# List of top-scoring protein chains for t04-100-30-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 9.26e-01 1rypB d.153.1.4 41933 1qwtA 255 1.15e+00 b.26.1.3 96501 1z9lA 128 1.24e+00 2gaiA 633 1.30e+00 1k3bA 119 1.85e+00 b.61.5.1 72016 1on0A 158 1.85e+00 d.108.1.1 87095 1vpkA 378 1.98e+00 1qxrA 189 2.88e+00 b.82.1.7 96552 1hnjA 317 3.53e+00 1hn9A c.95.1.2,c.95.1.2 35969,35970 1womA 271 3.57e+00 1go4E 100 4.78e+00 h.1.22.1 70296 1rypC 244 4.85e+00 1rypC d.153.1.4 41934 1bbzA 58 5.05e+00 1bbzA b.34.2.1 24477 1x82A 190 5.50e+00 1otgA 125 6.27e+00 1otgA d.80.1.2 39831 1aboA 62 6.84e+00 1bbzA b.34.2.1 24474 1e1hA 287 7.70e+00 d.92.1.7 83167 1x47A 98 8.42e+00 1zowA 313 8.63e+00 1k3yA 221 8.90e+00 a.45.1.1,c.47.1.5 77245,77246 2a5jA 191 9.23e+00 1rgxA 114 9.60e+00 g.77.1.1 104932 1ho8A 480 9.63e+00 1ho8A a.118.1.9 61107 1i1qA 520 9.64e+00 1qdlA d.161.1.1 61543 2c0cA 362 1.14e+01 1u20A 212 1.15e+01 3thiA 371 1.32e+01 2thiA c.94.1.1 35792 2msbA 115 1.34e+01 1rtm1 d.169.1.1 42355 1t9mA 214 1.52e+01 1jmtA 104 1.57e+01 d.58.7.3 63180 1kaeA 434 1.59e+01 c.82.1.2 72247 1phk 298 1.73e+01 1cdkA d.144.1.7 41635 2f9lA 199 1.77e+01 1k4nA 192 1.82e+01 d.32.1.5 72059 1xeeA 91 1.83e+01 1rw2A 152 1.85e+01 a.118.19.1 97961 1cojA 212 1.85e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1r77A 103 1.85e+01 1ctqA 166 1.88e+01 1ctqA c.37.1.8 31965 2gf9A 189 1.92e+01 2aabH 243 1.97e+01 1vkcA 158 1.98e+01 1l3lA 234 2.00e+01 a.4.6.2,d.110.5.1 73541,73542 1wqgA 185 2.04e+01 1x3sA 195 2.23e+01 2a9mH 126 2.39e+01 3hhrB 203 2.39e+01 1axiB b.1.2.1,b.1.2.1 22005,22006 1y74A 57 2.46e+01 1rybA 212 2.52e+01 c.56.3.1 98098 1m4jA 142 2.55e+01 d.109.1.2 78602 1cf4B 44 2.55e+01 1cf4B 1lwjA 441 2.59e+01 b.71.1.1,c.1.8.1 74303,74304 1khoA 370 2.61e+01 a.124.1.1,b.12.1.3 72489,72490 1lj2A 110 2.63e+01 h.1.13.2 73926 1qhqA 140 2.66e+01 1qhqA b.6.1.1 63326 1go3E 187 2.70e+01 b.40.4.5,d.230.1.1 83054,83055 1n13B 113 2.75e+01 1f3aA 222 2.90e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 2adgB 222 2.93e+01 1mkyA 439 3.00e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1f5qB 252 3.04e+01 1f5qB a.74.1.1,a.74.1.1 18362,18363 2bmeA 186 3.05e+01 1s8fA 177 3.06e+01 c.37.1.8 105370 1ze3H 122 3.08e+01 1hzpA 335 3.15e+01 1hn9A c.95.1.2,c.95.1.2 61455,61456 1vd3A 217 3.23e+01 1vf1A 229 3.24e+01 1bylA 125 3.34e+01 1bylA d.32.1.2 38495 1z6oM 191 3.44e+01 1fvrA 327 3.44e+01 d.144.1.7 60047 2a9nH 126 3.70e+01 1b8aA 438 3.75e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1wcuA 153 3.75e+01 1omwA 689 3.75e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1ppo 216 3.85e+01 1cs8A d.3.1.1 37020 1vjeA 166 3.89e+01 d.185.1.2 100807 1z8gA 372 3.91e+01 1j8rA 196 3.91e+01 1j8rA b.2.3.3 62745 1yarA 233 3.92e+01 1xrkA 124 3.93e+01 2b8eA 273 3.94e+01 2gw6A 123 3.95e+01 8fabB 224 3.99e+01 1igtB b.1.1.1,b.1.1.2 19773,20883 1u0tA 307 4.09e+01 e.52.1.1 107567 1ze3D 125 4.13e+01 2bw8A 227 4.20e+01 1ifqA 138 4.20e+01 1ifqA d.110.4.1 62350 1c6vX 81 4.20e+01 1ihvA b.34.7.1 24641 1uacH 114 4.25e+01 b.1.1.1 99132 1px5A 349 4.26e+01 a.160.1.2,d.218.1.6 95277,95278 1avoA 60 4.27e+01 1avoA a.24.8.1 16619 1wwpA 119 4.31e+01 1j1bA 420 4.35e+01 d.144.1.7 90758 1wr3A 36 4.35e+01 1iseA 185 4.35e+01 d.67.3.1 90691 1innA 166 4.48e+01 1j98A d.185.1.2 62608 1j1xH 114 4.52e+01 b.1.1.1 77063 1ek8A 185 4.61e+01 1ek8A d.67.3.1 59444 1zkcA 197 4.61e+01 1a2yB 116 4.63e+01 1gc1H b.1.1.1 19927 1xd7A 145 4.69e+01 a.4.5.55 109566 1eq1A 166 4.72e+01 a.63.1.1 64910 1p57B 255 4.74e+01 b.47.1.2 94126 1ufaA 520 4.91e+01 a.8.3.3,c.6.2.4 99329,99330 1y8oA 419 5.03e+01 1xaoA 121 5.04e+01 2ddrA 306 5.07e+01 1mzjA 339 5.08e+01 c.95.1.2,c.95.1.2 79700,79701 1h0bA 256 5.12e+01 b.29.1.11 83422 1h65A 270 5.14e+01 c.37.1.8 65640 1meoA 209 5.15e+01 c.65.1.1 79035 3rabA 169 5.25e+01 1ctqA c.37.1.8 32018 1o70A 324 5.26e+01 b.118.1.1,b.118.1.1 81115,81116 2g3aA 152 5.27e+01 2b0lA 102 5.29e+01 3xis 387 5.31e+01 4xis c.1.15.3 29423 1v60A 123 5.31e+01 2fd5A 180 5.33e+01 2fpeA 62 5.36e+01 1u6eA 335 5.36e+01 4xis 387 5.40e+01 4xis c.1.15.3 29421 1fnnA 389 5.42e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1fh0A 221 5.47e+01 1cs8A d.3.1.1 59832 1kcxA 518 5.61e+01 b.92.1.3,c.1.9.6 90953,90954 1zwxA 301 5.65e+01 1nt2A 210 5.71e+01 c.66.1.3 86149 2mspA 126 5.75e+01 1mspA b.1.11.2 22335 1q2zA 120 6.00e+01 a.118.19.1 95656 1sfxA 109 6.00e+01 a.4.5.50 105505 1v7cA 351 6.01e+01 c.79.1.1 100446 1yw5A 177 6.04e+01 1m1nA 491 6.09e+01 c.92.2.3 78417 1jjyA 636 6.17e+01 1jjyA 1rypE 242 6.17e+01 1rypE d.153.1.4 41936 1kk1A 410 6.24e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1x4rA 99 6.30e+01 1v54E 109 6.38e+01 a.118.11.1 100326 1memA 215 6.43e+01 1cs8A d.3.1.1 37069 1tu7A 208 6.44e+01 1mslA 109 6.49e+01 1mslA f.16.1.1 43660 1gg4A 452 6.50e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1su8A 636 6.51e+01 e.26.1.2 98999 1rktA 205 6.62e+01 a.4.1.9,a.121.1.1 97623,97624 1tu6A 215 6.63e+01 d.3.1.1 107318 1u0mA 382 6.69e+01 c.95.1.2,c.95.1.2 107557,107558 1g3mA 294 6.71e+01 c.37.1.5 83268 1e3dB 542 6.72e+01 1h2rL e.18.1.1 59189 1wucA 250 6.73e+01 1muwA 386 6.75e+01 c.1.15.3 79495 1xeaA 323 6.78e+01 c.2.1.3,d.81.1.5 109572,109573 1sluA 142 6.86e+01 1sluA b.16.1.1 23685 1z5lA 285 6.97e+01 1pd21 199 6.97e+01 1pd21 1bywA 110 6.98e+01 1bywA d.110.3.6 40912 1iruK 201 7.03e+01 d.153.1.4 71362 1kkhA 317 7.12e+01 d.14.1.5,d.58.26.3 72645,72646 6gsvA 217 7.13e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 2fikA 287 7.13e+01 1q02A 52 7.18e+01 a.5.2.1 95490 1g0uL 241 7.22e+01 d.153.1.4 41894 1vbiA 344 7.24e+01 1ylkA 172 7.26e+01 1u69A 163 7.34e+01 d.32.1.7 107699 1p9eA 331 7.54e+01 d.157.1.5 104088 1zthA 258 7.55e+01 2occE 109 7.60e+01 2occE a.118.11.1 19224 1hilB 220 7.68e+01 1igtB b.1.1.1,b.1.1.2 19787,20897 1z4rA 168 7.69e+01 1fiwA 290 7.69e+01 5ptp 1sesA 421 7.75e+01 1sesA a.2.7.1,d.104.1.1 15710,40710 1p6xA 334 7.76e+01 c.37.1.1 94195 2b33A 140 7.79e+01 2occA 514 7.81e+01 2occA f.24.1.1 43518 1vllA 334 7.85e+01 c.2.1.13 108834 1rowA 109 7.97e+01 b.1.11.2 97676 1xb3A 128 8.13e+01 1j8mF 297 8.13e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1qq9A 284 8.21e+01 1xjo c.56.5.4 33841 1wgrA 100 8.23e+01 1z90A 469 8.25e+01 1b1cA 181 8.32e+01 1amoA c.23.5.2 31212 1f08A 148 8.34e+01 1f08A d.89.1.2 59564 1jh6A 189 8.38e+01 d.61.1.1 66707 2pviA 157 8.39e+01 3pviA c.52.1.6 33302 1xdfA 157 8.42e+01 1i50A 1733 8.46e+01 e.29.1.2 61754 1efnB 152 8.48e+01 1efnB d.102.1.1 40699 1ylxA 103 8.48e+01 1i19A 561 8.53e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1y08A 323 8.61e+01 1mnaA 298 8.69e+01 c.69.1.22 79322 1d1vA 444 8.70e+01 1nseA d.174.1.1 59101 1j8yF 297 8.71e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1o4tA 133 8.81e+01 b.82.1.9 86622 1opc 110 8.84e+01 1opc a.4.6.1 16231 1kuuA 202 8.85e+01 d.153.2.1 73019 1ryp2 233 8.91e+01 1ryp2 1iyeA 309 8.92e+01 e.17.1.1 83786 1gpmA 525 9.00e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826