# List of top-scoring protein chains for T0348.t06-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 1pft 50 1.51e-02 1pft g.41.3.1 45206 2ct7A 86 1.53e+00 1s72Z 73 1.86e+00 g.41.8.1 105345 1vqoZ 83 2.20e+00 1tr9A 341 3.07e+00 1y65A 342 3.07e+00 2ct2A 88 3.71e+00 1y88A 199 3.76e+00 2aq6A 147 4.12e+00 1wd2A 60 5.72e+00 g.44.1.1 109232 1f4dA 264 5.89e+00 1bkpA d.117.1.1 40972 1edyA 134 6.25e+00 1ayoA b.2.4.1 22428 1gnf 46 7.18e+00 1gatA g.39.1.1 45107 1e4uA 78 7.27e+00 1e4uA g.44.1.1 59231 1z1zA 131 7.87e+00 1ww8A 439 7.93e+00 1r4mA 529 8.90e+00 c.111.1.2 96999 1yovA 537 8.91e+00 1tt5A 531 8.92e+00 c.111.1.2 107291 2avyS 91 9.09e+00 1yqwA 264 9.24e+00 1yrqA 264 9.30e+00 1frfS 264 9.55e+00 2frvA e.19.1.1 43312 1p91A 269 9.71e+00 c.66.1.33 94378 2ff0A 102 9.96e+00 1n9dA 199 1.02e+01 a.26.1.1 85464 2a66A 113 1.02e+01 2fqpA 97 1.07e+01 1fl2A 310 1.11e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 2a8jA 420 1.13e+01 2a8mA 420 1.13e+01 2a8lA 420 1.13e+01 1bc8C 93 1.15e+01 1awcA a.4.5.21 16168 1dx8A 70 1.19e+01 1rb9 g.41.5.1 45243 1odhA 174 1.20e+01 d.239.1.1 86850 1jm7A 112 1.24e+01 g.44.1.1 66880 1so2A 420 1.27e+01 a.211.1.2 98936 1sojI 420 1.27e+01 a.211.1.2 98950 1p9rA 418 1.27e+01 c.37.1.11 94399 1ur6B 52 1.33e+01 g.44.1.1 99812 1lm5A 214 1.42e+01 d.211.2.1 74029 1ujvA 96 1.44e+01 b.36.1.1 99470 1u79A 129 1.52e+01 d.26.1.1 107714 1ffkW 73 1.54e+01 1ffkW g.41.8.1 45315 1jagA 241 1.54e+01 c.37.1.1 66463 1fl1A 230 1.55e+01 1at3A b.57.1.1 27023 1z6uA 150 1.56e+01 1zsqA 528 1.58e+01 1vdwA 254 1.59e+01 e.7.1.1 100569 1ydfA 257 1.62e+01 1yqdA 366 1.67e+01 1wfeA 86 1.71e+01 2a62A 322 1.75e+01 1iq3A 110 1.78e+01 1iq3A a.39.1.6 62640 1h7vA 60 1.82e+01 g.41.5.1 65713 1us5A 314 1.85e+01 c.94.1.1 99856 1dsvA 31 2.00e+01 1dsvA g.40.1.1 45174 1l8dA 112 2.06e+01 h.4.12.1 73687 1lw3A 657 2.09e+01 b.55.1.8,c.45.1.3 91152,91153 1g4mA 393 2.10e+01 b.1.18.11,b.1.18.11 65143,65144 1zd9A 188 2.12e+01 1vd4A 62 2.14e+01 1hvyA 288 2.16e+01 1bkpA d.117.1.1 41049 1hbxG 157 2.18e+01 1awcA a.4.5.21 60934 1hzwA 290 2.19e+01 1bkpA d.117.1.1 61464 5reqA 727 2.20e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 1reqA 727 2.20e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1e1cA 727 2.20e+01 1reqA c.1.19.1,c.23.6.1 29636,31263 1jsyA 418 2.24e+01 b.1.18.11,b.1.18.11 71847,71848 2a6hD 1524 2.26e+01 1ju6A 313 2.30e+01 d.117.1.1 63289 2al7A 186 2.32e+01 2h18A 193 2.34e+01 1ypvA 313 2.35e+01 1sur 215 2.36e+01 1sur c.26.2.2 31620 1t9oA 54 2.51e+01 1bor 56 2.52e+01 1bor g.44.1.1 45324 1wiiA 85 2.62e+01 1hw4A 355 2.79e+01 1bkpA d.117.1.1 41054 2a1rA 430 2.82e+01 1dl6A 58 2.82e+01 1dl6A g.41.3.1 45207 1rlyA 60 2.86e+01 g.41.3.1 104988 1hyuA 521 2.90e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1ynjD 1524 2.99e+01 1spwA 39 2.99e+01 1zpuA 534 3.09e+01 1xfkA 336 3.19e+01 1m1qA 91 3.29e+01 a.138.1.3 74419 2d8iA 114 3.30e+01 1cqjA 286 3.33e+01 2scuA c.2.1.8,c.23.4.1 30305,31133 1vckA 115 3.34e+01 2scuA 288 3.34e+01 2scuA c.2.1.8,c.23.4.1 30303,31131 1erd 40 3.36e+01 1erd a.10.1.1 16362 2fymB 18 3.45e+01 1ichA 112 3.45e+01 a.77.1.2 71182 1jj2Y 73 3.50e+01 1ffkW g.41.8.1 63110 1mm3A 61 3.50e+01 g.50.1.2 85016 1sp1 29 3.56e+01 g.37.1.1 45051 1yk4A 52 3.60e+01 1cteA 254 3.62e+01 1theB d.3.1.1 37058 1theA 260 3.65e+01 1theB d.3.1.1 37056 8rxnA 52 3.69e+01 1rb9 g.41.5.1 45215 1t9pA 54 3.70e+01 1rb9 53 3.74e+01 1rb9 g.41.5.1 45214 2aw2B 108 3.78e+01 1faq 52 3.84e+01 1far g.49.1.1 45352 1v6eA 95 3.93e+01 1pw4A 451 4.11e+01 f.38.1.1 95198 1wjvA 79 4.18e+01 1ee0A 402 4.18e+01 1bi5A c.95.1.2,c.95.1.2 36007,36008 1brfA 53 4.19e+01 1rb9 g.41.5.1 45236 1bq8A 54 4.23e+01 1rb9 g.41.5.1 45237 1zxzA 197 4.25e+01 1rdg 53 4.44e+01 1rb9 g.41.5.1 45221 1mirA 322 4.49e+01 1theB d.3.1.1 37062 1eqbA 417 4.50e+01 1bj4A c.67.1.4 34484 1dfoA 417 4.51e+01 1bj4A c.67.1.4 34480 1yk5A 53 4.54e+01 1jmaB 167 4.60e+01 g.24.1.1,g.24.1.1 63178,63179 1jcoB 30 4.62e+01 g.1.1.1 66503 1e8jA 52 4.66e+01 g.41.5.1 64796 1q35A 320 4.70e+01 c.94.1.1 95661 1mm2A 61 4.83e+01 g.50.1.2 85015 1weoA 93 4.86e+01 2cjsC 62 4.86e+01 1uucA 55 4.91e+01 g.68.1.2 108045 1uufA 369 4.95e+01 b.35.1.2,c.2.1.1 100006,100007 1ev5A 264 4.97e+01 1bkpA d.117.1.1 40935 2tsrA 307 5.26e+01 1bkpA d.117.1.1 41043 1f62A 51 5.46e+01 1f62A g.50.1.2 45360 2gf0A 199 5.48e+01 2a03A 206 5.51e+01 2cu8A 76 5.56e+01 1x4wA 67 5.57e+01 1fiuA 286 5.60e+01 1fiuA c.52.1.10 33317 1vor2 58 5.66e+01 1qyp 57 5.67e+01 1qyp g.41.3.1 45205 1nwyZ 59 5.75e+01 i.1.1.2 86369 1ywzA 175 5.78e+01 1yl35 60 5.83e+01 1pt4A 29 5.87e+01 g.3.3.1 104306 1wijA 140 5.89e+01 2awpA 198 5.92e+01 1ek9A 428 5.94e+01 1ek9A f.5.1.1 43809 1c09A 54 5.97e+01 1rb9 g.41.5.1 45228 1jbjA 186 6.14e+01 b.1.1.4,b.1.1.4 66482,66483 1xi6A 262 6.15e+01 1iu5A 53 6.28e+01 g.41.5.1 71434 1tqqA 471 6.37e+01 f.5.1.1 107242 2dasA 62 6.41e+01 1vzv 221 6.42e+01 1at3A b.57.1.1 27025 1wxvA 92 6.57e+01 1g25A 65 6.64e+01 1g25A g.44.1.1 45325 1bq2 264 6.65e+01 1bkpA d.117.1.1 40971 1rikA 31 6.69e+01 k.12.1.1 104952 1rjwA 339 6.92e+01 b.35.1.2,c.2.1.1 97582,97583 1jmh 316 7.10e+01 1bkpA d.117.1.1 41009 1exkA 79 7.33e+01 1exkA g.54.1.1 45384 2gpyA 233 7.40e+01 1yc5A 246 7.42e+01 1h7kA 483 7.44e+01 e.5.1.1 90624 2rdvA 52 7.45e+01 1rb9 g.41.5.1 45217 1p9hA 226 7.47e+01 b.81.3.1 94389 1ee8A 266 7.63e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 2cklB 165 7.63e+01 2h0dB 100 7.67e+01 1a90 108 7.70e+01 1cewI d.17.1.2 38001 1mea 28 7.77e+01 g.41.1.1 45176 2a4eA 215 7.79e+01 1pkhA 204 7.83e+01 b.85.4.1 94832 1s7bA 110 8.01e+01 f.39.1.1 98634 1y9wA 140 8.16e+01 1t1jA 125 8.17e+01 c.137.1.1 106249 1iml 76 8.17e+01 1iml g.39.1.3,g.39.1.3 45145,45146 1ejxA 100 8.19e+01 d.8.1.1 83182 2f2mA 113 8.20e+01 5rxn 54 8.21e+01 1rb9 g.41.5.1 45225 1nnqA 171 8.24e+01 a.25.1.1,g.41.5.1 92006,92007 1mo2A 294 8.29e+01 c.69.1.22 79331 1hdlA 55 8.31e+01 g.68.1.2 65808 1dq3A 454 8.35e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1kezA 300 8.39e+01 c.69.1.22 68546 1ajw 145 8.49e+01 1rhoA b.1.18.8 21905 1c0fA 368 8.63e+01 1yagA c.55.1.1,c.55.1.1 33447,33448 1ifqA 138 8.66e+01 1ifqA d.110.4.1 62350 2bx9A 53 8.68e+01 1cewI 108 8.69e+01 1cewI d.17.1.2 37999 1k7cA 233 8.80e+01 c.23.10.4 68267 1ctl 85 8.83e+01 g.39.1.3,g.39.1.3 45133,45134 1chc 68 8.93e+01 1chc g.44.1.1 45323