# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 1dq3A 454 1.06e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1ru8A 232 1.28e+00 c.26.2.1 97849 1xngA 268 1.44e+00 1k3iA 656 2.95e+00 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1theA 260 2.99e+00 1theB d.3.1.1 37056 1k2yX 463 3.14e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1gof 639 3.45e+00 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 1rzfL 213 3.48e+00 b.1.1.1,b.1.1.2 98152,98153 1p5dX 463 3.68e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2a9mL 110 3.68e+00 1xcbA 211 3.77e+00 a.4.5.38,c.2.1.12 109552,109553 1gmyA 261 3.94e+00 d.3.1.1 76236 1el5A 389 4.46e+00 1b3mA c.3.1.2,d.16.1.3 30369,37937 1cojA 212 5.24e+00 1avmA a.2.11.1,d.44.1.1 15737,38734 2cokA 113 5.28e+00 1qtnA 164 5.34e+00 1pauA c.17.1.1 30999 1v8hA 107 5.50e+00 1rsy 152 5.74e+00 1rsy b.7.1.2 23192 2ew2A 316 5.85e+00 2gxfA 142 5.90e+00 1lvwA 295 5.97e+00 c.68.1.6 84723 1mvfA 135 6.82e+00 b.1.1.1 85141 1ekgA 127 6.85e+00 1dlxA d.82.2.1 40021 1wu7A 434 8.16e+00 2a7yA 83 8.25e+00 1nezG 128 8.28e+00 b.1.1.1 85592 1wy2A 351 9.63e+00 2d13A 227 1.01e+01 1o0wA 252 1.05e+01 a.149.1.1,d.50.1.1 80751,80752 1jmmA 377 1.07e+01 b.30.6.1 71749 1xfpA 142 1.07e+01 b.1.1.1 109587 1iloA 77 1.08e+01 c.47.1.1 66205 1idsA 207 1.10e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1yu0A 381 1.12e+01 1lfo 128 1.12e+01 1hmt b.60.1.2 27223 1yu1A 381 1.18e+01 1yezA 68 1.20e+01 1u2fA 90 1.25e+01 1u2fA d.58.7.1 39168 1yu4A 381 1.28e+01 1qmeA 702 1.28e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1zvyA 136 1.31e+01 1bqhG 129 1.41e+01 1cd8 b.1.1.1 19715 1uv4A 293 1.43e+01 1yu3A 381 1.49e+01 1yu2A 381 1.51e+01 2g6fX 59 1.56e+01 2ahrA 259 1.57e+01 1t7lA 766 1.63e+01 2ak5A 64 1.65e+01 1bymA 97 1.67e+01 1bi0 b.34.1.2 24458 1l9kA 305 1.68e+01 c.66.1.25 84569 1io1A 398 1.71e+01 1io1A e.32.1.1 62611 1r26A 125 1.72e+01 c.47.1.1 96847 1fvuB 125 1.75e+01 1ixxB d.169.1.1 42346 1j9bA 141 1.75e+01 c.47.1.12 66459 1s3cA 141 1.75e+01 1gttA 429 1.79e+01 d.177.1.1,d.177.1.1 70529,70530 1ebdC 41 1.89e+01 1ebdC a.9.1.1 16355 2a2pA 129 1.94e+01 1lgpA 116 2.05e+01 b.26.1.2 73890 1chmA 401 2.08e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1i7oA 429 2.08e+01 1i7oA d.177.1.1,d.177.1.1 61893,61894 1vrmA 325 2.19e+01 1xfsA 178 2.20e+01 d.129.3.5 109589 1dgwA 178 2.23e+01 1dgwA b.82.1.2 28090 1vkiA 181 2.25e+01 d.116.1.1 108664 1o4sA 389 2.26e+01 c.67.1.1 86620 2bu3A 254 2.27e+01 1ee6A 197 2.30e+01 1ee6A b.80.1.1 28024 1i8nA 126 2.31e+01 1i8nA g.10.1.2 61976 1nkqA 259 2.31e+01 d.177.1.1 103862 1jm1A 204 2.34e+01 b.33.1.1 71745 1m4vA 204 2.34e+01 b.40.2.2,d.15.6.1 74459,74460 2azwA 148 2.40e+01 1kuuA 202 2.47e+01 d.153.2.1 73019 1u0qA 125 2.50e+01 1eny 268 2.51e+01 1eny c.2.1.2 29910 1obdA 306 2.53e+01 d.143.1.1 86767 1ni5A 433 2.54e+01 c.26.2.5,d.229.1.1 80533,80534 1yg6A 193 2.56e+01 2aq8A 269 2.57e+01 2fzsA 193 2.58e+01 2fimA 276 2.59e+01 1hq3D 103 2.62e+01 1aoiB a.22.1.1 16464 1tzyD 103 2.62e+01 a.22.1.1 107533 1nycA 111 2.66e+01 b.61.2.2 92336 1kx5B 102 2.71e+01 a.22.1.1 77594 1w85I 49 2.79e+01 1qi7A 253 2.84e+01 1qi7A d.165.1.1 42210 1x0vA 354 2.85e+01 1cb8A 678 2.89e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1f7dA 136 2.94e+01 1dun b.85.4.1 28353 1gpmA 525 2.94e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1ofdA 1520 3.02e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1f3aA 222 3.07e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 2blnA 305 3.08e+01 1tuhA 156 3.15e+01 d.17.4.11 107345 1wy5A 317 3.15e+01 2axcA 264 3.20e+01 1wosA 364 3.21e+01 b.44.2.1,d.250.1.1 109468,109469 1tif 78 3.21e+01 1tif d.15.8.1 37836 1rq6A 62 3.23e+01 1qydA 313 3.25e+01 c.2.1.2 96583 1jbeA 128 3.30e+01 3chy c.23.1.1 62845 2f5tX 233 3.30e+01 2g76A 335 3.31e+01 1iyhA 198 3.32e+01 a.45.1.1,c.47.1.5 83790,83791 1yoxA 250 3.34e+01 1u24A 337 3.36e+01 1opbA 135 3.40e+01 1hmt b.60.1.2 27216 1nciA 110 3.43e+01 1edhA b.1.6.1 22191 1wlyA 333 3.45e+01 1gxuA 91 3.49e+01 d.58.10.1 76378 1ub3A 220 3.50e+01 c.1.10.1 88395 1aw8B 91 3.66e+01 1aw8B 1ywhA 313 3.74e+01 1hgxA 183 3.79e+01 1tc1A c.61.1.1 34027 1po5A 476 3.81e+01 a.104.1.1 94963 1vfgA 390 3.87e+01 a.173.1.1,d.218.1.4 108570,108571 1wcgA 464 3.93e+01 1vddA 228 3.94e+01 e.49.1.1 108519 1g0hA 252 3.95e+01 1dk4A e.7.1.1 60171 1jssA 224 4.01e+01 d.129.3.2 71844 2bkdN 134 4.04e+01 1tyfA 193 4.06e+01 1tyfA c.14.1.1 30885 2c0zA 216 4.08e+01 1qw1A 121 4.10e+01 1x99A 145 4.10e+01 1nykA 165 4.20e+01 b.33.1.1 86408 1uohA 226 4.25e+01 d.211.1.1 99690 1oeyA 83 4.29e+01 d.15.2.2 92800 1kskA 234 4.35e+01 d.66.1.5,d.265.1.3 72920,90389 1f5nA 592 4.36e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1k6wA 426 4.38e+01 b.92.1.2,c.1.9.5 68236,68237 2bvpA 276 4.39e+01 1vqoT 120 4.40e+01 1lucB 324 4.41e+01 1lucA c.1.16.1 29548 1s72T 120 4.42e+01 b.34.5.1 105339 1jj2S 119 4.42e+01 1ffkQ b.34.5.1 63104 1pk6B 132 4.47e+01 b.22.1.1 94802 1jguH 217 4.49e+01 b.1.1.1,b.1.1.2 66688,66689 1fsgA 233 4.50e+01 1qk3A c.61.1.1 34029 1h8lA 380 4.51e+01 b.3.2.1,c.56.5.1 65737,65738 1a12A 413 4.55e+01 1a12A b.69.5.1 27663 1zvhA 134 4.56e+01 1o6sB 105 4.57e+01 b.1.6.1 81096 1ra0A 430 4.61e+01 1pvyA 227 4.62e+01 d.115.1.2 95195 1ru4A 400 4.63e+01 b.80.1.9 97836 1y89A 238 4.65e+01 1uwvA 433 4.66e+01 b.40.4.12,c.66.1.40 100128,100129 1j8yF 297 4.73e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1j8mF 297 4.74e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1zt1A 277 4.75e+01 1qciA 262 4.80e+01 1qi7A d.165.1.1 42201 1svpA 161 4.84e+01 1svpA b.47.1.3 26384 1w4vA 119 4.86e+01 1ws0A 156 4.88e+01 1uvzA 119 4.97e+01 1twiA 434 4.97e+01 b.49.2.3,c.1.6.1 107399,107400 1os8A 223 4.98e+01 b.47.1.1 93481 2fvgA 340 5.02e+01 1g5cA 170 5.06e+01 1g5cA c.53.2.1 60264 1mfgA 95 5.09e+01 b.36.1.1 79043 1sb2A 133 5.12e+01 2gjgA 248 5.15e+01 1sgt 223 5.21e+01 5ptp b.47.1.1 25814 1w24A 182 5.21e+01 1a48 306 5.23e+01 1a48 d.143.1.1 41590 1iq4A 179 5.29e+01 1iq4A d.77.1.1 62641 1ass 159 5.36e+01 1a6dA c.8.5.2 30818 1pguA 615 5.43e+01 b.69.4.1,b.69.4.1 88069,88070 1yc7A 124 5.53e+01 1upiA 225 5.61e+01 b.82.1.1 99757 2b8wA 328 5.63e+01 1xh3A 276 5.63e+01 1afb1 154 5.68e+01 1rtm1 1khqA 212 5.78e+01 d.3.1.1 90964 1f3uA 118 5.79e+01 1f3uA b.65.1.1 27521 1ppn 212 5.84e+01 1cs8A d.3.1.1 37004 1s6lA 212 5.88e+01 1wfxA 186 5.93e+01 1abrA 251 5.95e+01 1mrj d.165.1.1 42196 1lb2B 84 6.05e+01 a.60.3.1 77871 2cu3A 64 6.06e+01 1knmA 130 6.07e+01 b.42.2.1 72781 1xwyA 264 6.12e+01 1snnA 227 6.12e+01 d.115.1.2 105821 1e8yA 966 6.15e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 2azqA 311 6.16e+01 1pyoA 167 6.18e+01 c.17.1.1 95370 1s68A 249 6.20e+01 d.142.2.4 98591 1eudB 396 6.20e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1gyhA 318 6.25e+01 b.67.2.1 70757 1bjmA 216 6.27e+01 8fabA b.1.1.1,b.1.1.2 20524,21460 1j83A 180 6.30e+01 b.18.1.12 66430 1dp4A 435 6.34e+01 1dp4A c.93.1.1 35710 1u1zA 168 6.37e+01 d.38.1.6 107602 2basA 431 6.42e+01 1tufA 434 6.42e+01 b.49.2.3,c.1.6.1 107335,107336 2g5dA 422 6.47e+01 1tuaA 191 6.49e+01 d.51.1.1,d.51.1.1 107321,107322 1hyxH 224 6.50e+01 1igtB b.1.1.1,b.1.1.2 20167,21191 2absA 383 6.52e+01 1b2pA 119 6.59e+01 1b2pA b.78.1.1 27998 1z2wA 192 6.59e+01 1wxrA 1048 6.63e+01 1xodA 118 6.67e+01 1sglA 209 6.67e+01 d.124.1.1 105536 1wiwA 290 6.69e+01 1k3yA 221 6.75e+01 a.45.1.1,c.47.1.5 77245,77246 1qsgA 265 6.80e+01 1eny c.2.1.2 29935 1xauA 122 6.88e+01 1zmaA 118 6.92e+01 2cvdA 198 6.94e+01 1wqsA 173 6.98e+01 1zt7A 276 7.00e+01 1sz6B 263 7.09e+01 1ol0A 121 7.11e+01 b.1.1.1 93296 1oaqL 120 7.13e+01 b.1.1.1 92708 1cxqA 162 7.23e+01 1cxqA c.55.3.2 33621 1qr0A 228 7.31e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1neyA 247 7.31e+01 c.1.1.1 80449 1odkA 235 7.33e+01 c.56.2.1 86863 1ybiA 288 7.37e+01 1do6A 124 7.40e+01 1do6A b.1.13.1 22361 1o4wA 147 7.41e+01 c.120.1.1 86629 1i45A 248 7.42e+01 1amk c.1.1.1 61665 2cioA 212 7.54e+01 2gfaA 119 7.55e+01 1bn7A 294 7.58e+01 1bn6A c.69.1.8 34677 1korA 400 7.62e+01 c.26.2.1,d.210.1.1 72824,72825 2axwA 134 7.81e+01 1y4oA 104 7.82e+01 1u6zA 513 7.93e+01 1vjgA 218 7.93e+01 c.23.10.6 100810 1dqiA 124 7.94e+01 1do6A b.1.13.1 22357 1k07A 263 7.97e+01 d.157.1.1 77218 1befA 181 7.97e+01 1befA b.47.1.3 26419 1v3yA 192 7.98e+01 1mqkH 127 8.02e+01 b.1.1.1 85053 1hfuA 503 8.02e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1pqhA 143 8.15e+01 b.52.2.1 95017 2coeA 120 8.30e+01 1ll8A 114 8.31e+01 d.110.3.5 78089 2aotA 292 8.37e+01 2fomB 185 8.39e+01 1xypA 190 8.43e+01 1axkA b.29.1.11 24327 1vj7A 393 8.48e+01 a.211.1.1,d.218.1.8 100801,100802 1icxA 155 8.49e+01 d.129.3.1 71191 1vj0A 380 8.52e+01 b.35.1.2,c.2.1.1 100786,100787 1mnnA 340 8.55e+01 b.2.5.7 79324 2av7A 275 8.58e+01 1z5yE 149 8.59e+01 1ok7A 366 8.62e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1rfmA 344 8.62e+01 c.122.1.1 97385 1i4fA 275 8.69e+01 1agdA b.1.1.2,d.19.1.1 61687,61688 1qmpA 130 8.71e+01 1dz3A c.23.1.1 31106 1uz8B 212 8.76e+01 b.1.1.1,b.1.1.2 108168,108169 1m6yA 301 8.76e+01 a.60.13.1,c.66.1.23 78716,78717 2a9mH 126 8.82e+01 1vsd 152 8.87e+01 1cxqA c.55.3.2 33625 1fh0A 221 8.89e+01 1cs8A d.3.1.1 59832 2rhe 114 8.92e+01 8fabA b.1.1.1 20523 1rwsA 77 8.94e+01 d.15.3.2 97991 1cd0A 111 8.96e+01 8fabA b.1.1.1 20559 1x8dA 104 8.97e+01 2c27A 315 8.99e+01