# List of top-scoring protein chains for t2k.w0.5 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.soe.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 1yqyA 523 1.70e-04 d.92.1.14 123903 d.166.1.1 123904 1j7nA 776 2.50e-04 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1pwuA 776 3.73e-03 d.92.1.14 95244 d.92.1.14 95245 d.166.1.1 95246 2vccA 891 4.85e-01 2q88A 257 7.06e-01 2jg0A 535 9.02e-01 1gwyA 175 1.51e+00 b.97.1.1 83356 1ylqA 96 1.84e+00 d.218.1.5 123671 1tzqA 175 2.05e+00 b.97.1.1 107522 1iazA 179 2.08e+00 1iazA b.97.1.1 62131 1kd6A 179 2.08e+00 b.97.1.1 68459 2ob9A 130 2.11e+00 1rm8A 169 2.88e+00 d.92.1.11 97660 2d0tA 406 3.06e+00 a.266.1.2 131093 1zc2A 361 3.66e+00 1hv5A 165 3.72e+00 1hfc d.92.1.11 61288 1zkoA 136 3.80e+00 1rgyA 360 4.75e+00 e.3.1.1 97456 1tf0A 572 5.60e+00 a.126.1.1 106822 a.126.1.1 106823 a.126.1.1 106824 2vdbA 579 5.60e+00 1hk5A 585 5.62e+00 a.126.1.1 83536 a.126.1.1 83537 a.126.1.1 83538 1bkeA 581 5.65e+00 a.126.1.1 19387 a.126.1.1 19388 a.126.1.1 19389 1hk3A 585 5.66e+00 a.126.1.1 83530 a.126.1.1 83531 a.126.1.1 83532 2bxkA 585 5.66e+00 a.126.1.1 129431 a.126.1.1 129432 2esgC 585 5.68e+00 a.126.1.1 132323 a.126.1.1 132324 1e7aA 585 5.68e+00 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1n5uA 585 5.68e+00 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 2oayA 390 5.73e+00 1agxA 331 5.88e+00 c.88.1.1 35564 2oqcA 327 5.90e+00 1fr1A 361 5.91e+00 1gceA e.3.1.1 42734 1kjoA 316 6.07e+00 d.92.1.2 77419 8tlnE 316 6.50e+00 1hyt d.92.1.2 59075 1a28A 256 6.63e+00 1a28A a.123.1.1 19290 1e3kA 258 6.72e+00 1a28A a.123.1.1 59193 1sr7A 259 6.77e+00 a.123.1.1 105957 1sqnA 261 6.84e+00 a.123.1.1 105944 1s1gA 124 7.23e+00 d.42.1.2 98346 2i2zA 585 7.66e+00 a.126.1.1 137019 a.126.1.1 137020 2aw5A 575 7.67e+00 2nz0B 140 7.70e+00 2i2rA 144 7.72e+00 1bqqM 174 7.78e+00 1hfc d.92.1.11 40406 1clcA 639 8.24e+00 a.102.1.2 18835 b.1.18.2 21872 1x2nA 73 8.30e+00 a.4.1.1 121646 1t07A 94 8.63e+00 d.279.1.1 106196 4pbgA 468 9.51e+00 1e70M c.1.8.4 28949 1r1tA 122 9.56e+00 a.4.5.5 104769 1smtA 122 9.56e+00 1smtA a.4.5.5 16109 1pbgA 468 1.00e+01 1e70M c.1.8.4 28946 2pbgA 468 1.03e+01 c.1.8.4 28948 1z95A 246 1.04e+01 2d7iA 570 1.09e+01 2ax8A 256 1.12e+01 2fujA 137 1.12e+01 d.38.1.1 134175 1di1A 300 1.16e+01 1di1A a.128.1.4 19446 1r22A 122 1.17e+01 a.4.5.5 104777 2py2A 136 1.17e+01 1npcA 317 1.26e+01 d.92.1.2 59012 1iabA 200 1.27e+01 d.92.1.8 40312 1lmlA 478 1.30e+01 d.92.1.3 40295 2z4jA 248 1.32e+01 1xowA 249 1.32e+01 a.123.1.1 115717 2oz7A 249 1.33e+01 a.123.1.1 139441 2hvcA 250 1.34e+01 1t65A 251 1.34e+01 a.123.1.1 119159 1vqoH 171 1.36e+01 d.41.4.1 120369 2pzmA 330 1.37e+01 1cdzA 96 1.37e+01 1cdzA c.15.1.1 30925 1c7kA 132 1.39e+01 1kuh d.92.1.1 59078 2ax9A 256 1.40e+01 a.123.1.1 127481 2q7kA 257 1.41e+01 2ax6A 256 1.42e+01 a.123.1.1 127479 2q7iA 257 1.42e+01 2ihqA 260 1.44e+01 a.123.1.1 137423 1i38A 260 1.46e+01 1a28A a.123.1.1 61584 1yhqH 177 1.46e+01 d.41.4.1 123190 1wpaA 114 1.54e+01 h.4.17.1 121145 2inwA 133 1.55e+01 d.110.8.1 137533 1xwdC 252 1.55e+01 2r85A 334 1.58e+01 1t7rA 269 1.58e+01 a.123.1.1 106635 1l0gA 358 1.61e+01 e.3.1.1 73400 1e3gA 263 1.61e+01 1a28A a.123.1.1 59192 2elfA 370 1.63e+01 1v29A 220 1.65e+01 d.149.1.1 113493 2am9A 266 1.68e+01 a.123.1.1 126999 2ictA 94 1.75e+01 1vz2A 710 1.76e+01 b.69.7.1 108945 c.69.1.4 108946 1e8nA 710 1.77e+01 1qfmA b.69.7.1 27675 c.69.1.4 34643 2dppA 216 1.78e+01 1o6fA 710 1.79e+01 b.69.7.1 81085 c.69.1.4 81086 1h2wA 710 1.80e+01 b.69.7.1 76596 c.69.1.4 76597 1qfmA 710 1.80e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1e5tA 710 1.80e+01 1qfmA b.69.7.1 27676 c.69.1.4 34644 1o6gA 710 1.81e+01 b.69.7.1 81087 c.69.1.4 81088 1vz3A 710 1.83e+01 b.69.7.1 108947 c.69.1.4 108948 2yxdA 183 1.84e+01 1n67A 359 1.90e+01 b.2.3.4 85354 b.2.3.4 85355 2qdyA 207 1.92e+01 2cz1A 206 1.92e+01 d.149.1.1 131033 2ahjA 206 1.92e+01 2ahjA d.149.1.1 41772 1h2xA 710 1.96e+01 b.69.7.1 76598 c.69.1.4 76599 1z24A 189 1.96e+01 b.60.1.1 124369 2ywrA 216 1.96e+01 2zcfA 206 1.98e+01 1kasA 412 1.98e+01 c.95.1.1 35964 c.95.1.1 35965 1rqfA 184 2.00e+01 g.41.4.1 111914 2psnA 434 2.02e+01 2gx8A 397 2.05e+01 c.135.1.1 135825 2pa6A 427 2.05e+01 1xa6A 466 2.07e+01 a.116.1.1 115030 d.93.1.1 115031 g.49.1.1 115032 1ahjA 207 2.09e+01 2ahjA d.149.1.1 41774 2gv5A 161 2.09e+01 1o07A 358 2.11e+01 e.3.1.1 92390 2gfyA 427 2.18e+01 c.95.1.1 135116 c.95.1.1 135117 2gfvA 427 2.19e+01 c.95.1.1 135110 c.95.1.1 135111 1kugA 203 2.20e+01 d.92.1.9 73008 1tpyA 287 2.22e+01 c.66.1.18 112608 2gfwA 427 2.23e+01 c.95.1.1 135112 c.95.1.1 135113 3kvtA 115 2.23e+01 d.42.1.2 38642 1ea9C 583 2.30e+01 b.1.18.2 70087 b.71.1.1 70088 c.1.8.1 70089 1gs4A 248 2.35e+01 a.123.1.1 76328 2h28A 130 2.41e+01 d.110.8.1 135995 2dejA 350 2.43e+01 2cz9A 350 2.43e+01 2oi2A 292 2.45e+01 1qf8A 182 2.46e+01 1qf8A g.41.4.1 45212 1nn7A 105 2.52e+01 d.42.1.2 85894 1zo1I 501 2.53e+01 2zl2A 196 2.60e+01 2jnvA 91 2.61e+01 2v4bA 300 2.66e+01 3b8sA 584 2.69e+01 1kufA 203 2.70e+01 d.92.1.9 73007 1xucA 171 2.76e+01 d.92.1.11 122332 1jwhC 215 2.76e+01 g.41.4.1 71915 1f2tB 148 2.84e+01 1f2tB 1w40A 101 3.00e+01 1w3eX 101 3.00e+01 830cA 168 3.01e+01 1ck7A d.92.1.11 40400 1w42A 101 3.03e+01 1h7mA 102 3.03e+01 d.79.3.1 83485 1h6fA 193 3.08e+01 b.2.5.4 70901 2ow9A 170 3.16e+01 d.92.1.11 139419 1neuA 124 3.18e+01 b.1.1.1 19704 2b1xB 172 3.21e+01 d.17.4.4 127677 2d1nA 166 3.26e+01 d.92.1.11 131132 2do8A 188 3.32e+01 d.310.1.1 131597 2e2dA 165 3.34e+01 d.92.1.11 131979 1ozuA 153 3.35e+01 b.1.8.1 87630 1w41A 101 3.35e+01 1ii8B 174 3.42e+01 1f2tB 2ddxA 333 3.43e+01 1uxlA 153 3.44e+01 b.1.8.1 100147 1xapA 267 3.51e+01 a.123.1.1 115038 3b9eA 584 3.60e+01 1zofA 198 3.61e+01 c.47.1.10 125439 2axtD 352 3.62e+01 2ggoA 401 3.64e+01 1srdA 154 3.67e+01 1mfmA b.1.8.1 22275 1xdkB 303 3.71e+01 a.123.1.1 115165 1onhA 364 3.76e+01 e.3.1.1 93357 1gceA 364 3.76e+01 1gceA e.3.1.1 42738 2g38A 99 3.80e+01 a.25.4.1 134549 1rgzA 363 3.80e+01 e.3.1.1 97457 2zl4A 196 3.84e+01 1gkpA 458 3.86e+01 b.92.1.3 70231 c.1.9.6 70232 1bzsA 165 3.92e+01 1hfc d.92.1.11 40348 1bqbA 301 3.94e+01 1hyt d.92.1.2 58962 1xx2A 361 3.97e+01 e.3.1.1 116136 1f66C 128 3.97e+01 1aoiC a.22.1.1 16442 1yhdA 100 3.98e+01 1wniA 201 4.00e+01 d.92.1.9 109435