01 1ym5A 300 1.39e+01 1evsA 187 1.40e+01 1evsA a.26.1.1 16845 1mxmA 254 1.41e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1rzhM 307 1.42e+01 f.26.1.1 98165 1h5uA 842 1.47e+01 1a8i c.87.1.4 60655 1hekA 131 1.49e+01 a.61.1.5 65818 1gmiA 136 1.54e+01 b.7.1.1 65309 1jogA 146 1.56e+01 a.24.16.2 77142 1ualA 274 1.56e+01 c.116.1.4 88383 2yhx 457 1.57e+01 2yhx i.12.1.1 46024 2d0oA 610 1.59e+01 1e1oA 504 1.66e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1rm6A 769 1.70e+01 1wudA 89 1.73e+01 1nnsA 326 1.81e+01 c.88.1.1 85910 1y9wA 140 1.81e+01 1gz2A 142 1.83e+01 d.169.1.1 83392 1zm0A 114 1.84e+01 2a35A 215 1.84e+01 1vh5A 148 1.88e+01 d.38.1.5 100642 1evhA 112 1.90e+01 1evhA b.55.1.4 26997 2fn0A 437 1.90e+01 1w0hA 204 1.94e+01 1jf9A 408 1.96e+01 1c0nA c.67.1.3 62931 1ztdA 133 1.97e+01 4uagA 437 2.04e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1ygaA 342 2.07e+01 1i1nA 226 2.18e+01 c.66.1.7 71102 1pzsA 208 2.19e+01 b.1.8.1 104397 1hf8A 289 2.23e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1dwkA 156 2.24e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1awd 94 2.27e+01 1awd d.15.4.1 37673 1br9 194 2.28e+01 1br9 b.40.3.1 25235 1x6vA 630 2.29e+01 2eutA 294 2.33e+01 1m0dA 138 2.37e+01 c.52.1.17 74354 1v9yA 167 2.43e+01 d.110.3.2 108454 1uwkA 557 2.48e+01 e.51.1.1 108065 1odkA 235 2.49e+01 c.56.2.1 86863 2d4qA 257 2.49e+01 1wtaA 275 2.49e+01 1prxA 224 2.50e+01 1prxA c.47.1.10 33076 1p1mA 406 2.59e+01 b.92.1.4,c.1.9.9 87696,87697 2dbbA 151 2.60e+01 2a13A 166 2.62e+01 1oo0A 147 2.85e+01 d.232.1.1 87182 1t6cA 315 2.87e+01 c.55.1.8,c.55.1.8 106558,106559 1wuiL 534 2.88e+01 1rwiA 270 2.97e+01 b.68.9.1 97987 1u3wA 374 2.99e+01 1vhyA 257 3.06e+01 b.122.1.2,c.116.1.5 100714,100715 1go4A 205 3.06e+01 d.135.1.1 70292 1q5zA 177 3.07e+01 a.196.1.1 95954 1eumA 165 3.09e+01 1eumA a.25.1.1 59507 1io1A 398 3.10e+01 1io1A e.32.1.1 62611 2fkbA 180 3.12e+01 1ubkL 534 3.14e+01 e.18.1.1 88422 2acfA 182 3.14e+01 1yg9A 330 3.15e+01 1izmA 184 3.18e+01 a.199.1.1 90725 1b56 135 3.19e+01 1hmt b.60.1.2 27183 1f08A 148 3.21e+01 1f08A d.89.1.2 59564 1wmhB 86 3.30e+01 2f23A 156 3.32e+01 2dc3A 193 3.34e+01 1g5aA 628 3.35e+01 b.71.1.1,c.1.8.1 65152,65153 2airB 153 3.35e+01 1nbwA 607 3.39e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1w8oA 601 3.39e+01 1fuxA 166 3.45e+01 1fjjA b.17.1.2 60034 1n13B 113 3.56e+01 1lk5A 229 3.57e+01 c.124.1.4,d.58.40.1 73960,73961 3sil 379 3.57e+01 3sil b.68.1.1 27542 1ftrA 296 3.59e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1rzuA 485 3.61e+01 c.87.1.8 105140 1tkeA 224 3.62e+01 1wriA 93 3.63e+01 1v98A 140 3.64e+01 1vi6A 208 3.65e+01 c.23.15.1 100736 1pyoA 167 3.71e+01 c.17.1.1 95370 1lj5A 379 3.74e+01 e.1.1.1 73928 1kveA 63 3.75e+01 1kveA d.70.1.2 39590 1iwmA 186 3.82e+01 b.125.1.2 83758 1urvA 190 3.87e+01 1h9dB 134 3.89e+01 2jhbA b.54.1.1 60822 1rl0A 255 3.89e+01 1jae 471 3.98e+01 1smd b.71.1.1,c.1.8.1 27773,28760 2lhb 149 3.98e+01 2fal a.1.1.2 15597 1jihA 531 4.02e+01 d.240.1.1,e.8.1.7 90374,90375 1avbA 226 4.02e+01 1led b.29.1.1 24158 1xe7A 203 4.03e+01 1cjcA 460 4.08e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1f06A 320 4.09e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1d3yA 301 4.11e+01 1d3yA e.12.1.1 43252 2sli 679 4.14e+01 2sli b.29.1.9,b.68.1.1 24274,27611 3proC 166 4.16e+01 3proC d.52.1.1,d.52.1.1 38812,38813 2cpgA 45 4.17e+01 2cpgA a.43.1.3 17455 1es9A 232 4.19e+01 1wab c.23.10.3 31340 1yljA 263 4.20e+01 1i2aA 219 4.20e+01 e.24.1.1 90660 2g1lA 104 4.28e+01 1q1rA 431 4.29e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1bdo 80 4.31e+01 1bdo b.84.1.1 28214 1fi2A 201 4.38e+01 1fi2A b.82.1.2 59845 1dgfA 497 4.46e+01 1cf9A e.5.1.1 42782 1z0nA 96 4.47e+01 1zhhB 242 4.53e+01 1sdjA 310 4.54e+01 d.21.1.2,d.21.1.2 98807,98808 1pfsA 78 4.66e+01 1pfsA b.40.4.7 25391 1jb7A 495 4.67e+01 1otcA b.40.4.3,b.40.4.3,b.40.4.3 62836,62837,62838 1ash 150 4.67e+01 1ash a.1.1.2 15622 1hrnA 337 4.75e+01 1smrA b.50.1.2 26869 1dszB 85 4.77e+01 2nllB g.39.1.2 45108 1p5dX 463 4.83e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2cxcA 144 4.84e+01 2gdzA 267 4.87e+01 1fp2A 352 4.88e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 2a1kA 233 4.88e+01 1qwkA 317 4.96e+01 c.1.7.1 96482 1eexA 554 4.98e+01 1dioA c.1.19.3 29650 1avyA 74 5.00e+01 1avyB h.1.17.1 45656 2et1A 201 5.00e+01 1jl0A 334 5.07e+01 1jenA d.156.1.1 63155 1mqoA 227 5.09e+01 d.157.1.1 103846 1mqvA 125 5.14e+01 a.24.3.2 79415 1bgvA 449 5.17e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1whzA 70 5.17e+01 2gfgA 193 5.18e+01 1rqpA 299 5.19e+01 b.141.1.1,c.132.1.1 97754,97755 1w6gA 646 5.20e+01 1q3iA 214 5.22e+01 d.220.1.1 104524 2f1kA 279 5.28e+01 1qfgA 725 5.29e+01 1by5A f.4.3.3 43803 1tzjA 338 5.34e+01 1pa7A 130 5.34e+01 a.40.1.1 94410 1nh0A 99 5.39e+01 b.50.1.1 91869 1wvqA 167 5.40e+01 1rjoA 646 5.40e+01 1mo9A 523 5.55e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1xi3A 215 5.55e+01 c.1.3.1 109601 1p5zB 263 5.59e+01 c.37.1.1 87815 1rmg 422 5.64e+01 1rmg b.80.1.3 28029 2bnmA 198 5.64e+01 1tw9A 206 5.65e+01 a.45.1.1,c.47.1.5 107381,107382 2az4A 429 5.66e+01 1kpf 126 5.72e+01 1kpf d.13.1.1 37507 2gsq 202 5.74e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1ycdA 243 5.79e+01 1a91 79 5.80e+01 1a91 f.17.1.1 43635 1m2xA 223 5.89e+01 d.157.1.1 84764 1lyqA 104 6.03e+01 b.1.18.17 78302 1bhdA 118 6.10e+01 1bkrA a.40.1.1 17398 1vjfA 180 6.26e+01 d.116.1.1 100809 2brcA 214 6.27e+01 1zkiA 133 6.35e+01 1cjaA 342 6.44e+01 1cjaA d.144.1.3 41708 1zmaA 118 6.53e+01 2erbA 125 6.56e+01 1vkuA 100 6.62e+01 a.28.1.1 108690 1xtzA 264 6.63e+01 1jssA 224 6.65e+01 d.129.3.2 71844 2fymA 431 6.68e+01 1xhkA 187 6.69e+01 1rreA 200 6.70e+01 d.14.1.10 97791 1usmA 80 6.75e+01 d.74.1.1 99876 1ogdA 131 6.77e+01 c.133.1.1 92893 1bu6O 501 6.92e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 4tmkA 213 6.94e+01 5tmpA c.37.1.1 31930 1nmoA 247 6.96e+01 c.135.1.1 91980 1l0wA 580 7.01e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1n4wA 504 7.11e+01 c.3.1.2,d.16.1.1 91676,91677 1hg8A 349 7.14e+01 b.80.1.3 65830 1r69 69 7.18e+01 1r69 a.35.1.2 17028 1d9cA 121 7.19e+01 1d9cA a.26.1.3 16901 1yc9A 442 7.20e+01 1iznA 286 7.20e+01 e.43.1.1 83847 2absA 383 7.22e+01 1dcoA 104 7.23e+01 1dcpA d.74.1.1 39680 2ghsA 326 7.30e+01 1wwtA 88 7.35e+01 2fztA 79 7.46e+01 1kbvA 327 7.47e+01 b.6.1.3,b.6.1.3 68395,68396 1o20A 427 7.52e+01 c.82.1.1 86556 1e30A 155 7.64e+01 1rcy b.6.1.1 23016 1voqa 90 7.73e+01 1r59O 505 7.74e+01 1yozA 116 7.81e+01 1jnyA 435 7.83e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1zchA 255 7.88e+01 2f15A 96 7.89e+01 1fs5A 266 7.92e+01 c.124.1.1 65044 2calA 154 7.99e+01 2ga9D 469 8.05e+01 1vf8A 377 8.06e+01 1wq3A 322 8.08e+01 1zzoA 136 8.09e+01 1lwdA 413 8.11e+01 c.77.1.1 78265 1pg4A 652 8.12e+01 e.23.1.1 88067 1v9fA 325 8.14e+01 d.265.1.3 108448 2fvgA 340 8.21e+01 1nzaA 103 8.24e+01 d.58.5.2 86444 2a90A 240 8.27e+01 1e58A 249 8.27e+01 1qhfA c.60.1.1 59262 2afwA 329 8.29e+01 2h4uA 145 8.34e+01 1ckmA 330 8.37e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1ykdA 398 8.41e+01 1q9uA 130 8.46e+01 d.129.7.1 96314 1sc3A 178 8.47e+01 c.17.1.1 105416 1ig3A 263 8.50e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1pjr 724 8.67e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1ijyA 130 8.74e+01 1ijxA a.141.1.1 62517 1vfvA 366 8.75e+01 c.37.1.9 108592 2g09A 297 8.77e+01 1j1nA 492 8.80e+01 c.94.1.1 83978 2crvA 120 8.82e+01 1euhA 475 8.87e+01 1euhA c.82.1.1 35369 1ab8A 220 8.88e+01 1azsA d.58.29.1 39414 2bf6A 449 8.88e+01 1q2yA 140 8.92e+01 d.108.1.1 95655 1gttA 429 8.95e+01 d.177.1.1,d.177.1.1 70529,70530 1tfe 145 8.98e+01 1tfe d.43.1.1 38680