# List of top-scoring protein chains for T0343.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.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 1k8kC 372 1.15e+00 b.69.4.1 68308 1ndh 272 2.37e+00 1ndh b.43.4.2,c.25.1.1 25662,31552 1zxfA 155 2.64e+00 1eh2 106 2.93e+00 1eh2 a.39.1.6 17339 1umkA 275 3.32e+00 1lqtA 456 3.84e+00 c.3.1.1,c.4.1.1 74198,74199 1gycA 499 3.92e+00 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1g291 372 4.69e+00 1g291 1zoqA 191 4.98e+00 1f8hA 95 5.17e+00 1eh2 a.39.1.6 17336 2ygsA 92 5.22e+00 1cy5A a.77.1.3 18431 3ygsC 95 5.45e+00 1cy5A a.77.1.3 18432 1cy5A 97 5.57e+00 1cy5A a.77.1.3 18430 1cwwA 102 5.64e+00 1cy5A a.77.1.3 18434 1yx2A 365 6.41e+00 1qwtA 255 6.45e+00 b.26.1.3 96501 1j2fA 258 6.50e+00 b.26.1.3 90785 1ih7A 903 8.65e+00 1clqA c.55.3.5,e.8.1.1 62375,62376 1ig9A 903 8.67e+00 1clqA c.55.3.5,e.8.1.1 62367,62368 1q9yA 906 8.69e+00 c.55.3.5,e.8.1.1 96336,96337 1p90A 145 9.53e+00 c.55.5.2 94377 1s1nA 68 9.63e+00 2d62A 375 9.73e+00 1cne 270 1.07e+01 1ndh b.43.4.2,c.25.1.1 25661,31551 1t0iA 191 1.11e+01 c.23.5.4 106209 1nrzA 164 1.50e+01 c.38.1.1 86131 2a3lA 701 1.55e+01 1qx4A 274 1.62e+01 b.43.4.2,c.25.1.1 104624,104625 1i7pA 274 1.63e+01 b.43.4.2,c.25.1.1 66048,66049 1ue1A 164 1.65e+01 b.40.4.3 99243 1vkxA 273 1.71e+01 1a3qA b.1.18.1,b.2.5.3 21941,22454 2ramA 273 1.71e+01 1a3qA b.1.18.1,b.2.5.3 21937,22450 1leiA 274 1.71e+01 b.1.18.1,b.2.5.3 84599,84600 1iknA 286 1.74e+01 1a3qA b.1.18.1,b.2.5.3 21936,22449 2cnd 270 1.77e+01 1ndh b.43.4.2,c.25.1.1 25659,31549 2fo7A 136 1.79e+01 1d3bB 91 1.86e+01 1d3bB b.38.1.1 24804 1na0A 125 2.02e+01 k.38.1.1 85479 1p1zD 120 2.14e+01 d.169.1.1 93906 3fruA 269 2.16e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 1tz7A 505 2.21e+01 1nfiA 301 2.32e+01 1a3qA b.1.18.1,b.2.5.3 21942,22455 1nvmB 312 2.34e+01 c.2.1.3,d.81.1.1 86251,86252 1vkhA 273 2.39e+01 c.69.1.32 108662 487dN 95 2.47e+01 1dfuP i.1.1.2 45841 1dfuP 94 2.47e+01 1dfuP b.53.1.1 26936 1o1yA 239 2.48e+01 c.23.16.1 86554 1p4lD 122 2.50e+01 d.169.1.1 94109 1na3A 91 2.50e+01 k.38.1.1 85481 1ja3A 127 2.61e+01 d.169.1.1 71621 2avpA 70 2.61e+01 1gg1A 350 3.22e+01 1qr7A c.1.10.4 29187 1ywqA 200 3.29e+01 1s4fA 601 3.44e+01 e.8.1.4 98495 1s48A 609 3.47e+01 e.8.1.4 98475 1hfc 169 3.71e+01 1hfc d.92.1.11 40335 1u14A 172 3.78e+01 c.51.4.3 107579 1mi1A 414 3.87e+01 a.169.1.1,b.55.1.6 79137,79138 1wflA 74 3.91e+01 2a6tA 271 4.05e+01 1zj8A 566 4.07e+01 1cgfA 162 4.11e+01 1hfc d.92.1.11 40339 1zdrA 164 4.14e+01 1cge 168 4.20e+01 1hfc d.92.1.11 40336 1zkrA 153 4.22e+01 1mozA 183 4.25e+01 c.37.1.8 79368 1g7nA 131 4.33e+01 b.60.1.2 83274 1fpwA 190 4.36e+01 1rec a.39.1.5 17329 1n8fA 350 4.46e+01 c.1.10.4 85397 966c 157 4.52e+01 1hfc d.92.1.11 40338 1we5A 772 4.98e+01 2f2hA 773 4.98e+01 1xsjA 778 4.99e+01 2br1A 297 5.27e+01 1xg2A 317 5.36e+01 1ia8A 289 5.40e+01 1ia8A d.144.1.7 62112 1cglA 169 5.58e+01 1hfc d.92.1.11 40341 2crpA 150 5.63e+01 1gne 232 5.90e+01 1b8xA a.45.1.1,c.47.1.5 17721,33015 1rxqA 178 6.14e+01 a.213.1.1 105118 2a50A 73 6.18e+01 1y74A 57 6.55e+01 1z5bA 469 6.58e+01 1mu5A 471 6.61e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1mx0A 472 6.64e+01 a.156.1.3,d.14.1.3,d.122.1.2 79618,79619,79620 1qn0A 112 6.65e+01 3cyr a.138.1.1 19659 1wad 112 6.79e+01 3cyr a.138.1.1 19658 1r7cA 31 6.95e+01 j.35.1.1 104831 3ranA 216 7.59e+01 1byuA c.37.1.8 32028 1rybA 212 7.61e+01 c.56.3.1 98098 2gdjA 264 7.69e+01 1eb8A 262 8.03e+01 c.69.1.20 64896 2evaA 307 8.07e+01 1kyaA 499 8.08e+01 b.6.1.3,b.6.1.3,b.6.1.3 73203,73204,73205 1rymA 212 8.23e+01 c.56.3.1 98106 2ewoA 377 8.33e+01 1v43A 372 8.34e+01 1vciA 373 8.35e+01 1qg4A 216 8.37e+01 1byuA c.37.1.8 32035 1rrpA 204 8.39e+01 1byuA c.37.1.8 32042 1zysA 273 8.49e+01 1q9uA 130 8.53e+01 d.129.7.1 96314 1byuA 216 8.57e+01 1byuA c.37.1.8 32032 1z1nX 560 8.70e+01 1qg2A 216 8.72e+01 1byuA c.37.1.8 32034 1i2mA 216 8.74e+01 1byuA c.37.1.8 61568 1w5rA 278 8.87e+01 1puoA 170 8.87e+01 a.101.1.1,a.101.1.1 95134,95135