# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 2bcoA 350 3.79e-24 1yw4A 341 2.86e-23 1h8lA 380 2.53e-05 b.3.2.1,c.56.5.1 65737,65738 1qmuA 380 4.19e-05 1qmuA b.3.2.1,c.56.5.1 22534,33827 2bo9A 308 2.63e-03 1jqgA 433 1.25e-02 c.56.5.1,d.58.3.1 71791,71792 2c1cA 312 2.06e-02 1aye 401 4.56e-02 1aye c.56.5.1,d.58.3.1 33824,39065 1dtdA 303 5.27e-02 1aye c.56.5.1 33823 2ctb 307 1.87e-01 1aye c.56.5.1 33803 2ctc 307 1.92e-01 1aye c.56.5.1 33802 1m4lA 307 2.16e-01 c.56.5.1 78604 1yme 309 2.19e-01 1aye c.56.5.1 33804 1z5rA 306 2.44e-01 6cpa 307 3.05e-01 1aye c.56.5.1 33816 1bavA 309 3.07e-01 1aye c.56.5.1 33806 1kwmA 402 5.20e-01 c.56.5.1,d.58.3.1 73079,73080 1bl3A 160 1.90e+00 1b9dA c.55.3.2 33655 1jvbA 347 2.02e+00 b.35.1.2,c.2.1.1 77181,77182 1hyvA 166 2.60e+00 1b9dA c.55.3.2 61424 1b9dA 163 3.96e+00 1b9dA c.55.3.2 33649 1qd1A 325 4.05e+00 1qd1A d.58.34.1,d.58.34.1 39493,39494 1qatB 622 4.18e+00 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17355,23172,29600 1vp4A 425 4.40e+00 1djxB 624 4.72e+00 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1qasA 622 5.90e+00 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17340,23157,29585 1ysc 421 6.04e+00 1ivyA c.69.1.5 34652 1obr 326 6.11e+00 1aye c.56.5.2 33828 1lpuA 332 6.89e+00 d.144.1.7 74177 1xwiA 322 7.21e+00 2cvlA 124 7.28e+00 1om1A 332 8.78e+00 d.144.1.7 93347 1cy9A 264 8.78e+00 1ecl e.10.1.1 43236 2aqjA 538 9.48e+00 1kyqA 274 1.00e+01 c.2.1.11,e.37.1.1 73281,73282 1g01A 364 1.00e+01 7a3hA c.1.8.3 60161 1a6o 332 1.07e+01 1a6o 1djxA 624 1.12e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1lp4A 332 1.12e+01 d.144.1.7 74170 1gdhA 320 1.16e+01 1gdhA c.2.1.4,c.23.12.1 30095,31355 2itg 163 1.18e+01 1b9dA c.55.3.2 33669 1m2rA 327 1.23e+01 d.144.1.7 84760 1o0wA 252 1.28e+01 a.149.1.1,d.50.1.1 80751,80752 1cz1A 394 1.32e+01 1cz1A c.1.8.3 28839 1g0cA 364 1.35e+01 7a3hA c.1.8.3 60165 1k3sA 113 1.39e+01 d.198.1.1 68120 1eqcA 394 1.39e+01 1cz1A c.1.8.3 28811 1laxA 370 1.40e+01 c.94.1.1 84576 1hdcA 253 1.41e+01 1e6wA c.2.1.2 29862 1xovA 326 1.42e+01 1yhtA 367 1.50e+01 1yloA 348 1.51e+01 1vggA 161 1.55e+01 1ne2A 200 1.56e+01 c.66.1.32 85586 2hsdA 253 1.67e+01 1e6wA c.2.1.2 29866 1f1sA 814 1.76e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 2as0A 396 1.80e+01 1usgA 346 1.84e+01 c.93.1.1 99864 1cpy 421 1.89e+01 1ivyA c.69.1.5 34651 1h6kZ 98 1.94e+01 d.58.7.1 60686 1gu7A 364 1.97e+01 b.35.1.2,c.2.1.1 83321,83322 1oe0A 230 1.98e+01 c.37.1.1 92788 1f47B 144 2.19e+01 1f46A d.129.4.1 59645 1b8pA 329 2.27e+01 1bmdA c.2.1.5,d.162.1.1 30147,42114 1zm7A 230 2.28e+01 2gl5A 410 2.33e+01 1anf 370 2.42e+01 4mbp c.94.1.1 35776 2axpA 173 2.44e+01 1w9hA 427 2.51e+01 2vil 126 2.59e+01 2vil d.109.1.1 40830 1oo0B 110 2.69e+01 d.58.7.1 87183 1itg 166 2.70e+01 1b9dA c.55.3.2 33661 1a2zA 220 2.75e+01 1a2zA c.56.4.1 33794 1mk4A 157 2.86e+01 d.108.1.1 84979 1xfjA 261 2.86e+01 d.194.1.2 109585 1rq2A 382 2.94e+01 c.32.1.1,d.79.2.1 105048,105049 2bfxA 284 2.98e+01 1ytvA 366 3.02e+01 1ads 315 3.03e+01 1frb c.1.7.1 28671 1ejxC 567 3.05e+01 b.92.1.1,c.1.9.2 83184,83185 1f8yA 157 3.11e+01 1f8xA c.23.14.1 31395 1iba 101 3.13e+01 1iba d.95.1.1 40567 1ydgA 211 3.27e+01 1h2vZ 156 3.27e+01 d.58.7.1 76595 1f7wA 144 3.27e+01 1f46A d.129.4.1 59679 1hw6A 278 3.30e+01 1frb c.1.7.1 61296 1mpb 370 3.32e+01 4mbp c.94.1.1 35780 1iyxA 432 3.32e+01 c.1.11.1,d.54.1.1 83815,83816 2agtA 319 3.39e+01 1j90A 230 3.42e+01 c.37.1.1 66448 1d4xG 126 3.44e+01 1d0nA d.109.1.1 59109 1ki9A 192 3.45e+01 c.37.1.1 84404 1us0A 316 3.48e+01 c.1.7.1 99850 1el3A 316 3.49e+01 1frb c.1.7.1 28672 1pwmA 316 3.51e+01 c.1.7.1 95231 1w8sA 263 3.55e+01 1a80 277 3.59e+01 1frb c.1.7.1 28700 1vixA 420 3.59e+01 c.56.5.4,d.58.19.1 100777,100778 1tlfA 301 3.61e+01 1tlfA c.93.1.1 35687 1yj7A 171 3.63e+01 2lbp 346 3.80e+01 2liv c.93.1.1 35709 1rk8A 165 3.83e+01 d.58.7.1 97603 1x1rA 178 3.87e+01 1b1cA 181 3.90e+01 1amoA c.23.5.2 31212 1jwqA 179 3.90e+01 c.56.5.6 90921 1yagG 125 3.95e+01 1d0nA d.109.1.1 40846 1wzcA 249 4.07e+01 1vq0A 302 4.20e+01 1nm1G 125 4.22e+01 d.109.1.1 80653 1rtqA 299 4.22e+01 c.56.5.4 97819 1w5fA 353 4.27e+01 2b81A 323 4.31e+01 1j8yF 297 4.34e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1a7lA 389 4.36e+01 4mbp c.94.1.1 35787 1f48A 589 4.41e+01 1f48A c.37.1.10,c.37.1.10 32280,32281 1s1pA 331 4.44e+01 c.1.7.1 98350 1awd 94 4.48e+01 1awd d.15.4.1 37673 1blxA 326 4.58e+01 1hcl d.144.1.7 41596 1az1 315 4.62e+01 1frb c.1.7.1 28677 1qh4A 380 4.65e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1k66A 149 4.68e+01 c.23.1.1 90941 1ecl 597 4.70e+01 1ecl e.10.1.1 43238 1d8yA 605 4.89e+01 1xwl c.55.3.5,e.8.1.1 33684,42977 1oo2A 119 5.03e+01 b.3.4.1 93372 2acr 315 5.18e+01 1frb c.1.7.1 28674 1dusA 194 5.41e+01 1dusA c.66.1.4 34182 1f8xA 157 5.44e+01 1f8xA c.23.14.1 31397 1g8lA 411 5.55e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1fpoA 171 5.60e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 3erk 364 5.63e+01 1hcl d.144.1.7 41654 2kfnA 605 5.70e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 1mjc 69 5.74e+01 1mjc b.40.4.5 25319 1xx1A 285 5.74e+01 1mq4A 272 5.77e+01 d.144.1.7 91391 2anpA 291 5.78e+01 1pf5A 131 5.80e+01 d.79.1.1 94604 1swvA 267 5.86e+01 1s48A 609 5.86e+01 e.8.1.4 98475 1p27B 106 5.88e+01 d.58.7.1 93908 1fnoA 417 5.95e+01 d.58.19.1,c.56.5.4 70145,75841 1cec 343 5.99e+01 1ceo c.1.8.3 28809 1eceA 358 6.09e+01 1eceA c.1.8.3 28813 1w3jA 468 6.10e+01 c.1.8.4 109156 2ajrA 331 6.21e+01 4mbp 370 6.23e+01 4mbp c.94.1.1 35777 1f46A 140 6.29e+01 1f46A d.129.4.1 59643 1ja1A 622 6.30e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1rqlA 267 6.42e+01 c.108.1.3 97750 1ceo 343 6.50e+01 1ceo c.1.8.3 28808 1y8qB 640 6.51e+01 1nonA 179 6.52e+01 c.61.1.1 103868 1yaxA 153 6.54e+01 1vom 762 6.60e+01 1lvk b.34.3.1,c.37.1.9 24577,32174 1ihuA 589 6.62e+01 c.37.1.10,c.37.1.10 62394,62395 1d3yA 301 6.66e+01 1d3yA e.12.1.1 43252 1s6yA 450 6.77e+01 c.2.1.5,d.162.1.2 105314,105315 1a5v 162 7.02e+01 1cxqA c.55.3.2 33629 1c0dA 358 7.04e+01 1eceA c.1.8.3 28815 1j8mF 297 7.12e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 2conA 79 7.12e+01 1nriA 306 7.35e+01 c.80.1.3 86123 1i3kA 348 7.41e+01 1xel c.2.1.2 61595 1i24A 404 7.42e+01 c.2.1.2 83663 1e9iA 431 7.49e+01 c.1.11.1,d.54.1.1 64818,64819 1spvA 184 7.53e+01 c.50.1.2 98957 1sdjA 310 7.53e+01 d.21.1.2,d.21.1.2 98807,98808 1amp 291 7.65e+01 1amp c.56.5.4 33837 1lokA 291 7.65e+01 c.56.5.4 78122 1bjt 793 7.65e+01 1bjt e.11.1.1 43249 1wyuB 474 7.67e+01 1tvoA 368 7.69e+01 1lv3A 68 7.74e+01 g.39.1.9 78231 1es9A 232 7.77e+01 1wab c.23.10.3 31340 1s5lH 66 7.77e+01 2bklA 695 7.82e+01 1h4uA 265 7.82e+01 1h4uA d.22.1.2,g.3.11.5 60622,60623 1qu9A 128 7.90e+01 1qu9A d.79.1.1 39755 1qu9C 128 7.90e+01 1qu9A d.79.1.1 39757 1m2kA 249 7.92e+01 c.31.1.5 84754 1vsd 152 8.02e+01 1cxqA c.55.3.2 33625 1ldm 329 8.19e+01 3ldh c.2.1.5,d.162.1.1 30160,42127 1p2fA 220 8.26e+01 a.4.6.1,c.23.1.1 87720,87721 2fymA 431 8.28e+01 1xfsA 178 8.29e+01 d.129.3.5 109589 1xznA 179 8.30e+01 1jhnA 424 8.48e+01 b.104.1.1,b.29.1.12 66722,70060 1ymiA 334 8.54e+01 1mumA 295 8.57e+01 c.1.12.7 85108 1jj7A 260 8.58e+01 c.37.1.12 63114 7aatA 401 8.71e+01 1ajsA c.67.1.1 34250 2ashA 381 8.76e+01 1ihnA 113 8.82e+01 1ihnA c.103.1.1 62388 1z15A 344 8.91e+01 1vjtA 483 8.94e+01 c.2.1.5,d.162.1.2 100833,100834 2a9fA 398 8.94e+01 1klnA 605 8.95e+01 1xwl c.55.3.5,e.8.1.1 33693,42986 1f7sA 139 8.96e+01 1cof d.109.1.2 40857 1wab 232 8.97e+01 1wab c.23.10.3 31341 1hxkA 1015 8.99e+01 a.8.3.1,b.30.5.6,c.6.2.1 83070,83071,83072 1htyA 1015 9.00e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1hh2P 344 9.00e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838