# List of top-scoring protein chains for t2k-100-30-str2-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 7.09e-15 1g79A 218 6.83e-13 1ci0A b.45.1.1 25752 1dnlA 199 1.20e-12 1ci0A b.45.1.1 25753 1nrgA 261 1.60e-09 b.45.1.1 80694 1rfeA 162 4.00e-09 1t9mA 214 7.24e-09 2fg9A 178 3.93e-08 1ty9A 222 7.31e-08 2asfA 137 1.81e-07 1ci0A 228 1.51e-06 1ci0A b.45.1.1 25750 1vl7A 157 2.90e-06 b.45.1.1 108732 2aq6A 147 1.03e-05 1flmA 122 1.58e-05 1axj b.45.1.1 25747 1axj 122 1.72e-05 1axj b.45.1.1 25749 2furA 209 6.50e-05 1w9aA 147 6.57e-05 1xxoA 147 6.74e-05 1w3oA 216 9.60e-04 2arzA 247 1.40e-03 1xhnA 184 1.51e-03 1ejeA 192 2.14e-02 1ejeA b.45.1.2 25757 2bgiA 272 7.52e-01 1ww7A 160 2.35e+00 1wj9A 211 3.65e+00 1rq2A 382 5.08e+00 c.32.1.1,d.79.2.1 105048,105049 1j58A 385 5.58e+00 b.82.1.2 71531 1oa4A 222 6.10e+00 b.29.1.11 86731 2cwzA 141 6.35e+00 1k0mA 241 7.71e+00 a.45.1.1,c.47.1.5 67949,67950 1k0nA 241 8.27e+00 a.45.1.1,c.47.1.5 67953,67954 1w8oA 601 9.50e+00 1pvtA 238 1.03e+01 c.74.1.1 95189 1pse 69 1.04e+01 1pse b.34.4.2 24595 1bywA 110 1.12e+01 1bywA d.110.3.6 40912 1ofuA 320 1.17e+01 c.32.1.1,d.79.2.1 86972,86973 1e2tA 284 1.26e+01 1e2tA d.3.1.5 37121 1mhnA 59 1.33e+01 b.34.9.1 84964 1j5kA 89 1.40e+01 d.51.1.1 71565 1j27A 102 1.45e+01 d.58.50.1 90778 2fauA 341 1.46e+01 1eur 365 1.48e+01 1eut b.68.1.1 27607 1kijA 390 1.54e+01 d.14.1.3,d.122.1.2 72514,72515 1pfxL 146 1.60e+01 1cfi g.3.11.1,g.3.11.1,g.32.1.1 44207,44208,44973 1wbiA 129 1.71e+01 1euu 605 1.73e+01 1eut b.1.18.2,b.18.1.1,b.68.1.1 21892,23713,27610 1n9lA 109 1.79e+01 d.110.3.6 85468 2azeA 155 1.80e+01 1wcqA 601 1.81e+01 1c0aA 585 1.97e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1pysA 350 1.97e+01 1pysA d.104.1.1 40775 1b7yA 350 2.03e+01 1pysA d.104.1.1 40776 1rthA 560 2.08e+01 1rthA c.55.3.1,e.8.1.2 33576,43028 1by3A 714 2.10e+01 1by5A f.4.3.3 43801 1p3wA 404 2.12e+01 c.67.1.3 87752 1dttA 560 2.16e+01 1rthA c.55.3.1,e.8.1.2 33611,43088 1tuhA 156 2.17e+01 d.17.4.11 107345 1a7cA 379 2.23e+01 1sek e.1.1.1 42660 1fsz 372 2.29e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1rocA 155 2.36e+01 b.1.22.1 97673 2c6qA 351 2.40e+01 1dzkA 157 2.44e+01 1obpA b.60.1.1 27096 1zzkA 82 2.44e+01 2bznA 351 2.45e+01 2gnqA 336 2.45e+01 1y55X 126 2.47e+01 1w0dA 337 2.49e+01 1hrhA 136 2.53e+01 1rthA c.55.3.1 33577 1ye8A 178 2.58e+01 1obpA 159 2.60e+01 1obpA b.60.1.1 27092 1ln1A 214 2.62e+01 d.129.3.2 74038 1z4xA 532 2.65e+01 1hn2A 159 2.67e+01 b.60.1.1 65890 1gt1A 159 2.67e+01 b.60.1.1 90515 1d2eA 397 2.68e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1lj5A 379 2.72e+01 e.1.1.1 73928 1y9wA 140 2.74e+01 1z4vA 532 2.82e+01 1vphA 149 2.82e+01 1syxB 86 2.88e+01 1lepA 99 2.92e+01 1lepA b.35.1.1 24649 1dujA 187 2.92e+01 1dujA d.135.1.1 41449 1klnA 605 2.99e+01 1xwl c.55.3.5,e.8.1.1 33693,42986 1vr4A 103 3.03e+01 1v9yA 167 3.07e+01 d.110.3.2 108454 1by5A 714 3.09e+01 1by5A f.4.3.3 43800 1fkoA 543 3.16e+01 1rthA c.55.3.1,e.8.1.2 33612,43094 1ioaA 240 3.18e+01 1led b.29.1.1 24168 1d06A 130 3.20e+01 1drmA d.110.3.2 40906 1ad3A 452 3.23e+01 1ad3A c.82.1.1 35335 1hniA 558 3.23e+01 1rthA c.55.3.1,e.8.1.2 33586,43044 1v39 322 3.29e+01 3mag c.66.1.25 34206 1vp9 322 3.29e+01 3mag c.66.1.25 34210 1ew0A 130 3.30e+01 1drmA d.110.3.2 40905 1es5A 262 3.35e+01 1skf e.3.1.1 42679 1oj4A 283 3.38e+01 d.14.1.5,d.58.26.5 93083,93084 2fcpA 723 3.40e+01 1by5A f.4.3.3 43802 1a79A 171 3.44e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1jyoA 130 3.44e+01 d.198.1.1 67483 1g5vA 88 3.51e+01 1g5vA b.34.9.1 60292 1qf6A 642 3.52e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 1es2A 262 3.53e+01 1skf e.3.1.1 42680 1h2bA 359 3.54e+01 b.35.1.2,c.2.1.1 90543,90544 1skf 262 3.55e+01 1skf e.3.1.1 42684 1o5oA 221 3.58e+01 c.61.1.1 92509 1mqeA 207 3.62e+01 d.113.1.1 91394 1bqnA 558 3.66e+01 1rthA c.55.3.1,e.8.1.2 33599,43064 1pda 315 3.66e+01 1pda c.94.1.1,d.50.2.1 35751,38794 1qfgA 725 3.67e+01 1by5A f.4.3.3 43803 1div 149 3.70e+01 1div d.99.1.1,d.100.1.1 40692,40693 1raxA 115 3.72e+01 1lfdA d.15.1.5 37626 1k8kD 300 3.79e+01 d.198.2.1,d.198.2.1 68309,68310 1es4A 262 3.84e+01 1skf e.3.1.1 42683 1wluA 136 3.86e+01 1qrrA 394 3.89e+01 1qrrA c.2.1.2 29824 1j1yA 136 3.92e+01 d.38.1.5 90776 1qp2A 70 3.99e+01 1pse b.34.4.2 24596 1ew3A 159 4.00e+01 1mup b.60.1.1 27114 2bkxA 242 4.03e+01 1w5fA 353 4.08e+01 1r0vA 305 4.10e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1c5kA 439 4.13e+01 1crzA b.68.4.1,c.51.2.1 27630,33212 3mag 307 4.20e+01 3mag c.66.1.25 34205 1ewnA 219 4.23e+01 1bnkA b.46.1.2 25762 1zd7A 159 4.27e+01 1wi6A 88 4.29e+01 1e5dA 402 4.29e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1zt3A 80 4.33e+01 2bwqA 129 4.35e+01 2gw8A 114 4.36e+01 1jeqA 609 4.36e+01 1jeqA a.140.2.1,b.131.1.1,c.62.1.3 64748,90366,90367 1m4uL 139 4.39e+01 g.17.1.2 78626 1hmvA 560 4.46e+01 1rthA c.55.3.1,e.8.1.2 33587,43046 1lp9E 194 4.46e+01 b.1.1.1,b.1.1.2 91086,91087 1i24A 404 4.48e+01 c.2.1.2 83663 2hmiA 558 4.51e+01 1rthA c.55.3.1,e.8.1.2 33604,43106 1pdkB 157 4.55e+01 1pdkB b.2.3.2 22427 2ga9A 297 4.55e+01 2f9fA 177 4.63e+01 1g6aA 271 4.65e+01 1btl e.3.1.1 42704 1vpt 348 4.71e+01 3mag c.66.1.25 34207 2fcjA 119 4.75e+01 1agqD 135 4.79e+01 1agqA g.17.1.2 44792 1eetA 557 4.80e+01 1rthA c.55.3.1,e.8.1.2 33608,43078 2aheA 267 4.89e+01 1agqA 135 4.91e+01 1agqA g.17.1.2 44789 1a3yA 149 4.94e+01 1obpA b.60.1.1 27110 1lxiA 139 4.97e+01 g.17.1.2 84735 1xfsA 178 5.00e+01 d.129.3.5 109589 1mkyA 439 5.06e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1ay0A 680 5.09e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31823,31824,33100 1ipd 345 5.29e+01 1cnzA c.77.1.1 35038 2f02A 323 5.33e+01 2bgcA 238 5.35e+01 1ox8A 107 5.37e+01 b.136.1.1 93671 1xfkA 336 5.38e+01 1eut 605 5.39e+01 1eut b.1.18.2,b.18.1.1,b.68.1.1 21891,23712,27609 1jzuA 157 5.42e+01 b.60.1.1 84271 2awdA 323 5.46e+01 1kagA 173 5.58e+01 c.37.1.2 72249 2fcr 173 5.62e+01 1rcf c.23.5.1 31151 2dcnA 311 5.62e+01 1e5xA 486 5.68e+01 c.79.1.1 59283 1y0hA 105 5.73e+01 1qbeA 132 5.75e+01 1qbeA d.85.1.1 40138 1fwxA 595 5.78e+01 b.6.1.4,b.69.3.1 60069,60070 1f6oA 219 5.80e+01 1bnkA b.46.1.2 25763 1v7wA 807 5.82e+01 a.102.1.4,b.30.5.3 108411,108412 1ddlA 188 5.82e+01 1auyA b.121.4.6 23317 1vrtA 560 5.88e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1cm7A 363 5.88e+01 1cnzA c.77.1.1 35063 1jb0F 164 5.98e+01 1jb0F f.23.16.1 62825 1trkA 680 6.01e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31803,31804,33090 1jx2B 315 6.03e+01 c.37.1.8 67404 1jhjA 171 6.05e+01 b.18.1.9 66714 1dv8A 128 6.06e+01 1ixxB d.169.1.1 42352 1i8nA 126 6.07e+01 1i8nA g.10.1.2 61976 1ej2A 181 6.07e+01 1f9aA c.26.1.3 59414 2b4yA 271 6.11e+01 1bbpA 173 6.12e+01 1bbpA b.60.1.1 27147 1quqB 121 6.13e+01 1quqB b.40.4.3 25305 1m8jA 181 6.13e+01 c.26.1.3 84875 1gpuA 680 6.14e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1y0yA 353 6.14e+01 1p1lA 102 6.21e+01 d.58.5.2 87695 1w66A 232 6.32e+01 1tdhA 364 6.40e+01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1d8yA 605 6.40e+01 1xwl c.55.3.5,e.8.1.1 33684,42977 2c1gA 431 6.46e+01 1nlr 234 6.46e+01 2nlrA b.29.1.11 24345 2atxA 194 6.47e+01 1crzA 403 6.50e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1dl5A 317 6.56e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1zs7A 190 6.59e+01 2ac3A 316 6.72e+01 1klqA 197 6.76e+01 d.135.1.1 68689 1i9yA 347 6.76e+01 1i9yA d.151.1.2 62101 1xfoA 357 6.77e+01 1i9zA 347 6.78e+01 1i9yA d.151.1.2 62102 1fxkC 133 6.78e+01 1fxkC a.2.5.1 15702 1gp0A 143 6.82e+01 b.64.1.1 70300 2ac5A 316 6.84e+01 2d0oA 610 6.91e+01 2fxqA 264 6.91e+01 1ujqA 305 6.92e+01 c.1.12.7 99463 1i50K 120 6.94e+01 d.74.3.2 61765 1f9aA 168 7.00e+01 1f9aA c.26.1.3 31602 1xn9A 101 7.09e+01 1h7zA 194 7.11e+01 1qhvA b.21.1.1 60733 1av6A 289 7.21e+01 3mag c.66.1.25 34218 1mw9X 592 7.36e+01 e.10.1.1 91480 1hmpA 217 7.41e+01 1qk3A c.61.1.1 34075 1rkqA 282 7.43e+01 c.108.1.10 97621 1njhA 119 7.57e+01 b.128.1.1 85787 2f4iA 197 7.59e+01 2ucz 165 7.64e+01 1u9aA d.20.1.1 38330 1esiA 262 7.69e+01 1skf e.3.1.1 42682 1z7gA 217 7.71e+01 2cr9A 139 7.73e+01 1zbtA 371 7.75e+01 1viaA 175 7.81e+01 c.37.1.2 100754 1g57A 217 7.82e+01 1g57A d.115.1.2 60253 1i69A 219 7.83e+01 c.94.1.1 61825 1dghB 498 7.86e+01 1cf9A e.5.1.1 42791 2av4A 162 7.90e+01 2cx1A 187 7.92e+01 1yqdA 366 7.95e+01 1twfK 120 8.00e+01 1dgfA 497 8.02e+01 1cf9A e.5.1.1 42782 1rliA 184 8.05e+01 c.23.5.6 97647 1mua 256 8.08e+01 2cba b.74.1.1 27831 2bjfA 329 8.14e+01 1rz1A 161 8.37e+01 b.45.1.2 98124 1h1aA 191 8.38e+01 b.29.1.11 83450 1kkcA 221 8.47e+01 a.2.11.1,d.44.1.1 68660,68661 2ftrA 108 8.49e+01 1caj 260 8.62e+01 2cba b.74.1.1 27841 2a5sA 284 8.67e+01 12ca 260 8.69e+01 2cba b.74.1.1 27942 2f62A 161 8.79e+01 1tkaA 678 8.81e+01 1trkA c.36.1.10,c.36.1.6,c.48.1.1 31815,31816,33096 2ms2A 129 8.88e+01 1msc d.85.1.1 40049 2a0kA 161 8.93e+01 2f2tA 161 8.93e+01 1nziA 159 8.98e+01 b.23.1.1,g.3.11.1 86449,86450 1on0A 158 8.99e+01 d.108.1.1 87095