# 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 2fhqA 141 2.84e-09 1dnlA 199 8.75e-09 1ci0A b.45.1.1 25753 1rfeA 162 1.32e-08 1g79A 218 1.83e-08 1ci0A b.45.1.1 25752 1nrgA 261 3.65e-08 b.45.1.1 80694 1vl7A 157 2.93e-07 b.45.1.1 108732 1ty9A 222 4.77e-07 2fg9A 178 5.55e-07 2furA 209 5.58e-06 2aq6A 147 9.04e-06 1w9aA 147 3.50e-05 2asfA 137 5.54e-05 1xhnA 184 5.53e-04 2arzA 247 6.85e-03 2a1fA 247 2.65e-02 1flmA 122 6.87e-02 1axj b.45.1.1 25747 1ejeA 192 1.53e-01 1ejeA b.45.1.2 25757 2erfA 209 5.23e-01 1jyhA 157 6.70e-01 d.60.1.3 71956 1bouB 302 9.27e-01 1bouB c.56.6.1 33859 1zd7A 159 1.03e+00 1i0rA 169 1.43e+00 1i0rA b.45.1.2 61489 2bneA 241 1.59e+00 2dcnA 311 1.91e+00 1e19A 314 1.98e+00 1b7bA c.73.1.1 34967 1ye8A 178 2.55e+00 1pvmA 184 2.58e+00 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1vlyA 338 2.80e+00 b.44.2.1,d.250.1.1 108871,108872 3fib 249 2.96e+00 3fib d.171.1.1 42455 2bfxA 284 3.28e+00 2sli 679 3.88e+00 2sli b.29.1.9,b.68.1.1 24274,27611 2ghsA 326 4.03e+00 1w1hA 151 4.05e+00 1s5jA 847 4.20e+00 1yc5A 246 4.46e+00 2chnA 716 4.59e+00 2f6kA 307 4.62e+00 1zkjA 359 5.96e+00 1uu3A 310 6.05e+00 d.144.1.7 99999 1r4pB 70 6.45e+00 b.40.2.1 97026 1ekjA 221 6.46e+00 1ekjB c.53.2.1 33364 1d2fA 390 6.55e+00 1d2fA c.67.1.3 34411 1rgzA 363 6.61e+00 e.3.1.1 97457 2d4qA 257 6.77e+00 2ge3A 170 7.15e+00 1mdc 133 7.40e+00 1hmt b.60.1.2 27198 1j71A 334 7.69e+00 1eagA b.50.1.2 62669 2av5A 120 7.74e+00 1ofdA 1520 7.98e+00 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1o66A 275 8.47e+00 c.1.12.8 92547 1z2wA 192 9.31e+00 1e5pA 151 9.50e+00 1bj7 b.60.1.1 59272 1qlmA 316 9.53e+00 1qlmA d.147.1.1 41765 1vrmA 325 9.86e+00 1qnaA 200 1.00e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1a92A 50 1.01e+01 1a92A h.4.6.1 45791 1c1lA 136 1.04e+01 1c1lA b.29.1.3 24219 2cu3A 64 1.05e+01 1rgyA 360 1.06e+01 e.3.1.1 97456 1dlfH 124 1.09e+01 1igtB b.1.1.1 20383 1guiA 155 1.11e+01 b.18.1.14 76351 1vkbA 161 1.11e+01 d.269.1.1 108643 1gxuA 91 1.14e+01 d.58.10.1 76378 2gclA 261 1.16e+01 2gukA 120 1.16e+01 1mjfA 281 1.17e+01 c.66.1.17 79198 1a7j 290 1.19e+01 1a7j c.37.1.6 31952 1pmi 440 1.21e+01 1pmi b.82.1.3 28114 1t77A 414 1.24e+01 1v0wA 506 1.24e+01 d.136.1.2,d.136.1.2 108220,108221 2bjrA 368 1.28e+01 1qo2A 241 1.29e+01 1qo2A c.1.2.1 28533 1vc1A 110 1.30e+01 c.13.2.1 108493 1wzoA 246 1.31e+01 2biqA 219 1.32e+01 1x72A 334 1.35e+01 d.126.1.6 109495 1di6A 195 1.37e+01 1di6A c.57.1.1 33863 1z90A 469 1.38e+01 1wj9A 211 1.41e+01 1b7yA 350 1.44e+01 1pysA d.104.1.1 40776 1gky 187 1.44e+01 1gky c.37.1.1 31839 1a76 326 1.48e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1n08A 163 1.49e+01 b.43.5.1 79730 1yarH 217 1.50e+01 1jalA 363 1.51e+01 c.37.1.8,d.15.10.2 84138,84139 1ylnA 252 1.57e+01 1gr3A 160 1.59e+01 b.22.1.1 65476 1epwA 1290 1.61e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1gefA 123 1.61e+01 1gefA c.52.1.18 60465 1npsA 88 1.62e+01 1prs b.11.1.1 23622 1r6xA 395 1.62e+01 b.122.1.3,c.26.1.5 97167,97168 1u04A 771 1.63e+01 b.34.14.1,c.55.3.10 107539,107540 1z0sA 278 1.66e+01 1epuA 591 1.68e+01 1dn1A e.25.1.1 43358 1c7qA 445 1.71e+01 2pgi c.80.1.2 35307 1is3A 135 1.72e+01 b.29.1.3 76773 1z4eA 153 1.73e+01 1jfuA 186 1.75e+01 c.47.1.10 62940 2bv2A 83 1.77e+01 1txvA 452 1.79e+01 2d37A 176 1.83e+01 1v5vA 401 1.84e+01 1c8uA 285 1.86e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 3sil 379 1.91e+01 3sil b.68.1.1 27542 2arpF 152 1.97e+01 2gr8A 99 1.98e+01 2g09A 297 1.99e+01 1r3dA 264 1.99e+01 1yoaA 159 2.00e+01 1eaxA 241 2.05e+01 b.47.1.2 64889 1dynA 125 2.05e+01 1dynA b.55.1.1 26955 1j1lA 290 2.06e+01 b.82.1.12 90766 1suwA 249 2.06e+01 e.52.1.1 106027 1kt6A 183 2.07e+01 b.60.1.1 84466 2eu9A 355 2.10e+01 2cmuA 342 2.14e+01 1m1zA 513 2.19e+01 c.26.2.1,d.153.1.1 78457,78458 2fwuA 157 2.19e+01 1ln1A 214 2.19e+01 d.129.3.2 74038 1ksiA 642 2.22e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1z2nX 324 2.30e+01 2cfxA 144 2.37e+01 1nmeA 146 2.38e+01 c.17.1.1 85874 2f15A 96 2.40e+01 1hgxA 183 2.41e+01 1tc1A c.61.1.1 34027 3pmgA 561 2.45e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1lr7A 74 2.46e+01 g.3.11.3,g.68.1.1 84679,84680 1q8bA 105 2.49e+01 d.58.4.6 96201 2gc9A 179 2.49e+01 1c7sA 858 2.50e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1nezG 128 2.51e+01 b.1.1.1 85592 1zud2 66 2.60e+01 1rl6A 177 2.62e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1jyoA 130 2.64e+01 d.198.1.1 67483 1xt5A 135 2.66e+01 1yfsA 465 2.67e+01 1i4uA 181 2.67e+01 b.60.1.1 61732 1dugA 234 2.68e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1j5wA 298 2.69e+01 d.104.1.1 71589 1pbyA 489 2.70e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1ojrA 274 2.72e+01 c.74.1.1 93147 2cbiA 594 2.74e+01 1u7bA 261 2.76e+01 1ri6A 343 2.84e+01 b.69.11.1 97503 2bgiA 272 2.87e+01 1kgdA 180 2.88e+01 c.37.1.1 68582 1vqtA 213 2.89e+01 1cvrA 435 2.91e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1w6sA 599 2.99e+01 1s4nA 348 2.99e+01 c.68.1.16 98501 1k32A 1045 2.99e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1ka1A 357 3.04e+01 e.7.1.1 68369 2cxcA 144 3.06e+01 1faoA 126 3.08e+01 1faoA b.55.1.1 26974 1l0wA 580 3.08e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1crzA 403 3.09e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1o98A 511 3.09e+01 c.105.1.1,c.76.1.3 86684,86685 1i24A 404 3.10e+01 c.2.1.2 83663 1tfr 305 3.12e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1i39A 225 3.17e+01 1ekeA c.55.3.1 61585 1x0pA 143 3.17e+01 1ex7A 186 3.17e+01 1gky c.37.1.1 59537 1tr8A 102 3.18e+01 1y4tA 322 3.24e+01 1v98A 140 3.24e+01 1vimA 200 3.29e+01 c.80.1.3 100758 1kb9D 246 3.39e+01 a.3.1.3,f.23.11.1 77317,77318 1txlA 215 3.39e+01 b.60.1.4 107429 1q8dA 108 3.42e+01 a.228.1.1 104554 1u14A 172 3.43e+01 c.51.4.3 107579 1wnyA 186 3.43e+01 1rqwA 207 3.47e+01 b.25.1.1 97781 1qtnA 164 3.51e+01 1pauA c.17.1.1 30999 1ve1A 304 3.54e+01 1j1nA 492 3.55e+01 c.94.1.1 83978 2ffyA 358 3.55e+01 1zxtA 76 3.61e+01 1oxwA 373 3.61e+01 c.19.1.3 87539 1f74A 293 3.65e+01 1nal3 c.1.10.1 29079 1zd9A 188 3.68e+01 1oeyJ 107 3.80e+01 d.15.2.2 92804 2fgtA 417 3.81e+01 1vr4A 103 3.87e+01 1v3eA 431 3.91e+01 b.68.1.1 100287 1xsoA 150 3.92e+01 1mfmA b.1.8.1 22273 1g5hA 454 3.93e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1o4rA 108 3.93e+01 d.93.1.1 92469 1ycdA 243 3.96e+01 1tk9A 188 3.98e+01 c.80.1.3 107082 1pfo 500 4.10e+01 1pfo f.9.1.1 43826 1dy9A 187 4.12e+01 1jxpA b.47.1.3 26400 1qhtA 775 4.13e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1kngA 156 4.15e+01 c.47.1.10 72777 1mkmA 249 4.15e+01 a.4.5.33,d.110.2.2 79242,79243 1vgyA 393 4.18e+01 c.56.5.4,d.58.19.1 100620,100621 1gd1O 334 4.22e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1r0uA 148 4.23e+01 b.60.1.5 96741 1hx1B 114 4.23e+01 1hx1B a.7.7.1 61350 1w3oA 216 4.32e+01 1kjlA 146 4.33e+01 1mp9A 198 4.38e+01 d.129.1.1,d.129.1.1 91385,91386 1xphA 150 4.40e+01 2fj8A 125 4.41e+01 2cwkA 160 4.42e+01 2g8lA 299 4.42e+01 1zhxA 438 4.45e+01 1gdeA 389 4.48e+01 c.67.1.1 60456 1rlw 126 4.55e+01 1rlw b.7.1.1 23177 1o9yA 84 4.57e+01 b.139.1.1 92692 1v54B 227 4.57e+01 b.6.1.2,f.17.2.1 100322,100323 2bhgA 209 4.58e+01 2a6zA 222 4.62e+01 1vpkA 378 4.64e+01 1q4rA 112 4.66e+01 d.58.4.4 95823 1rloA 271 4.67e+01 2ae5B 528 4.73e+01 1gzcA 239 4.73e+01 b.29.1.1 70803 1y0zA 330 4.77e+01 3thiA 371 4.79e+01 2thiA c.94.1.1 35792 1cbs 137 4.82e+01 1hmt b.60.1.2 27201 1ynbA 173 4.86e+01 1sdsA 117 4.87e+01 d.79.3.1 105439 2gcfA 73 4.93e+01 2f4qA 346 4.96e+01 1fehA 574 5.01e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1wraA 308 5.01e+01 1fl1A 230 5.02e+01 1at3A b.57.1.1 27023 1jksA 294 5.03e+01 d.144.1.7 71710 1jb9A 316 5.11e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1yr2A 741 5.12e+01 1v4pA 157 5.14e+01 1zzkA 82 5.14e+01 1sd4A 126 5.14e+01 a.4.5.39 105428 1zsyA 357 5.17e+01 1u6tA 121 5.20e+01 2f0aA 98 5.21e+01 1iab 200 5.22e+01 1iae d.92.1.8 40312 2bb3A 221 5.27e+01 1o8vA 134 5.27e+01 b.60.1.2 86680 1zjcA 418 5.29e+01 1ob8A 135 5.29e+01 1qwdA 177 5.36e+01 b.60.1.1 96471 1vjqA 79 5.37e+01 k.43.1.1 100830 1zkoA 136 5.46e+01 1xw3A 110 5.51e+01 1ytqA 204 5.53e+01 1pjxA 314 5.53e+01 b.68.6.1 104167 1p5dX 463 5.53e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1hw1A 239 5.55e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1bfg 146 5.56e+01 1bfg b.42.1.1 25485 1j58A 385 5.58e+01 b.82.1.2 71531 1ktbA 405 5.58e+01 b.71.1.1,c.1.8.1 72960,72961 1ygtA 111 5.59e+01 2ftbA 125 5.63e+01 1h80A 464 5.64e+01 b.80.1.8 65714 1od3A 168 5.65e+01 b.18.1.10 86825 2fvtA 135 5.69e+01 1sl4A 155 5.73e+01 d.169.1.1 105710 1v30A 124 5.78e+01 2a5hA 416 5.79e+01 1udzA 182 5.79e+01 b.51.1.1 99239 2a10A 125 5.84e+01 1im5A 180 5.86e+01 c.33.1.3 66211 1fg7A 356 5.87e+01 1gewA c.67.1.1 59819 2f91B 35 5.87e+01 2b8nA 429 5.88e+01 1smoA 119 5.91e+01 b.1.1.1 105764 1eyqA 222 5.93e+01 1eypA d.36.1.1 38534 1vr8A 142 5.96e+01 1r0vA 305 5.96e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1o4sA 389 6.01e+01 c.67.1.1 86620 1wj5A 120 6.03e+01 1mkiA 330 6.05e+01 e.3.1.2 84994 1si6X 282 6.06e+01 2a1vA 144 6.07e+01 1wdtA 665 6.07e+01 1ayl 541 6.09e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 2afaA 425 6.10e+01 1iu8A 206 6.10e+01 c.56.4.1 71436 1voqa 90 6.10e+01 1gweA 503 6.13e+01 e.5.1.1 70667 1oacA 727 6.14e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1ash 150 6.18e+01 1ash a.1.1.2 15622 1h7zA 194 6.30e+01 1qhvA b.21.1.1 60733 1wmhA 89 6.31e+01 1orc 71 6.32e+01 1orc a.35.1.2 17054 1nkr 201 6.32e+01 1nkr b.1.1.4,b.1.1.4 21799,21800 1yloA 348 6.34e+01 1vjgA 218 6.36e+01 c.23.10.6 100810 1jbkA 195 6.39e+01 c.37.1.20 71631 1ywqA 200 6.39e+01 1rlmA 271 6.40e+01 1pz5B 220 6.42e+01 b.1.1.1,b.1.1.2 95403,95404 1et9A 204 6.42e+01 1an8 b.40.2.2,d.15.6.1 25204,37793 1q32A 544 6.43e+01 d.136.1.3,d.136.1.3 104507,104508 1vgjA 184 6.53e+01 1x89A 178 6.54e+01 1e4iA 447 6.56e+01 1e70M c.1.8.4 59225 1jjvA 206 6.57e+01 c.37.1.1 71698 2avtA 378 6.58e+01 1pxvA 183 6.59e+01 d.3.1.1 95301 1st9A 143 6.60e+01 c.47.1.10 98987 1cliA 345 6.61e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 2al1A 436 6.68e+01 2fo3A 125 6.69e+01 1uj6A 227 6.71e+01 c.124.1.4,d.58.40.1 107898,107899 1y4hA 188 6.72e+01 1zoxA 113 6.72e+01 1xer 103 6.72e+01 1xer d.58.1.3 38990 1z8gA 372 6.75e+01 1kxoA 184 6.83e+01 b.60.1.1 84475 1ry6A 360 6.83e+01 c.37.1.9 98090 1h30A 422 6.84e+01 b.29.1.4,b.29.1.4 76604,76605 1wosA 364 6.86e+01 b.44.2.1,d.250.1.1 109468,109469 1y8qA 346 6.88e+01 2cvdA 198 6.88e+01 1xauA 122 6.95e+01 1n5nA 180 6.96e+01 d.167.1.1 85336 1qy6A 274 6.98e+01 b.47.1.1 96574 1wr8A 231 7.00e+01 1r2zA 274 7.02e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 2g6fX 59 7.02e+01 1rp0A 284 7.02e+01 2cwsA 237 7.03e+01 1n9lA 109 7.03e+01 d.110.3.6 85468 1knqA 175 7.10e+01 c.37.1.17 72786 2bkfA 87 7.15e+01 1ewfA 456 7.15e+01 1bp1 d.83.1.1,d.83.1.1 40024,40025 1q1fA 151 7.18e+01 a.1.1.2 104476 2aexA 346 7.19e+01 2g6tA 306 7.20e+01 1iyhA 198 7.21e+01 a.45.1.1,c.47.1.5 83790,83791 1k5nA 276 7.21e+01 b.1.1.2,d.19.1.1 77266,77267 1qh5A 260 7.24e+01 1qh5A d.157.1.2 42057 4pgaA 337 7.28e+01 4pgaA c.88.1.1 35565 2tpt 440 7.30e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1wycA 392 7.35e+01 2bc4A 211 7.38e+01 2al2A 436 7.41e+01 1xo0A 324 7.43e+01 1aisA 182 7.43e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1or0B 528 7.44e+01 1ts9A 102 7.47e+01 1fxkC 133 7.47e+01 1fxkC a.2.5.1 15702 1uc7A 125 7.48e+01 c.47.1.1 99163 1fqtA 112 7.50e+01 1fqtA b.33.1.1 24441 1z84A 351 7.50e+01 2fdiA 211 7.57e+01 1mf7A 194 7.68e+01 c.62.1.1 84937 1yirA 408 7.69e+01 1sx5A 244 7.70e+01 c.52.1.2 99023 1jfmA 174 7.75e+01 d.19.1.1 66640 1zsxA 347 7.75e+01 6ldh 330 7.77e+01 3ldh c.2.1.5,d.162.1.1 30161,42128 1rliA 184 7.79e+01 c.23.5.6 97647 1rocA 155 7.85e+01 b.1.22.1 97673 1vggA 161 7.97e+01 1suuA 312 7.97e+01 b.68.10.1 99006 8dfr 189 7.98e+01 1aoeA c.71.1.1 34895 2bzvA 181 8.00e+01 1zdzA 302 8.06e+01 1of5A 221 8.06e+01 d.17.4.2 86933 1zceA 155 8.06e+01 1vcaA 202 8.09e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1r77A 103 8.09e+01 1oc2A 348 8.12e+01 c.2.1.2 92765 1mtzA 293 8.16e+01 c.69.1.7 79467 1ci9A 392 8.20e+01 e.3.1.1 64767 2auwA 170 8.22e+01 1h7eA 245 8.24e+01 c.68.1.13 60717 1oneA 436 8.33e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1iz6A 138 8.33e+01 b.34.5.2,b.40.4.5 76976,76977 1y0eA 223 8.33e+01 1mi3A 322 8.35e+01 c.1.7.1 91274 1my7A 114 8.36e+01 b.1.18.1 79675 1zowA 313 8.36e+01 1u6rA 380 8.36e+01 1ni9A 338 8.43e+01 e.7.1.2 85739 2f9sA 151 8.52e+01 2bklA 695 8.53e+01 2bwrA 401 8.57e+01 1pjhA 280 8.58e+01 c.14.1.3 94761 1gppA 237 8.58e+01 b.86.1.2 76262 2axoA 270 8.59e+01 1fbr 93 8.61e+01 1fbr g.27.1.1,g.27.1.1 44948,44949 1f7uA 607 8.73e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 2ayuA 417 8.74e+01 1oi7A 288 8.77e+01 c.2.1.8,c.23.4.1 87049,87050 1uvqA 197 8.81e+01 b.1.1.2,d.19.1.1 100062,100063 1wvqA 167 8.82e+01 2c78A 405 8.82e+01 1ud9A 245 8.86e+01 d.131.1.2,d.131.1.2 107768,107769 2c07A 285 8.87e+01 1yzsA 121 8.90e+01 1z0wA 207 8.91e+01 1xqwA 293 8.95e+01 1lzlA 323 8.97e+01 c.69.1.2 78306