# 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 1dnlA 199 7.08e-11 1ci0A b.45.1.1 25753 1g79A 218 9.14e-11 1ci0A b.45.1.1 25752 2fhqA 141 1.30e-10 1rfeA 162 1.36e-10 1nrgA 261 2.02e-09 b.45.1.1 80694 1ty9A 222 4.53e-09 1vl7A 157 1.55e-08 b.45.1.1 108732 2fg9A 178 2.45e-07 2aq6A 147 9.54e-07 2furA 209 2.09e-06 1w9aA 147 2.85e-06 1xhnA 184 1.94e-05 2asfA 137 1.96e-05 2arzA 247 1.69e-03 1ejeA 192 4.34e-02 1ejeA b.45.1.2 25757 1flmA 122 1.37e-01 1axj b.45.1.1 25747 1zkjA 359 2.10e-01 1v0wA 506 2.89e-01 d.136.1.2,d.136.1.2 108220,108221 1rgzA 363 3.95e-01 e.3.1.1 97457 2a1fA 247 7.14e-01 1rgyA 360 7.86e-01 e.3.1.1 97456 2f6kA 307 9.44e-01 1zd7A 159 1.11e+00 1i0rA 169 1.24e+00 1i0rA b.45.1.2 61489 1pmi 440 1.48e+00 1pmi b.82.1.3 28114 1ywqA 200 1.57e+00 1pvmA 184 1.71e+00 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1x72A 334 1.72e+00 d.126.1.6 109495 2chnA 716 1.92e+00 1jyhA 157 2.10e+00 d.60.1.3 71956 2g09A 297 2.27e+00 1sx5A 244 2.32e+00 c.52.1.2 99023 2cmuA 342 2.39e+00 2ffyA 358 2.58e+00 1r4pB 70 2.70e+00 b.40.2.1 97026 1yc5A 246 3.02e+00 2f15A 96 3.09e+00 2fcjA 119 3.34e+00 3thiA 371 3.63e+00 2thiA c.94.1.1 35792 1udzA 182 3.77e+00 b.51.1.1 99239 1ye8A 178 3.93e+00 1i24A 404 4.09e+00 c.2.1.2 83663 1wnyA 186 4.17e+00 1svmA 377 4.58e+00 1mjfA 281 4.93e+00 c.66.1.17 79198 2ajgA 196 5.39e+00 1od3A 168 5.65e+00 b.18.1.10 86825 1tr8A 102 5.82e+00 1zd9A 188 5.90e+00 1a92A 50 5.98e+00 1a92A h.4.6.1 45791 1st9A 143 6.31e+00 c.47.1.10 98987 1t77A 414 6.46e+00 1v54B 227 7.20e+00 b.6.1.2,f.17.2.1 100322,100323 1fxkC 133 7.48e+00 1fxkC a.2.5.1 15702 1vpkA 378 7.56e+00 1zybA 232 7.61e+00 1ekjA 221 7.62e+00 1ekjB c.53.2.1 33364 2bvfA 459 8.16e+00 1z0wA 207 8.25e+00 1y4tA 322 8.41e+00 1yzsA 121 8.66e+00 1tfr 305 9.45e+00 1tfr a.60.7.1,c.120.1.2 18081,33351 1zt3A 80 9.47e+00 1lr7A 74 9.78e+00 g.3.11.3,g.68.1.1 84679,84680 1et9A 204 9.82e+00 1an8 b.40.2.2,d.15.6.1 25204,37793 1byyA 53 1.04e+01 j.12.1.1 46147 1l0wA 580 1.05e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 2ahuA 531 1.05e+01 1gy8A 397 1.07e+01 c.2.1.2 83376 1pfo 500 1.11e+01 1pfo f.9.1.1 43826 1qtnA 164 1.18e+01 1pauA c.17.1.1 30999 2f9sA 151 1.20e+01 1gskA 513 1.25e+01 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 2erfA 209 1.28e+01 2bneA 241 1.31e+01 1vlyA 338 1.32e+01 b.44.2.1,d.250.1.1 108871,108872 4pgaA 337 1.35e+01 4pgaA c.88.1.1 35565 1a7j 290 1.47e+01 1a7j c.37.1.6 31952 1c1lA 136 1.53e+01 1c1lA b.29.1.3 24219 1c7qA 445 1.59e+01 2pgi c.80.1.2 35307 1di6A 195 1.59e+01 1di6A c.57.1.1 33863 2bgiA 272 1.65e+01 1yfsA 465 1.66e+01 1vc1A 110 1.67e+01 c.13.2.1 108493 1f6bA 198 1.69e+01 c.37.1.8 64986 1nynA 131 1.75e+01 d.235.1.1 86410 1q3iA 214 1.79e+01 d.220.1.1 104524 1mkmA 249 1.81e+01 a.4.5.33,d.110.2.2 79242,79243 1e19A 314 1.87e+01 1b7bA c.73.1.1 34967 2arpF 152 1.87e+01 1kb9D 246 1.89e+01 a.3.1.3,f.23.11.1 77317,77318 1gvp 87 2.00e+01 1gvp b.40.4.7 25369 1ash 150 2.01e+01 1ash a.1.1.2 15622 1pbyA 489 2.09e+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 1cbs 137 2.11e+01 1hmt b.60.1.2 27201 2d0iA 333 2.13e+01 1xw3A 110 2.47e+01 2dcnA 311 2.49e+01 1cseI 71 2.55e+01 1egpA d.40.1.1 38559 1t0qA 498 2.60e+01 a.25.1.2 106220 2afaA 425 2.63e+01 2axoA 270 2.65e+01 1f7uA 607 2.74e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1r3dA 264 2.79e+01 2ccjA 205 2.82e+01 1kb0A 677 2.83e+01 a.3.1.6,b.70.1.1 68378,68379 1yvcA 70 2.83e+01 1o54A 277 2.83e+01 c.66.1.13 92482 1o50A 157 2.87e+01 d.37.1.1,d.37.1.1 92478,92479 1zx5A 300 2.93e+01 1u02A 239 2.98e+01 c.108.1.15 107538 3sil 379 2.99e+01 3sil b.68.1.1 27542 1gd1O 334 3.07e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1rlmA 271 3.14e+01 1vggA 161 3.15e+01 1iu8A 206 3.20e+01 c.56.4.1 71436 2f46A 156 3.23e+01 2fe7A 166 3.23e+01 1ksiA 642 3.24e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1orc 71 3.26e+01 1orc a.35.1.2 17054 1j2gA 319 3.28e+01 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 1qhtA 775 3.30e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1rie 129 3.32e+01 1rie b.33.1.1 24427 1nmeA 146 3.35e+01 c.17.1.1 85874 2fpeA 62 3.41e+01 1j98A 157 3.42e+01 1j98A d.185.1.2 62755 1b8dA 164 3.43e+01 1cpcA a.1.1.3 15665 1e5pA 151 3.47e+01 1bj7 b.60.1.1 59272 2fdiA 211 3.55e+01 2azeA 155 3.60e+01 1jysA 242 3.61e+01 c.56.2.1 77216 1j5pA 253 3.66e+01 d.81.1.3,c.2.1.3 71577,83092 2ghsA 326 3.67e+01 1fyeA 229 3.70e+01 1fyeA c.23.16.4 31477 1lktA 104 3.74e+01 1lktA b.90.1.1 28398 1sd4A 126 3.74e+01 a.4.5.39 105428 1ofdA 1520 3.81e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1gr3A 160 3.88e+01 b.22.1.1 65476 1smoA 119 3.93e+01 b.1.1.1 105764 2bb3A 221 4.05e+01 1i88A 389 4.06e+01 c.95.1.2,c.95.1.2 66070,66071 1vpjA 192 4.10e+01 1d2fA 390 4.11e+01 1d2fA c.67.1.3 34411 1h5uA 842 4.14e+01 1a8i c.87.1.4 60655 1h65A 270 4.17e+01 c.37.1.8 65640 2fvvA 194 4.17e+01 1xzwA 426 4.20e+01 2bv2A 83 4.24e+01 1hw7A 255 4.30e+01 1i7fA d.193.1.1 61297 1j09A 468 4.30e+01 a.97.1.1,c.26.1.1 77025,77026 2bwrA 401 4.31e+01 1uc7A 125 4.34e+01 c.47.1.1 99163 1vbwA 68 4.34e+01 1w6sA 599 4.34e+01 1jfuA 186 4.38e+01 c.47.1.10 62940 1rreA 200 4.47e+01 d.14.1.10 97791 1kdxB 28 4.64e+01 1ojrA 274 4.68e+01 c.74.1.1 93147 1yw3A 208 4.76e+01 1oneA 436 4.80e+01 4enl c.1.11.1,d.54.1.1 29200,38844 2al1A 436 4.81e+01 1fd3A 41 4.85e+01 1fd3A g.9.1.1 44572 1ln1A 214 4.87e+01 d.129.3.2 74038 2g58A 121 4.88e+01 1x6zA 123 4.96e+01 1vkpA 383 5.00e+01 d.126.1.6 108686 1l3iA 192 5.01e+01 c.66.1.22 77676 2bitX 165 5.02e+01 1n9lA 109 5.03e+01 d.110.3.6 85468 1ockA 412 5.06e+01 c.117.1.1 86802 1bouB 302 5.08e+01 1bouB c.56.6.1 33859 1hyoA 421 5.09e+01 1qcnA b.34.8.1,d.177.1.1 59001,59002 1z2wA 192 5.14e+01 1z4eA 153 5.15e+01 1ux8A 132 5.16e+01 1i4uA 181 5.22e+01 b.60.1.1 61732 1dbwA 126 5.24e+01 1dbwA c.23.1.1 31095 1tuvA 114 5.26e+01 1vjgA 218 5.26e+01 c.23.10.6 100810 1uscA 178 5.40e+01 b.45.1.2 99860 1j4aA 333 5.55e+01 c.2.1.4,c.23.12.1 71502,71503 2fp4B 395 5.69e+01 1qfqB 35 5.72e+01 1qfqB j.9.5.1 46131 1dlfH 124 5.74e+01 1igtB b.1.1.1 20383 2av5A 120 5.82e+01 1nwwA 149 5.82e+01 d.17.4.8 86306 2fj8A 125 5.94e+01 1bco 327 5.99e+01 1bco b.48.1.1,c.55.3.3 26431,33676 2bjrA 368 6.00e+01 1vdnA 162 6.05e+01 1p80A 753 6.08e+01 c.23.16.3,e.5.1.1 94337,94338 1m4tA 392 6.10e+01 c.95.1.1,c.95.1.1 78617,78618 1yndA 165 6.10e+01 1g5cA 170 6.11e+01 1g5cA c.53.2.1 60264 1wkcA 184 6.12e+01 1z5bA 469 6.12e+01 1eyqA 222 6.14e+01 1eypA d.36.1.1 38534 1lmb3 92 6.17e+01 1lmb3 1w0pA 781 6.18e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1rl6A 177 6.30e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1h3gA 601 6.40e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 2c31A 568 6.40e+01 1voqa 90 6.43e+01 1v30A 124 6.46e+01 1q3eA 207 6.58e+01 b.82.3.2 95669 1xsoA 150 6.59e+01 1mfmA b.1.8.1 22273 1mctI 28 6.71e+01 g.3.2.1 44062 1wr8A 231 6.77e+01 1xv2A 237 6.77e+01 1gmxA 108 6.81e+01 c.46.1.3 65355 1hgxA 183 6.88e+01 1tc1A c.61.1.1 34027 1q1aA 289 7.02e+01 c.31.1.5 95561 1x0oA 119 7.05e+01 1vr4A 103 7.09e+01 1dgwX 79 7.10e+01 1caxB b.82.1.2 28091 3psg 370 7.10e+01 1smrA b.50.1.2 26841 1j1nA 492 7.22e+01 c.94.1.1 83978 1j71A 334 7.24e+01 1eagA b.50.1.2 62669 1fjgS 93 7.24e+01 1qkfA d.28.1.1 38451 1jjtA 228 7.29e+01 1a7tA d.157.1.1 63139 1of5A 221 7.34e+01 d.17.4.2 86933 2b3gA 123 7.38e+01 1m3kA 392 7.42e+01 c.95.1.1,c.95.1.1 78565,78566 1c8uA 285 7.51e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1x6oA 174 7.54e+01 b.34.5.2,b.40.4.5 109493,109494 1w99A 558 7.62e+01 1zirA 173 7.62e+01 1jwqA 179 7.74e+01 c.56.5.6 90921 2cu3A 64 7.81e+01 2gefA 217 7.97e+01 1m4vA 204 7.98e+01 b.40.2.2,d.15.6.1 74459,74460 1wmhA 89 8.01e+01 1bupA 386 8.02e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1q7sA 117 8.03e+01 c.131.1.1 96055 1gjwA 637 8.04e+01 b.71.1.1,c.1.8.1 60582,60583 2bfxA 284 8.15e+01 1qwdA 177 8.15e+01 b.60.1.1 96471 1l5wA 796 8.21e+01 c.87.1.4 73605 2gukA 120 8.28e+01 1gqiA 708 8.35e+01 c.1.8.10,d.92.2.2 76279,76280 1q1fA 151 8.38e+01 a.1.1.2 104476 1o8xA 146 8.49e+01 c.47.1.10 86681 1my7A 114 8.50e+01 b.1.18.1 79675 1smd 496 8.53e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1suwA 249 8.54e+01 e.52.1.1 106027 1bfg 146 8.56e+01 1bfg b.42.1.1 25485 1jnyA 435 8.57e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1ve1A 304 8.58e+01 1ppjE 196 8.62e+01 b.33.1.1,f.23.12.1 104260,104261 1h6lA 353 8.62e+01 b.68.3.1 60687 1pme 380 8.65e+01 1hcl d.144.1.7 41653 1cvrA 435 8.78e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1rzfL 213 8.78e+01 b.1.1.1,b.1.1.2 98152,98153 1sb8A 352 8.81e+01 c.2.1.2 105410 1tk9A 188 8.83e+01 c.80.1.3 107082 1v3vA 333 8.85e+01 b.35.1.2,c.2.1.1 108345,108346 3fib 249 8.86e+01 3fib d.171.1.1 42455 2cwkA 160 8.94e+01 1zxtA 76 8.99e+01