# List of top-scoring protein chains for t06-100-30-str2-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 1rypB 250 6.84e-01 1rypB d.153.1.4 41933 1qwtA 255 8.47e-01 b.26.1.3 96501 1z9lA 128 9.13e-01 2gaiA 633 9.59e-01 1k3bA 119 1.36e+00 b.61.5.1 72016 1on0A 158 1.36e+00 d.108.1.1 87095 1vpkA 378 1.46e+00 1hnjA 317 2.59e+00 1hn9A c.95.1.2,c.95.1.2 35969,35970 1womA 271 2.62e+00 1go4E 100 3.50e+00 h.1.22.1 70296 1rypC 244 3.54e+00 1rypC d.153.1.4 41934 1bbzA 58 3.69e+00 1bbzA b.34.2.1 24477 1x82A 190 4.02e+00 1otgA 125 4.57e+00 1otgA d.80.1.2 39831 1e1hA 287 5.61e+00 d.92.1.7 83167 1x47A 98 6.13e+00 1zowA 313 6.29e+00 1k3yA 221 6.48e+00 a.45.1.1,c.47.1.5 77245,77246 2a5jA 191 6.72e+00 1rgxA 114 6.99e+00 g.77.1.1 104932 1ho8A 480 7.01e+00 1ho8A a.118.1.9 61107 1i1qA 520 7.02e+00 1qdlA d.161.1.1 61543 1u20A 212 8.39e+00 3thiA 371 9.61e+00 2thiA c.94.1.1 35792 2msbA 115 9.72e+00 1rtm1 d.169.1.1 42355 1jmtA 104 1.14e+01 d.58.7.3 63180 1kaeA 434 1.15e+01 c.82.1.2 72247 2f9lA 199 1.28e+01 1k4nA 192 1.32e+01 d.32.1.5 72059 1xeeA 91 1.33e+01 1cojA 212 1.34e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1r77A 103 1.34e+01 1ctqA 166 1.37e+01 1ctqA c.37.1.8 31965 2gf9A 189 1.40e+01 1vkcA 158 1.44e+01 1l3lA 234 1.45e+01 a.4.6.2,d.110.5.1 73541,73542 1wqgA 185 1.48e+01 1x3sA 195 1.62e+01 1y74A 57 1.78e+01 1rybA 212 1.82e+01 c.56.3.1 98098 1m4jA 142 1.85e+01 d.109.1.2 78602 1cf4B 44 1.85e+01 1cf4B 1khoA 370 1.89e+01 a.124.1.1,b.12.1.3 72489,72490 1lj2A 110 1.91e+01 h.1.13.2 73926 1qhqA 140 1.93e+01 1qhqA b.6.1.1 63326 1go3E 187 1.96e+01 b.40.4.5,d.230.1.1 83054,83055 1n13B 113 1.99e+01 1mkyA 439 2.17e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1f5qB 252 2.20e+01 1f5qB a.74.1.1,a.74.1.1 18362,18363 2bmeA 186 2.21e+01 1ze3H 122 2.23e+01 1vd3A 217 2.34e+01 1vf1A 229 2.35e+01 1z6oM 191 2.49e+01 1b8aA 438 2.71e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1wcuA 153 2.71e+01 1ppo 216 2.79e+01 1cs8A d.3.1.1 37020 1vjeA 166 2.81e+01 d.185.1.2 100807 1z8gA 372 2.83e+01 1j8rA 196 2.83e+01 1j8rA b.2.3.3 62745 1yarA 233 2.84e+01 1xrkA 124 2.84e+01 2b8eA 273 2.85e+01 2gw6A 123 2.86e+01 8fabB 224 2.88e+01 1igtB b.1.1.1,b.1.1.2 19773,20883 1ze3D 125 2.99e+01 2bw8A 227 3.04e+01 1ifqA 138 3.04e+01 1ifqA d.110.4.1 62350 1c6vX 81 3.04e+01 1ihvA b.34.7.1 24641 1uacH 114 3.08e+01 b.1.1.1 99132 1px5A 349 3.08e+01 a.160.1.2,d.218.1.6 95277,95278 1avoA 60 3.09e+01 1avoA a.24.8.1 16619 1wwpA 119 3.11e+01 1j1bA 420 3.14e+01 d.144.1.7 90758 1iseA 185 3.15e+01 d.67.3.1 90691 1zkcA 197 3.34e+01 1a2yB 116 3.35e+01 1gc1H b.1.1.1 19927 1xd7A 145 3.39e+01 a.4.5.55 109566 1ufaA 520 3.55e+01 a.8.3.3,c.6.2.4 99329,99330 1xaoA 121 3.64e+01 2ddrA 306 3.66e+01 1h65A 270 3.72e+01 c.37.1.8 65640 1meoA 209 3.72e+01 c.65.1.1 79035 2g3aA 152 3.81e+01 2b0lA 102 3.82e+01 1v60A 123 3.84e+01 2fd5A 180 3.85e+01 2fpeA 62 3.87e+01 1u6eA 335 3.88e+01 1fnnA 389 3.92e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1fh0A 221 3.95e+01 1cs8A d.3.1.1 59832 1nt2A 210 4.12e+01 c.66.1.3 86149 1q2zA 120 4.33e+01 a.118.19.1 95656 1sfxA 109 4.34e+01 a.4.5.50 105505 1v7cA 351 4.34e+01 c.79.1.1 100446 1yw5A 177 4.36e+01 1m1nA 491 4.40e+01 c.92.2.3 78417 1kk1A 410 4.51e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1x4rA 99 4.55e+01 1v54E 109 4.61e+01 a.118.11.1 100326 1tu7A 208 4.65e+01 1mslA 109 4.69e+01 1mslA f.16.1.1 43660 1gg4A 452 4.70e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1su8A 636 4.70e+01 e.26.1.2 98999 1rktA 205 4.78e+01 a.4.1.9,a.121.1.1 97623,97624 1tu6A 215 4.79e+01 d.3.1.1 107318 1u0mA 382 4.83e+01 c.95.1.2,c.95.1.2 107557,107558 1g3mA 294 4.85e+01 c.37.1.5 83268 1e3dB 542 4.85e+01 1h2rL e.18.1.1 59189 1wucA 250 4.86e+01 1muwA 386 4.87e+01 c.1.15.3 79495 1xeaA 323 4.90e+01 c.2.1.3,d.81.1.5 109572,109573 1sluA 142 4.95e+01 1sluA b.16.1.1 23685 1bywA 110 5.04e+01 1bywA d.110.3.6 40912 1iruK 201 5.08e+01 d.153.1.4 71362 1kkhA 317 5.14e+01 d.14.1.5,d.58.26.3 72645,72646 2fikA 287 5.15e+01 1q02A 52 5.18e+01 a.5.2.1 95490 1vbiA 344 5.23e+01 1ylkA 172 5.24e+01 1u69A 163 5.30e+01 d.32.1.7 107699 1p9eA 331 5.45e+01 d.157.1.5 104088 1zthA 258 5.45e+01 1z4rA 168 5.55e+01 1fiwA 290 5.56e+01 5ptp 1p6xA 334 5.61e+01 c.37.1.1 94195 1rowA 109 5.75e+01 b.1.11.2 97676 1j8mF 297 5.87e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1qq9A 284 5.92e+01 1xjo c.56.5.4 33841 1wgrA 100 5.94e+01 1z90A 469 5.95e+01 1f08A 148 6.02e+01 1f08A d.89.1.2 59564 1jh6A 189 6.05e+01 d.61.1.1 66707 1xdfA 157 6.08e+01 1efnB 152 6.12e+01 1efnB d.102.1.1 40699 1ylxA 103 6.12e+01 1i19A 561 6.16e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1y08A 323 6.21e+01 1mnaA 298 6.27e+01 c.69.1.22 79322 1o4tA 133 6.36e+01 b.82.1.9 86622 1opc 110 6.38e+01 1opc a.4.6.1 16231 1kuuA 202 6.39e+01 d.153.2.1 73019 1ryp2 233 6.43e+01 1ryp2 1iyeA 309 6.43e+01 e.17.1.1 83786 1gpmA 525 6.49e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1x0oA 119 6.50e+01 1ra9 159 6.56e+01 1vdrA c.71.1.1 34820 1gy7A 125 6.57e+01 d.17.4.2 70738 3pviA 157 6.58e+01 3pviA c.52.1.6 33300 1owfB 94 6.59e+01 a.55.1.1 87488 2bpsA 81 6.60e+01 4dfrA 159 6.62e+01 1vdrA c.71.1.1 34822 1uvqA 197 6.66e+01 b.1.1.2,d.19.1.1 100062,100063 1a99A 344 6.74e+01 1pot c.94.1.1 35812 1nrgA 261 6.80e+01 b.45.1.1 80694 1n9eA 787 6.80e+01 b.30.2.1,d.17.2.1,d.17.2.1 91708,91709,91710 1qh8A 478 6.81e+01 1qguA c.92.2.3 35633 1d0cA 444 6.83e+01 d.174.1.1 64769 1ryp1 222 6.92e+01 1ryp1 1rzfH 235 6.98e+01 b.1.1.1,b.1.1.2 98150,98151 1axiB 236 6.98e+01 1axiB b.1.2.1,b.1.2.1 21997,21998 1wz9A 375 7.20e+01 1f86A 115 7.37e+01 1etb1 b.3.4.1 59689 1vr8A 142 7.40e+01 1smxA 96 7.45e+01 b.40.4.5 105772 1mrj 247 7.51e+01 1mrj d.165.1.1 42177 1v54A 514 7.52e+01 f.24.1.1 100321 1rloA 271 7.89e+01 1a6s 87 7.90e+01 1a6s a.61.1.4 18134 1vprA 374 7.90e+01 2a6tA 271 7.91e+01 2bkyA 97 7.91e+01 2c4jA 218 7.91e+01 1dykA 394 8.04e+01 1dykA b.29.1.4,b.29.1.4 24223,24224 1g26A 31 8.10e+01 1g26A g.3.16.1 44381 1e42A 258 8.16e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1tiqA 180 8.20e+01 d.108.1.1 107010 1qqp2 218 8.29e+01 1qqp2 1j58A 385 8.32e+01 b.82.1.2 71531 1p2fA 220 8.32e+01 a.4.6.1,c.23.1.1 87720,87721 2cvdA 198 8.32e+01 1jyaA 130 8.36e+01 d.198.1.1 67453 1yueA 427 8.36e+01 1lk2A 274 8.42e+01 b.1.1.2,d.19.1.1 91056,91057 1mw7A 240 8.46e+01 e.39.1.1 79557 2g6bA 180 8.46e+01 1qc7A 101 8.48e+01 1qc7A a.118.14.1 18456 1pt6A 213 8.50e+01 c.62.1.1 95091 1z83A 196 8.51e+01 1b5l 172 8.58e+01 1b5l a.26.1.3 16900 1rjcA 137 8.63e+01 1vmfA 145 8.65e+01 1nh0A 99 8.68e+01 b.50.1.1 91869 1wdtA 665 8.69e+01 1ev0A 58 8.71e+01 1ev0A d.71.1.1 39594 1ca1 370 8.72e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 2b3hA 329 8.81e+01 2g30A 258 8.83e+01 1cbs 137 8.94e+01 1hmt b.60.1.2 27201 1wurA 220 8.95e+01 1me4A 215 8.95e+01 d.3.1.1 79023 1qnaA 200 8.96e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1tkjA 284 8.98e+01