# List of top-scoring protein chains for T0289.t04-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.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 1h8lA 380 1.75e-24 b.3.2.1,c.56.5.1 65737,65738 1yw6A 335 8.23e-23 1uwyA 426 3.43e-22 b.3.2.1,c.56.5.1 100130,100131 2g9dA 350 3.06e-19 1yw4A 341 5.97e-19 2bcoA 350 8.42e-19 1cpb 306 1.05e-14 1aye c.56.5.1 33826 2bo9A 308 1.18e-14 2c1cA 312 3.03e-14 2boaA 404 3.19e-14 1z5rA 306 4.69e-14 1zliA 309 5.49e-14 1kwmA 402 1.58e-13 c.56.5.1,d.58.3.1 73079,73080 1nsa 395 2.17e-13 1aye c.56.5.1,d.58.3.1 33825,39066 1jqgA 433 4.41e-13 c.56.5.1,d.58.3.1 71791,71792 1dtdA 303 1.01e-12 1aye c.56.5.1 33823 1obr 326 2.34e-12 1aye c.56.5.2 33828 1yme 309 9.58e-12 1aye c.56.5.1 33804 1pytB 309 9.93e-12 1aye c.56.5.1 33820 2ctc 307 1.11e-11 1aye c.56.5.1 33802 1m4lA 307 1.13e-11 c.56.5.1 78604 1aye 401 1.38e-11 1aye c.56.5.1,d.58.3.1 33824,39065 1bavA 309 2.21e-11 1aye c.56.5.1 33806 5cpa 307 2.61e-11 1aye c.56.5.1 33811 1cbx 307 2.83e-11 1aye c.56.5.1 33813 1pca 403 8.36e-11 1aye c.56.5.1,d.58.3.1 33822,39063 1m22A 503 6.17e-01 c.117.1.1 78464 1ab4 493 5.77e+00 1ab4 e.11.1.1 43251 2cstA 411 6.31e+00 1ajsA c.67.1.1 34273 1aatA 411 6.61e+00 2c9aA 259 9.27e+00 2czdA 208 1.32e+01 2bleA 367 1.52e+01 2glzA 153 1.58e+01 1j36A 607 1.69e+01 d.92.1.5 84054 1rzwA 123 1.83e+01 1t0iA 191 2.04e+01 c.23.5.4 106209 2cbnA 306 2.07e+01 1xfcA 384 2.09e+01 1dpe 507 2.45e+01 1dpe c.94.1.1 35799 2fug4 409 2.48e+01 1dppA 507 2.63e+01 1dpe c.94.1.1 35800 1dx4A 585 2.70e+01 2bce c.69.1.1 34622 1ve3A 227 2.85e+01 1su1A 208 2.93e+01 d.159.1.7 106016 1xhbA 472 3.08e+01 1xl7A 612 3.17e+01 1xmdA 612 3.21e+01 1xmcA 612 3.25e+01 1xvpB 246 3.36e+01 1vjzA 341 3.42e+01 c.1.8.3 100838 1wlsA 328 3.66e+01 1kehA 689 3.73e+01 d.153.1.2 72370 2pjrA 548 3.78e+01 1pjr c.37.1.19,c.37.1.19 32395,32396 1d6mA 653 3.87e+01 1d6mA e.10.1.1 43248 1r4mB 431 3.87e+01 c.111.1.2 97000 1zncA 266 3.88e+01 2cba b.74.1.1 27955 2a7rA 366 3.94e+01 1pjr 724 3.99e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 3pmgA 561 4.23e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1i7dA 659 4.35e+01 1d6mA e.10.1.1 61886 2gfqA 298 4.48e+01 1si7A 369 4.56e+01 d.265.1.4 98883 1sb7A 368 4.57e+01 d.265.1.4 105408 1jkw 323 4.90e+01 1jkw a.74.1.1,a.74.1.1 18356,18357 1pzdA 322 4.91e+01 b.1.10.3,d.105.1.2 95413,95414 1xrtA 467 4.91e+01 1xnwA 530 5.00e+01 1szwA 379 5.09e+01 d.265.1.4 99047 1qy9A 297 5.15e+01 d.21.1.2,d.21.1.2 104645,104646 2c6qA 351 5.22e+01 1yhfA 115 5.25e+01 1kxu 333 5.25e+01 1jkw a.74.1.1,a.74.1.1 18358,18359 1xo6A 530 5.28e+01 1qyaA 307 5.32e+01 d.21.1.2,d.21.1.2 104653,104654 2c35B 172 5.32e+01 1a3wA 500 5.53e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 1r4xA 275 5.83e+01 b.1.10.3,d.105.1.2 97054,97055 1sdjA 310 5.84e+01 d.21.1.2,d.21.1.2 98807,98808 1sqnA 261 6.21e+01 a.123.1.1 105944 1wzaA 488 6.22e+01 1sr7A 259 6.39e+01 a.123.1.1 105957 1jkgB 250 6.55e+01 d.17.4.2 66796 1yabA 87 6.67e+01 1o6aA 96 6.81e+01 b.139.1.1 92562 1l8aA 886 6.82e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1og4A 226 6.83e+01 d.166.1.3 92864 2escA 361 7.08e+01 1ohzA 162 7.08e+01 b.2.2.2 93043 1ykhA 108 7.21e+01 1og3A 226 7.26e+01 d.166.1.3 92863 1l3aA 227 7.37e+01 d.18.1.2 73531 1ej6B 1275 7.54e+01 i.7.1.1 45968 1mlwA 301 7.59e+01 d.178.1.1 79289 1y8qB 640 7.60e+01 1e3kA 258 7.71e+01 1a28A a.123.1.1 59193 1j6uA 469 7.72e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1orrA 347 7.78e+01 c.2.1.2 93460 2awnA 381 8.03e+01 1q1bA 381 8.12e+01 b.40.6.3,c.37.1.12 95562,95563 1u9yA 284 8.13e+01 1o6bA 169 8.13e+01 c.26.1.3 92564 2gjmA 583 8.13e+01 1rhgA 174 8.25e+01 1bgc a.26.1.1 16812 1cd9A 175 8.34e+01 1bgc a.26.1.1 16815 1brwA 433 8.42e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1mhmA 288 8.43e+01 1jwqA 179 8.45e+01 c.56.5.6 90921 2czgA 433 8.55e+01 1ta8A 332 8.55e+01 1jd0A 263 8.57e+01 2cba b.74.1.1 62888 1cvjA 190 8.58e+01 1cvjB d.58.7.1,d.58.7.1 39191,39192 1t0bA 252 8.78e+01 c.23.16.6 106199 1ypxA 375 8.79e+01 1gxyA 226 8.89e+01 d.166.1.3 76380 1taeA 332 8.95e+01