# List of top-scoring protein chains for t06-100-30-o_notor2-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 1xngA 268 4.75e-02 1iq4A 179 2.23e-01 1iq4A d.77.1.1 62641 1iloA 77 2.52e-01 c.47.1.1 66205 1tif 78 3.39e-01 1tif d.15.8.1 37836 1p5dX 463 6.34e-01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1gpmA 525 6.80e-01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1tzyD 103 8.31e-01 a.22.1.1 107533 1k3iA 656 8.43e-01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1xcbA 211 8.72e-01 a.4.5.38,c.2.1.12 109552,109553 1mbmA 198 1.14e+00 b.47.1.3 78916 1el5A 389 1.19e+00 1b3mA c.3.1.2,d.16.1.3 30369,37937 1tuhA 156 1.21e+00 d.17.4.11 107345 1hgxA 183 1.84e+00 1tc1A c.61.1.1 34027 1gxuA 91 1.94e+00 d.58.10.1 76378 1ok7A 366 2.05e+00 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 2a7mA 250 2.10e+00 1i2aA 219 2.15e+00 e.24.1.1 90660 1ok0A 74 2.16e+00 b.5.1.1 93191 2gxfA 142 2.18e+00 1wy5A 317 2.25e+00 1cxqA 162 2.41e+00 1cxqA c.55.3.2 33621 1wosA 364 2.44e+00 b.44.2.1,d.250.1.1 109468,109469 1lucB 324 2.51e+00 1lucA c.1.16.1 29548 1pmzA 86 2.99e+00 a.39.1.10 104195 2absA 383 2.99e+00 1v6tA 255 3.16e+00 2cokA 113 3.31e+00 1zmaA 118 3.50e+00 1ee6A 197 3.71e+00 1ee6A b.80.1.1 28024 1hlvA 131 3.73e+00 a.4.1.7,a.4.1.7 65854,65855 1wu7A 434 3.76e+00 1zczA 464 3.91e+00 2a2pA 129 4.09e+00 1gmyA 261 4.12e+00 d.3.1.1 76236 2ew2A 316 4.14e+00 1whzA 70 4.53e+00 1r26A 125 4.63e+00 c.47.1.1 96847 1s1qA 145 4.79e+00 d.20.1.2 98351 2fpoA 202 4.82e+00 1v5vA 401 4.96e+00 1vlmA 219 5.08e+00 c.66.1.41 108836 1snnA 227 5.14e+00 d.115.1.2 105821 1rsy 152 5.18e+00 1rsy b.7.1.2 23192 1vr0A 247 5.21e+00 1v74B 87 5.34e+00 a.24.20.1 100443 1wr8A 231 5.52e+00 1wcwA 261 5.92e+00 2bcmA 165 5.99e+00 1jg1A 235 6.01e+00 c.66.1.7 66661 1g5cA 170 6.08e+00 1g5cA c.53.2.1 60264 1sglA 209 6.18e+00 d.124.1.1 105536 1odkA 235 6.18e+00 c.56.2.1 86863 1dgwA 178 6.41e+00 1dgwA b.82.1.2 28090 1vckA 115 6.48e+00 1vetA 124 7.03e+00 d.110.7.1 108553 2g76A 335 7.32e+00 1bb8 71 7.41e+00 2bb8 d.10.1.1 37478 1yhtA 367 7.72e+00 1xzoA 174 7.91e+00 1wy2A 351 7.91e+00 1dceB 331 8.05e+00 1dceB a.102.4.3 18872 2blnA 305 8.51e+00 1jmxB 349 8.77e+00 b.69.2.2 66906 1w85I 49 8.92e+00 1zud2 66 8.93e+00 3pcgA 200 9.36e+00 3pchA b.3.6.1 22647 1uaiA 224 9.37e+00 b.29.1.18 107761 1lgpA 116 9.48e+00 b.26.1.2 73890 1k3yA 221 9.60e+00 a.45.1.1,c.47.1.5 77245,77246 2bjiA 277 9.61e+00 2cpgA 45 9.82e+00 2cpgA a.43.1.3 17455 1jl0A 334 1.01e+01 1jenA d.156.1.1 63155 1ub3A 220 1.03e+01 c.1.10.1 88395 1nezG 128 1.05e+01 b.1.1.1 85592 1ofdA 1520 1.08e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1qsgA 265 1.12e+01 1eny c.2.1.2 29935 1rcwA 231 1.14e+01 a.132.1.4 97299 1viaA 175 1.15e+01 c.37.1.2 100754 1zvyA 136 1.18e+01 2cvdA 198 1.19e+01 1xwyA 264 1.19e+01 1iyeA 309 1.21e+01 e.17.1.1 83786 1ujpA 271 1.22e+01 c.1.2.4 99462 1u0sY 118 1.23e+01 c.23.1.1 107566 2f5tX 233 1.23e+01 1yovA 537 1.24e+01 1p1jA 533 1.25e+01 c.2.1.3,d.81.1.3 87687,87688 1h6kZ 98 1.27e+01 d.58.7.1 60686 1wn2A 121 1.30e+01 1wwpA 119 1.32e+01 1aop 497 1.33e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1bazA 53 1.33e+01 1bazA a.43.1.1 17421 1tmy 120 1.36e+01 1dbwA c.23.1.1 31083 2a6hC 1119 1.37e+01 1u24A 337 1.40e+01 1fc4A 401 1.41e+01 1bs0A c.67.1.4 59760 1k0iA 394 1.42e+01 c.3.1.2,d.16.1.2 67942,67943 1obdA 306 1.43e+01 d.143.1.1 86767 1y2tA 142 1.43e+01 1wd7A 261 1.43e+01 2f9lA 199 1.45e+01 1tx2A 297 1.46e+01 c.1.21.1 107420 1qwdA 177 1.48e+01 b.60.1.1 96471 1cqqA 180 1.48e+01 1cqqA b.47.1.4 26422 1a32 88 1.55e+01 1a32 a.16.1.2 16384 1q7hA 153 1.57e+01 b.122.1.1,d.17.6.2 96042,96043 2bjvA 265 1.60e+01 1yu0A 381 1.60e+01 1oktA 211 1.64e+01 a.45.1.1,c.47.1.5 93272,93273 1gtmA 419 1.65e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1j8mF 297 1.66e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1tt0A 623 1.69e+01 2g6bA 180 1.69e+01 1vkiA 181 1.73e+01 d.116.1.1 108664 1wckA 220 1.74e+01 2bl0C 142 1.80e+01 2cc0A 195 1.82e+01 2f5gA 133 1.84e+01 1x99A 145 1.85e+01 1lmmA 40 1.90e+01 g.3.6.2 91080 1yllA 200 1.90e+01 1jidA 128 1.91e+01 d.201.1.1 66735 1wqsA 173 1.92e+01 1qhoA 686 1.92e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1yb2A 275 1.92e+01 2aotA 292 1.96e+01 1wlgA 299 1.98e+01 1rkqA 282 1.99e+01 c.108.1.10 97621 1pk6A 133 2.03e+01 b.22.1.1 94801 1dofA 403 2.04e+01 1c3cA a.127.1.1 19429 1iyhA 198 2.04e+01 a.45.1.1,c.47.1.5 83790,83791 1vfgA 390 2.05e+01 a.173.1.1,d.218.1.4 108570,108571 1gycA 499 2.05e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1yuiA 54 2.05e+01 1yuiA g.37.1.1 45073 1y9wA 140 2.07e+01 1wywA 230 2.07e+01 1jssA 224 2.09e+01 d.129.3.2 71844 1vl5A 260 2.09e+01 c.66.1.41 108720 2fomB 185 2.09e+01 1z3eB 73 2.15e+01 1sfxA 109 2.18e+01 a.4.5.50 105505 1y81A 138 2.32e+01 1dzfA 215 2.32e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 2g6fX 59 2.33e+01 1cqxA 403 2.34e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1oeyA 83 2.38e+01 d.15.2.2 92800 1j83A 180 2.39e+01 b.18.1.12 66430 1wyxA 69 2.40e+01 1ep3B 262 2.41e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 2d13A 227 2.41e+01 1jm1A 204 2.47e+01 b.33.1.1 71745 1sq5A 308 2.47e+01 c.37.1.6 105882 1cb8A 678 2.53e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1m4lA 307 2.57e+01 c.56.5.1 78604 1o9wA 177 2.58e+01 b.2.3.5 86713 1zo0A 126 2.59e+01 2b8wA 328 2.59e+01 1dq3A 454 2.60e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1l6rA 227 2.63e+01 c.108.1.10 77768 1gttA 429 2.63e+01 d.177.1.1,d.177.1.1 70529,70530 1fc3A 120 2.64e+01 1fc3A a.4.6.3 16237 1vddA 228 2.64e+01 e.49.1.1 108519 1o4sA 389 2.65e+01 c.67.1.1 86620 1f1xA 322 2.65e+01 d.32.1.3,d.32.1.3 83208,83209 1umgA 362 2.67e+01 d.280.1.1 107956 1zrjA 50 2.69e+01 1ut7A 171 2.73e+01 b.143.1.1 99906 1oyjA 231 2.77e+01 a.45.1.1,c.47.1.5 87597,87598 1wdtA 665 2.84e+01 1nkqA 259 2.85e+01 d.177.1.1 103862 1jfuA 186 2.92e+01 c.47.1.10 62940 2blfA 373 2.92e+01 1d3cA 686 2.94e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 2b3nA 159 2.94e+01 1jbeA 128 2.96e+01 3chy c.23.1.1 62845 1eziA 228 2.96e+01 1eyrA c.68.1.13 34512 1thtA 305 2.97e+01 1thtA c.69.1.13 34711 1chmA 401 2.98e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 2cvbA 188 2.98e+01 1vf1A 229 2.99e+01 1mnnA 340 3.01e+01 b.2.5.7 79324 1kte 105 3.01e+01 1kte c.47.1.1 32771 1ekgA 127 3.01e+01 1dlxA d.82.2.1 40021 2a5jA 191 3.02e+01 1yirA 408 3.04e+01 1z85A 234 3.06e+01 2g8yA 385 3.08e+01 1ytlA 174 3.10e+01 2a7yA 83 3.10e+01 2cu3A 64 3.14e+01 1svpA 161 3.16e+01 1svpA b.47.1.3 26384 1x0vA 354 3.17e+01 1w5fA 353 3.18e+01 1q3eA 207 3.18e+01 b.82.3.2 95669 1vqoY 241 3.20e+01 1po5A 476 3.20e+01 a.104.1.1 94963 2g7lA 243 3.21e+01 1tt8A 164 3.26e+01 1oygA 447 3.26e+01 b.67.2.2 93726 2a2cA 478 3.26e+01 1f1uA 323 3.27e+01 d.32.1.3,d.32.1.3 83200,83201 1rwiA 270 3.32e+01 b.68.9.1 97987 2eifA 136 3.35e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1snyA 267 3.35e+01 c.2.1.2 105833 1i58A 189 3.38e+01 1b3qA d.122.1.3 61773 1seiA 130 3.39e+01 1seiA d.140.1.1 41463 1fe0A 68 3.40e+01 1cc8A d.58.17.1 39345 1zchA 255 3.41e+01 2ghsA 326 3.42e+01 2pii 112 3.44e+01 2pii d.58.5.1 39071 1lvwA 295 3.51e+01 c.68.1.6 84723 1s3eA 520 3.51e+01 c.3.1.2,d.16.1.5 98426,98427 1vi0A 206 3.54e+01 a.4.1.9,a.121.1.1 100720,100721 2bo9A 308 3.54e+01 2cxaA 256 3.56e+01 2ahrA 259 3.57e+01 1io1A 398 3.59e+01 1io1A e.32.1.1 62611 1f5nA 592 3.60e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1r5lA 262 3.62e+01 a.5.3.1,c.13.1.1 97099,97100 1o4wA 147 3.63e+01 c.120.1.1 86629 1dkmA 410 3.64e+01 1dklA c.60.1.2 34000 1i4uA 181 3.64e+01 b.60.1.1 61732 1dz3A 130 3.66e+01 1dz3A c.23.1.1 31105 1ihjA 98 3.68e+01 1pdr b.36.1.1 62382 1qmeA 702 3.68e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1tzlA 622 3.71e+01 3proC 166 3.71e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1qzzA 374 3.71e+01 a.4.5.29,c.66.1.12 96719,96720 2f60K 64 3.72e+01 1qf9A 194 3.73e+01 1zin c.37.1.1 31848 1o7iA 119 3.73e+01 b.40.4.3 86642 1xauA 122 3.75e+01 1k07A 263 3.75e+01 d.157.1.1 77218 2aq8A 269 3.76e+01 2fd6U 276 3.76e+01 1vhcA 224 3.81e+01 c.1.10.1 100661 1a8l 226 3.83e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1gheA 177 3.83e+01 d.108.1.1 76222 1ek0A 170 3.83e+01 1ctqA c.37.1.8 32076 1rq6A 62 3.87e+01 1sx5A 244 3.89e+01 c.52.1.2 99023 1vcoA 550 3.90e+01 c.23.16.1,c.37.1.10 108508,108509 1ru4A 400 3.93e+01 b.80.1.9 97836 1eny 268 3.93e+01 1eny c.2.1.2 29910 1tp6A 128 3.94e+01 d.17.4.12 107184 1ls1A 295 3.99e+01 a.24.13.1,c.37.1.10 78170,78171 2ge3A 170 3.99e+01 1p0hA 318 4.01e+01 d.108.1.1 93866 1zkpA 268 4.03e+01 2cw9A 194 4.03e+01 1v8hA 107 4.06e+01 1wrvA 308 4.07e+01 1uj6A 227 4.10e+01 c.124.1.4,d.58.40.1 107898,107899 1pk6B 132 4.12e+01 b.22.1.1 94802 1moq 368 4.14e+01 1moq c.80.1.1 35302 1ezwA 349 4.15e+01 1ezwA c.1.16.3 29558 1l8nA 679 4.23e+01 c.1.8.10,d.92.2.2 84564,84565 1wojA 214 4.25e+01 1o5uA 101 4.27e+01 b.82.1.8 92518 1iirA 415 4.30e+01 1iirA c.87.1.5 62453 1eylA 186 4.32e+01 1wba b.42.4.1 25593 1vrbA 342 4.33e+01 1b63A 333 4.34e+01 1b63A d.14.1.3,d.122.1.2 37566,41107 1gzsB 165 4.35e+01 a.168.1.1 76425 1fehA 574 4.35e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1c7qA 445 4.36e+01 2pgi c.80.1.2 35307 1lcyA 325 4.37e+01 b.36.1.4,b.47.1.1 73834,73835 2a9gA 418 4.44e+01 1s98A 107 4.45e+01 b.124.1.1 105377 1tygB 87 4.45e+01 d.15.3.2 107455 1p1lA 102 4.50e+01 d.58.5.2 87695 1p99A 295 4.52e+01 c.94.1.1 94384 2fug7 129 4.53e+01 1pk6C 129 4.54e+01 b.22.1.1 94803 1jp4A 308 4.59e+01 1jp4A e.7.1.1 63223 2bynA 227 4.59e+01 1r7aA 504 4.59e+01 b.71.1.1,c.1.8.1 97192,97193 2tct 207 4.59e+01 2tct a.4.1.9,a.121.1.1 16063,19240 1h05A 146 4.59e+01 c.23.13.1 76433 1kao 167 4.70e+01 1ctqA c.37.1.8 32014 1mhnA 59 4.70e+01 b.34.9.1 84964 1qdeA 224 4.72e+01 1qvaA c.37.1.19 32410 1uwvA 433 4.73e+01 b.40.4.12,c.66.1.40 100128,100129 2fnuA 375 4.74e+01 2ervA 150 4.74e+01 1vp4A 425 4.74e+01 1wloA 136 4.77e+01 2cveA 191 4.79e+01 2fp7B 172 4.82e+01 1vqoN 187 4.84e+01 1cs0A 1073 4.86e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1ad1A 266 4.87e+01 1aj2 c.1.21.1 29668 2cvlA 124 4.88e+01 1cmcA 104 4.88e+01 1cmbA a.43.1.5 17462 1z2aA 168 4.91e+01 1jyoA 130 4.93e+01 d.198.1.1 67483 2cy2A 174 4.94e+01 1a78A 134 4.94e+01 1c1lA b.29.1.3 24212 1s3cA 141 4.95e+01 1n0qA 93 4.98e+01 k.37.1.1 79754 1kfcA 268 5.01e+01 c.1.2.4 77371 1uluA 261 5.05e+01 1quqB 121 5.05e+01 1quqB b.40.4.3 25305 1zljA 78 5.05e+01 1sawA 225 5.06e+01 1nykA 165 5.07e+01 b.33.1.1 86408 2fp4B 395 5.07e+01 2exrA 524 5.08e+01 1widA 130 5.09e+01 1dg6A 191 5.17e+01 1d4vB b.22.1.1 23883 1hmt 132 5.18e+01 1hmt b.60.1.2 27169 1x1rA 178 5.19e+01 1wdnA 226 5.20e+01 1lst c.94.1.1 35816 1r0pA 312 5.20e+01 d.144.1.7 96734 3thiA 371 5.25e+01 2thiA c.94.1.1 35792 1yg9A 330 5.29e+01 1qy6A 274 5.31e+01 b.47.1.1 96574 5hpgA 84 5.32e+01 5hpgA g.14.1.1 44642 1xypA 190 5.32e+01 1axkA b.29.1.11 24327 1wlyA 333 5.37e+01 1gsa 316 5.37e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 2a8jA 420 5.39e+01 1j3bA 529 5.45e+01 c.91.1.1,c.109.1.1 77071,77072 1ow1A 195 5.46e+01 b.131.1.3 93625 1b7yB 785 5.50e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1iibA 106 5.52e+01 1iibA c.44.2.1 32648 1fseA 74 5.54e+01 1fseA a.4.6.2 60000 2fhqA 141 5.55e+01 1svvA 359 5.56e+01 c.67.1.1 106054 1zt2B 212 5.56e+01 1x0pA 143 5.56e+01 1f1eA 154 5.59e+01 a.22.1.2 64927 1pq7A 224 5.61e+01 b.47.1.2 95002 2ghpA 292 5.64e+01 1rz4A 226 5.66e+01 a.4.5.53,a.118.1.18 105131,105132 1zxfA 155 5.66e+01 2b9eA 303 5.67e+01 1fqtA 112 5.71e+01 1fqtA b.33.1.1 24441 1qksA 567 5.81e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1xer 103 5.81e+01 1xer d.58.1.3 38990 1ycdA 243 5.82e+01 1iybA 208 5.84e+01 d.124.1.1 90720 1mdbA 539 5.87e+01 e.23.1.1 79008 1iv3A 152 5.88e+01 d.79.5.1 76828 1l5xA 280 5.93e+01 c.106.1.1 77718 1at3A 247 5.94e+01 1at3A b.57.1.1 27021 1nrjB 218 5.96e+01 c.37.1.8 86125 2pia 321 6.01e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1ylxA 103 6.07e+01 1k4iA 233 6.17e+01 d.115.1.2 72056 1fdr 248 6.19e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1ss4A 153 6.20e+01 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