# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1qynA 153 2.39e-01 d.33.1.1 96597 1mugA 168 4.03e-01 1mugA c.18.1.2 31030 2kfnA 605 5.26e-01 1xwl c.55.3.5,e.8.1.1 33682,42975 1u6zA 513 9.45e-01 2ggcA 263 9.62e-01 1j93A 353 1.16e+00 c.1.22.1 66454 1vhmA 195 1.25e+00 d.110.2.1 100691 1c24A 263 1.39e+00 1c24A d.127.1.1 41148 1xnzA 264 1.39e+00 1vq0A 302 1.77e+00 1ttuA 477 2.31e+00 b.1.18.1,b.2.5.8,b.42.7.1 107305,107306,107307 1o0xA 262 2.38e+00 d.127.1.1 80755 1x13A 401 2.88e+00 1ijbA 202 3.23e+00 c.62.1.1 71229 1mc0A 368 3.45e+00 d.110.2.1,d.110.2.1 78937,78938 1azpA 66 3.64e+00 1azpA b.34.13.1 37467 1vrpA 381 4.19e+00 1fnsA 196 4.22e+00 1auq c.62.1.1 34136 1kopA 223 4.30e+00 2cba b.74.1.1 27966 1fl1A 230 4.72e+00 1at3A b.57.1.1 27023 1ukfA 188 5.48e+00 d.3.1.10 99488 1f2tA 149 5.73e+00 1f2tA c.37.1.12 32373 1oshA 232 6.04e+00 a.123.1.1 93496 1sjqA 105 6.13e+00 d.58.7.1 105660 1qysA 106 6.59e+00 k.41.1.1 96603 1m4zA 238 6.65e+00 b.34.12.1 78630 1onwA 390 6.91e+00 b.92.1.7,c.1.9.13 87172,87173 1fvrA 327 7.12e+00 d.144.1.7 60047 1fit 147 7.35e+00 1fit d.13.1.1 37499 1us8A 147 7.68e+00 c.37.1.12 99859 2fhi 147 8.08e+00 1fit d.13.1.1 37505 1wywA 230 8.74e+00 1gtmA 419 9.39e+00 1hwyA c.2.1.7,c.58.1.1 30223,33871 1dzkA 157 9.61e+00 1obpA b.60.1.1 27096 1xrtA 467 9.83e+00 1qxyA 252 1.00e+01 d.127.1.1 96565 1m9sA 605 1.04e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1r3dA 264 1.07e+01 1xkyA 301 1.08e+01 1dm0A 287 1.08e+01 1dm0A d.165.1.2 42227 2be3A 226 1.10e+01 1w36C 1122 1.20e+01 1m98A 317 1.20e+01 a.175.1.1,d.17.4.6 78866,78867 3pmgA 561 1.21e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1onxA 390 1.24e+01 b.92.1.7,c.1.9.13 87176,87177 1l7dA 384 1.24e+01 c.2.1.4,c.23.12.2 77774,77775 1f8gA 384 1.27e+01 1sayA c.2.1.4,c.23.12.2 59695,59696 1wvcA 259 1.28e+01 1hkhA 279 1.35e+01 c.69.1.12 90628 1pmd 675 1.43e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37491,37492,42562,42771 2b8eA 273 1.44e+01 1wucA 250 1.53e+01 1bmdA 327 1.62e+01 1bmdA c.2.1.5,d.162.1.1 30139,42106 1y7tA 327 1.62e+01 1bdmA 327 1.62e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1i1iP 681 1.64e+01 1i1iP d.92.1.5 40297 1zpyA 95 1.67e+01 1s1hM 132 1.72e+01 i.1.1.1 105165 1h10A 125 1.72e+01 b.55.1.1 83446 1unqA 125 1.72e+01 b.55.1.1 107968 1xyiA 66 1.74e+01 1dytA 133 1.79e+01 7rsa d.5.1.1 37288 1sviA 195 1.80e+01 c.37.1.8 106048 1mkmA 249 1.81e+01 a.4.5.33,d.110.2.2 79242,79243 1bdb 277 1.81e+01 1bdb c.2.1.2 29874 1sefA 274 1.82e+01 b.82.1.11 105452 2akoA 251 1.91e+01 1sauA 115 2.00e+01 1p7tA 731 2.01e+01 c.1.13.1 94319 1d8cA 723 2.07e+01 1d8cA c.1.13.1 29325 1bh9A 45 2.09e+01 1bh9A a.22.1.3 16483 1xwfA 431 2.11e+01 1vp4A 425 2.15e+01 1p2zA 968 2.16e+01 b.121.2.2,b.121.2.2 93962,93963 1yvoA 172 2.26e+01 2bl1A 172 2.26e+01 1qlmA 316 2.27e+01 1qlmA d.147.1.1 41765 1ia9A 280 2.34e+01 1ia9A d.144.1.5 62113 1uujA 88 2.36e+01 a.221.1.1 108046 1hyeA 313 2.39e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1w1kA 560 2.49e+01 d.58.32.1,d.145.1.1 109059,109060 1fcyA 236 2.57e+01 2lbd a.123.1.1 19282 1e8gA 560 2.65e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1p30A 952 2.67e+01 b.121.2.2,b.121.2.2 93964,93965 1thqA 170 2.68e+01 f.4.1.2 106920 1umgA 362 2.69e+01 d.280.1.1 107956 1z54A 132 2.75e+01 1ruxA 951 2.78e+01 1dhx 2f9zC 159 2.78e+01 1h6tA 291 2.83e+01 b.1.18.15,c.10.2.1 65686,65687 1w2xA 758 2.84e+01 c.14.1.4,c.14.1.4 109134,109135 1q8iA 783 2.89e+01 c.55.3.5,e.8.1.1 96208,96209 1snzA 344 2.94e+01 b.30.5.4 98930 1koqA 253 3.03e+01 2cba b.74.1.1 27964 1hwxA 501 3.07e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 1w6uA 302 3.09e+01 1q0pA 223 3.13e+01 c.62.1.1 95507 2a40B 260 3.21e+01 1i1dA 161 3.22e+01 1i21A d.108.1.1 61526 1mkyA 439 3.24e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1u6rA 380 3.24e+01 1j1qA 261 3.24e+01 d.165.1.1 90768 1evlA 401 3.28e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1phm 310 3.32e+01 1phm b.121.1.2,b.121.1.2 59015,59016 1vjpA 394 3.34e+01 c.2.1.3,d.81.1.3 100828,100829 1yqtA 538 3.38e+01 1oj4A 283 3.49e+01 d.14.1.5,d.58.26.5 93083,93084 1jv4A 162 3.50e+01 b.60.1.1 67343 1musA 477 3.56e+01 c.55.3.4 79494 1njkA 156 3.59e+01 d.38.1.1 85818 1uyrA 737 3.60e+01 c.14.1.4,c.14.1.4 100188,100189 1whsB 153 3.66e+01 1whtB 1t1jA 125 3.67e+01 c.137.1.1 106249 1d4fA 431 3.67e+01 1b3rA c.2.1.4,c.23.12.3 30110,31370 1qf5A 431 3.68e+01 1adeA c.37.1.10 32212 1sdwA 314 3.71e+01 b.121.1.2,b.121.1.2 98810,98811 1uekA 275 3.76e+01 d.14.1.5,d.58.26.5 88483,88484 1yasA 257 3.79e+01 1qj4A c.69.1.20 34801 1z5yE 149 3.80e+01 1qj4A 257 3.82e+01 1qj4A c.69.1.20 34796 2pooA 355 3.88e+01 1qlgA b.68.3.1 27626 2h4uA 145 3.89e+01 1fx3A 169 3.97e+01 1fx3B d.33.1.1 38524 1r31A 428 3.98e+01 d.58.20.1,d.179.1.1 96897,96898 1g0sA 209 4.02e+01 1g0sA d.113.1.1 60187 1erjA 393 4.05e+01 1erjA b.69.4.1 27660 1wckA 220 4.10e+01 1bv1 159 4.23e+01 1bv1 d.129.3.1 41313 1o59A 355 4.24e+01 b.18.1.22,b.18.1.22 92495,92496 1li4A 432 4.30e+01 c.2.1.4,c.23.12.3 84616,84617 1b35C 282 4.33e+01 1b35C 2gf6A 135 4.33e+01 1pjhA 280 4.40e+01 c.14.1.3 94761 1pvc3 238 4.55e+01 1aym3 1q0bA 367 4.57e+01 c.37.1.9 95502 1y1jX 311 4.62e+01 1z70X 311 4.62e+01 2b1xA 470 4.66e+01 1hnuA 280 4.69e+01 1hnoA c.14.1.3 61096 1ako 268 4.84e+01 1ako d.151.1.1 41779 2giyA 191 4.89e+01 1ve2A 235 4.89e+01 1zndA 174 5.02e+01 1phk 298 5.04e+01 1cdkA d.144.1.7 41635 2b7kA 200 5.10e+01 1whtB 153 5.20e+01 1whtB 1fljA 260 5.29e+01 2cba b.74.1.1 27954 1w0hA 204 5.33e+01 1fo1A 271 5.37e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 2gx9A 129 5.37e+01 1ulyA 192 5.44e+01 1j5yA 187 5.49e+01 a.4.5.1,d.94.2.1 71592,71593 1o0pA 104 5.50e+01 d.58.7.1 86535 1hy7A 173 5.57e+01 d.92.1.11 65957 1x8qA 184 5.67e+01 1hfs 160 5.70e+01 1hfc d.92.1.11 40370 1yn3A 98 5.74e+01 1qh4A 380 5.76e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1qy1A 174 5.79e+01 b.60.1.1 96568 1avbA 226 5.80e+01 1led b.29.1.1 24158 1f2tB 148 5.81e+01 1f2tB 1stzA 338 5.86e+01 a.4.5.51,d.110.2.3 106009,106010 1qciA 262 5.88e+01 1qi7A d.165.1.1 42201 1sy3A 184 6.11e+01 b.60.1.1 106110 1f3iA 481 6.13e+01 1b7eA 1qahA 136 6.18e+01 d.79.1.1 96338 1q6zA 528 6.18e+01 1kjlA 146 6.28e+01 4icb 76 6.30e+01 4icb a.39.1.1 17145 1souA 194 6.35e+01 c.124.1.6 105858 1bg0 356 6.41e+01 1qh4A a.83.1.1,d.128.1.2 18476,41211 1m15A 357 6.41e+01 a.83.1.1,d.128.1.2 78368,78369 1koiA 184 6.42e+01 b.60.1.1 68725 1lshA 1056 6.42e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1erxA 184 6.43e+01 1np1A b.60.1.1 27164 1vcoA 550 6.44e+01 c.23.16.1,c.37.1.10 108508,108509 1nuyA 337 6.63e+01 e.7.1.1 86213 2a3qA 170 6.68e+01 1rp3B 88 6.70e+01 a.137.11.1 97681 1broA 277 6.71e+01 1brt c.69.1.12 34700 1h5qA 265 6.72e+01 1cydA c.2.1.2 60643 1pbv 195 6.82e+01 1pbv a.118.3.1 19179 1ym5A 300 6.87e+01 1ftrA 296 6.95e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1jenB 67 7.15e+01 1jenB d.156.1.1 42029 1voqa 90 7.23e+01 1led 243 7.25e+01 1led b.29.1.1 24039 1jfmA 174 7.30e+01 d.19.1.1 66640 1z6jT 211 7.30e+01 1hd7A 318 7.45e+01 1bix d.151.1.1 41780 1jjeA 222 7.47e+01 1a7tA d.157.1.1 63117 1brwA 433 7.50e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1xklA 273 7.54e+01 1t82A 155 7.54e+01 d.38.1.5 106639 1o5kA 306 7.57e+01 c.1.10.1 92504 1oniA 137 7.63e+01 d.79.1.1 87144 1fo4A 1332 7.66e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1un7A 400 7.70e+01 b.92.1.5,c.1.9.10 99657,99658 1p7hL 286 7.73e+01 b.1.18.1,b.2.5.3 94271,94272 1wvfA 520 7.73e+01 1brt 277 7.78e+01 1brt c.69.1.12 34699 2b3hA 329 7.80e+01 1rtxA 123 7.97e+01 a.1.1.1 97827 2gi3A 476 8.00e+01 2c2xA 281 8.07e+01 1ehiA 377 8.12e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1r8mE 203 8.17e+01 a.118.3.1 97242 1i12A 160 8.22e+01 1i21A d.108.1.1 61515 1lba 146 8.24e+01 1lba d.118.1.1 41062 1sdjA 310 8.25e+01 d.21.1.2,d.21.1.2 98807,98808 1xesA 413 8.36e+01 1di2A 69 8.41e+01 1di2A d.50.1.1 38780 1bfd 528 8.42e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 1iicA 422 8.58e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1xgsA 295 8.65e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1dkzA 219 8.75e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1ohzB 60 8.75e+01 a.139.1.1 93044 1ofgA 381 8.76e+01 1ofgA c.2.1.3,d.81.1.5 30064,39979 1mup 166 8.84e+01 1mup b.60.1.1 27133