# List of top-scoring protein chains for t2k-100-30-str2 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 1gqpA 221 2.48e-05 b.18.1.9 70372 1euu 605 6.06e-05 1eut b.1.18.2 21892 b.18.1.1 23713 b.68.1.1 27610 1eut 605 1.77e-04 1eut b.1.18.2 21891 b.18.1.1 23712 b.68.1.1 27609 1goh 639 2.69e-03 1gof b.1.18.2 21809 b.18.1.1 23711 b.69.1.1 27633 1k3iA 656 3.24e-03 b.1.18.2 68113 b.18.1.1 68114 b.69.1.1 68115 1gof 639 3.43e-03 1gof b.1.18.2 21807 b.18.1.1 23709 b.69.1.1 27631 1jhjA 171 8.37e-03 b.18.1.9 66714 1fo4A 1332 7.27e-01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1xnaA 183 1.04e+00 1xnaA b.18.1.8 23773 1dl5A 317 1.14e+00 1dl5A c.66.1.7 64720 d.197.1.1 64721 1q8bA 105 1.18e+00 1fiqC 763 1.25e+00 1fiqC d.41.1.1 38588 d.133.1.1 41418 1mnd 762 1.53e+00 1lvk b.34.3.1 24591 c.37.1.9 32188 1qoiA 177 1.75e+00 2cpl b.62.1.1 27490 1jhfA 202 1.87e+00 a.4.5.2 63057 b.87.1.1 63058 1t8hA 277 2.49e+00 1k12A 158 2.75e+00 b.18.1.15 71978 1lvk 762 2.83e+00 1lvk b.34.3.1 24576 c.37.1.9 32173 1vom 762 3.13e+00 1lvk b.34.3.1 24577 c.37.1.9 32174 1d7pM 159 3.23e+00 1cztA b.18.1.2 23718 1rhoA 145 3.43e+00 1rhoA b.1.18.8 21899 1d0yA 761 3.46e+00 1lvk b.34.3.1 24581 c.37.1.9 32178 1a78A 134 3.64e+00 1c1lA b.29.1.3 24212 1kmtA 141 4.12e+00 b.1.18.8 77442 1rhoC 145 4.52e+00 1rhoA b.1.18.8 21901 1khiA 176 4.63e+00 b.34.5.2 77408 b.40.4.5 77409 1sltA 134 4.98e+00 1c1lA b.29.1.3 24186 1kq6A 141 5.01e+00 1seiA 130 5.07e+00 1seiA d.140.1.1 41463 1sltB 134 5.22e+00 1c1lA b.29.1.3 24187 1dkgD 383 5.24e+00 1ba1 c.55.1.1 33427 c.55.1.1 33428 1bvyF 191 5.42e+00 1bvyF c.23.5.1 31207 1ofdA 1520 7.25e+00 b.80.4.1 86935 c.1.4.1 86936 d.153.1.1 86937 1kexA 155 7.76e+00 b.18.1.2 77350 1ju5A 109 8.35e+00 d.93.1.1 77173 1pmi 440 9.01e+00 1pmi b.82.1.3 28114 1ng5A 215 9.20e+00 1mdwA 328 9.31e+00 d.3.1.3 84934 1o9yA 84 9.58e+00 1c3hA 137 1.04e+01 1jv4A 162 1.25e+01 b.60.1.1 67343 1l3kA 196 1.28e+01 d.58.7.1 73539 d.58.7.1 73540 1ewsA 32 1.33e+01 1ewsA g.9.1.1 59534 1v3eA 431 1.37e+01 1qy1A 174 1.37e+01 1fx3A 169 1.38e+01 1fx3B d.33.1.1 38524 1m5q1 130 1.43e+01 1e4fT 419 1.43e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1mdbA 539 1.44e+01 e.23.1.1 79008 1ah2 269 1.44e+01 1gci c.41.1.1 32542 1btkA 169 1.46e+01 1btkA b.55.1.1 26959 1ha1 184 1.50e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1skoA 143 1.66e+01 1gtfA 74 1.70e+01 b.82.5.1 70460 1qwzA 235 1.78e+01 1d2iA 223 1.81e+01 1d2iA c.52.1.5 33297 1ojjA 402 1.83e+01 1smd 496 1.88e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1l0lA 446 1.89e+01 d.185.1.1 84482 d.185.1.1 84483 1ry9A 145 1.97e+01 1np4A 184 1.99e+01 1np1A b.60.1.1 27166 1rl4A 188 2.00e+01 1i06A 180 2.01e+01 1mup b.60.1.1 27131 1gr3A 160 2.02e+01 b.22.1.1 65476 1apmE 350 2.03e+01 1cdkA d.144.1.7 41628 1c8zA 265 2.04e+01 1c8zA d.23.1.1 38375 1vie 62 2.13e+01 1vie b.34.4.1 24592 1k92A 455 2.14e+01 c.26.2.1 68325 d.210.1.1 68326 1vif 62 2.16e+01 1vie b.34.4.1 24593 1slaA 134 2.16e+01 1c1lA b.29.1.3 24196 1hleB 31 2.19e+01 1hleB 1qawF 74 2.21e+01 1wapA b.82.5.1 28202 1mzgA 146 2.22e+01 d.224.1.1 79696 1i05A 180 2.28e+01 1mup b.60.1.1 27130 1rdqE 350 2.31e+01 1smvA 260 2.33e+01 1smvA b.121.4.7 23288 1np1A 184 2.38e+01 1np1A b.60.1.1 27155 1fbnA 230 2.39e+01 1fbnA c.66.1.3 34181 1g8sA 230 2.46e+01 1h10A 125 2.48e+01 b.55.1.1 83446 1gr8A 412 2.59e+01 1ockA 412 2.59e+01 c.117.1.1 86802 1dfmA 223 2.59e+01 1d2iA c.52.1.5 33295 1jhsA 188 2.64e+01 d.107.1.1 84172 1koiA 184 2.67e+01 b.60.1.1 68725 1q8uA 350 2.69e+01 1llwA 1520 2.71e+01 b.80.4.1 74017 c.1.4.1 74018 d.153.1.1 74019 1iw5A 113 2.75e+01 d.52.6.1 76864 1v9jA 113 2.75e+01 3pviA 157 2.78e+01 3pviA c.52.1.6 33300 1qavA 90 2.80e+01 1qauA b.36.1.1 24777 1sy3A 184 2.83e+01 2pviA 157 2.85e+01 3pviA c.52.1.6 33302 1dymA 402 2.88e+01 1celA b.29.1.10 24304 1n6zA 105 2.90e+01 d.74.5.1 85369 1erxA 184 2.93e+01 1np1A b.60.1.1 27164 1a81A 254 2.94e+01 1a81A d.93.1.1 40507 d.93.1.1 40508 1r1dA 247 2.98e+01 1eagA 342 2.99e+01 1eagA b.50.1.2 26826 1uxxX 133 3.03e+01 1jotA 133 3.03e+01 1jotA 1l7aA 318 3.08e+01 c.69.1.25 77772 1pvuA 154 3.18e+01 3pviA c.52.1.6 33306 1oe9A 795 3.24e+01 1v8cA 168 3.31e+01 1gmmA 133 3.34e+01 b.18.1.10 65314 1tfg 112 3.42e+01 2tgi g.17.1.2 44778 1aqzB 149 3.49e+01 1aqzA d.1.1.3 36239 1btkB 169 3.51e+01 1btkA b.55.1.1 26960 1np6A 174 3.53e+01 c.37.1.10 85954 1mgrA 99 3.57e+01 d.1.1.2 79106 1pgx 83 3.68e+01 2igd d.15.7.1 37823 1de3A 150 3.69e+01 1aqzA d.1.1.3 36240 1od3A 168 3.69e+01 b.18.1.10 86825 1scjB 71 3.71e+01 1scjB d.58.3.2 39069 1ojxA 263 3.73e+01 1qasA 622 3.77e+01 1djxB a.39.1.7 17340 b.7.1.1 23157 c.1.18.1 29585 1gci 269 3.85e+01 1gci c.41.1.1 32503 1e5pA 151 3.85e+01 1bj7 b.60.1.1 59272