# List of top-scoring protein chains for t06-100-30-bys-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 2ae0X 345 1.79e-01 2gaeA 346 2.48e-01 2c3mA 1231 3.69e-01 1zd0A 150 1.73e+00 1vjhA 122 2.20e+00 d.129.3.1 100811 1ryp2 233 2.67e+00 1ryp2 1g2rA 100 3.08e+00 1g2rA d.192.1.1 60231 1n9lA 109 3.61e+00 d.110.3.6 85468 1rypJ 204 3.82e+00 d.153.1.4 41878 1vqvA 306 4.77e+00 1yueA 427 5.01e+00 1wmhB 86 5.09e+00 2akaB 299 5.73e+00 1sq9A 397 6.15e+00 b.69.4.1 105889 1wmhA 89 6.78e+00 2napA 723 7.02e+00 2napA b.52.2.2,c.81.1.1 26926,35334 1ryp1 222 7.10e+00 1ryp1 1b9mA 265 7.62e+00 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1a8d 452 7.62e+00 1a8d b.29.1.6,b.42.4.2 24262,25607 1quqA 129 7.65e+00 1quqA b.40.4.3 25303 1v25A 541 8.50e+00 e.23.1.1 108275 1pgl1 185 8.79e+00 1s5uA 138 9.37e+00 d.38.1.1 98573 1ahsA 126 9.37e+00 1ahsA b.19.1.1 23794 2ghsA 326 9.68e+00 1rhfA 182 9.72e+00 b.1.1.1,b.1.1.4 97469,97470 1mj5A 302 1.14e+01 c.69.1.8 91285 1vemA 516 1.18e+01 2fdbM 164 1.25e+01 1kolA 398 1.29e+01 b.35.1.2,c.2.1.1 77474,77475 1qy5A 269 1.31e+01 d.122.1.1 96573 1aohA 147 1.31e+01 1aohA b.2.2.2 22401 1s9jA 341 1.34e+01 3cox 507 1.35e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 2gokA 429 1.39e+01 1o54A 277 1.44e+01 c.66.1.13 92482 1xm8A 254 1.50e+01 1rocA 155 1.56e+01 b.1.22.1 97673 2c0rA 362 1.58e+01 2fa1A 160 1.64e+01 8dfr 189 1.68e+01 1aoeA c.71.1.1 34895 1a34A 159 1.87e+01 1a34A b.121.7.1 23286 1utiA 58 1.93e+01 b.34.2.1 99962 1cqyA 99 1.93e+01 1b9zA b.3.1.1 22527 1cz4A 185 1.97e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 1dzfA 215 2.03e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1zh5A 195 2.05e+01 1uheA 97 2.07e+01 1qreA 247 2.10e+01 1qreA b.81.1.5 28066 1kbvA 327 2.15e+01 b.6.1.3,b.6.1.3 68395,68396 1tqyB 415 2.20e+01 c.95.1.1,c.95.1.1 107247,107248 1ixh 321 2.21e+01 1ixh c.94.1.1 35761 1qhqA 140 2.25e+01 1qhqA b.6.1.1 63326 2bkdN 134 2.41e+01 1cfzA 162 2.47e+01 1cfzA c.56.1.1 33754 2cwzA 141 2.47e+01 2pth 193 2.71e+01 2pth c.56.3.1 33793 1rypL 212 2.76e+01 d.153.1.4 41880 2dpmA 284 2.89e+01 2dpmA c.66.1.28 34246 1ng2A 193 3.01e+01 b.34.2.1,b.34.2.1 85660,85661 2fuqA 747 3.03e+01 1b8aA 438 3.03e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1imjA 210 3.11e+01 c.69.1.23 71246 3pcgM 238 3.14e+01 3pchM b.3.6.1 22742 2c3gA 98 3.16e+01 1dnlA 199 3.16e+01 1ci0A b.45.1.1 25753 1nulA 152 3.22e+01 1nulA c.61.1.1 34011 2ezvA 269 3.24e+01 1v3yA 192 3.27e+01 2asfA 137 3.29e+01 1yzsA 121 3.32e+01 1z2mA 155 3.32e+01 1bvoA 175 3.32e+01 1a3qA b.2.5.3 22457 1g291 372 3.34e+01 1g291 1pb7A 292 3.34e+01 c.94.1.1 88025 1zsyA 357 3.34e+01 1rdo1 113 3.37e+01 1rtm1 1lf7A 182 3.42e+01 b.60.1.1 73878 1ro7A 259 3.45e+01 c.130.1.1 97667 2amlA 373 3.55e+01 2a50A 73 3.55e+01 1m2tA 254 3.61e+01 d.165.1.1 84761 2auhB 59 3.64e+01 1v8aA 265 3.67e+01 c.72.1.2 100494 1fsgA 233 3.76e+01 1qk3A c.61.1.1 34029 1t0yA 122 3.86e+01 d.15.1.1 99066 1d2fA 390 3.93e+01 1d2fA c.67.1.3 34411 1kmvA 186 3.99e+01 c.71.1.1 72757 1vclA 432 4.01e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 1t2wA 145 4.06e+01 b.100.1.1 106289 1l3iA 192 4.08e+01 c.66.1.22 77676 1mrj 247 4.14e+01 1mrj d.165.1.1 42177 1g79A 218 4.34e+01 1ci0A b.45.1.1 25752 1id2A 106 4.35e+01 1aac b.6.1.1 62288 1dytA 133 4.37e+01 7rsa d.5.1.1 37288 1o5zA 442 4.42e+01 c.59.1.2,c.72.2.2 92530,92531 1vdmA 153 4.43e+01 1jk4A 89 4.44e+01 b.9.1.1 77130 1oe8A 211 4.56e+01 a.45.1.1,c.47.1.5 86905,86906 1x8vA 455 4.58e+01 1rtqA 299 4.59e+01 c.56.5.4 97819 1uirA 314 4.62e+01 c.66.1.17 99429 1v04A 355 4.86e+01 b.68.6.2 100240 1pvdA 537 4.88e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1vc3B 97 4.89e+01 1uj0A 62 4.90e+01 b.34.2.1 99449 2aukA 190 4.90e+01 1guqA 348 4.94e+01 1guqA d.13.1.2,d.13.1.2 37522,37523 1sqrA 95 4.97e+01 1dekA 241 4.99e+01 1dekA c.37.1.1 31842 2ch4A 320 4.99e+01 1ekqA 272 5.03e+01 1c3qA c.72.1.2 34941 1cr1A 296 5.05e+01 1cr1A c.37.1.11 32286 1ok8A 394 5.09e+01 b.1.18.4,f.10.1.1 93236,93237 1byfA 125 5.10e+01 1byfA d.169.1.1 42419 1dl5A 317 5.10e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1v3wA 173 5.14e+01 b.81.1.5 100291 3seb 238 5.18e+01 3seb b.40.2.2,d.15.6.1 25184,37773 2gw6A 123 5.28e+01 1izoA 417 5.39e+01 a.104.1.1 83851 1s4iA 175 5.44e+01 1kutA 230 5.49e+01 d.143.1.1 73017 2b4lA 268 5.49e+01 1k3bA 119 5.54e+01 b.61.5.1 72016 1v9sA 208 5.55e+01 1xtmA 175 5.58e+01 1ewnA 219 5.60e+01 1bnkA b.46.1.2 25762 2fy6A 143 5.64e+01 2booA 247 5.65e+01 1g2qA 187 5.68e+01 c.61.1.1 65117 1yemA 179 5.68e+01 1atg 231 5.77e+01 1atg c.94.1.1 35834 2bitX 165 5.78e+01 1pqhA 143 5.81e+01 b.52.2.1 95017 1zoiA 276 5.81e+01 1je5A 206 5.82e+01 1je5A b.40.4.7 62909 1qj4A 257 5.92e+01 1qj4A c.69.1.20 34796 1knmA 130 5.94e+01 b.42.2.1 72781 1kkhA 317 6.04e+01 d.14.1.5,d.58.26.3 72645,72646 1uayA 242 6.13e+01 c.2.1.2 88390 2gfhA 260 6.18e+01 1qgdA 662 6.20e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1txkA 498 6.31e+01 b.1.18.2,b.30.5.9 107425,107426 1ixlA 131 6.32e+01 d.38.1.5 90717 1bn7A 294 6.44e+01 1bn6A c.69.1.8 34677 2beiA 170 6.50e+01 1x31C 206 6.55e+01 1ckmA 330 6.66e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1wd3A 482 6.78e+01 b.29.1.21,b.42.8.1 109233,109234 1who 96 6.82e+01 1who b.7.3.1 23215 1ufkA 254 6.86e+01 c.66.1.39 99340 2f6rA 281 7.05e+01 1wwrA 171 7.19e+01 1y2tA 142 7.25e+01 1kzfA 230 7.31e+01 d.108.1.3 73354 2bkyA 97 7.46e+01 1ptf 88 7.58e+01 1ptf d.94.1.1 40549 1pg4A 652 7.67e+01 e.23.1.1 88067 2bopA 85 7.69e+01 2bopA d.58.8.1 39217 1q5fA 156 7.70e+01 d.24.1.1 104536 1h2eA 207 7.86e+01 c.60.1.1 70857 1xu9A 286 7.89e+01 1ihuA 589 7.96e+01 c.37.1.10,c.37.1.10 62394,62395 1vhh 162 7.97e+01 1vhh d.65.1.2 39550 1gntA 553 7.98e+01 e.26.1.1 70290 1xpmA 396 8.04e+01 1a2yA 107 8.05e+01 8fabA b.1.1.1 19926 1q6oA 216 8.07e+01 c.1.2.3 95986 2afwA 329 8.09e+01 1ti6B 274 8.27e+01 b.3.5.1,d.58.1.5 106976,106977 1mjfA 281 8.46e+01 c.66.1.17 79198 1tg0A 68 8.50e+01 1c96A 753 8.52e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1woqA 267 8.53e+01 c.55.1.10,c.55.1.10 109462,109463 1nuyA 337 8.55e+01 e.7.1.1 86213 1mrg 263 8.66e+01 1mrj d.165.1.1 42183 1flmA 122 8.80e+01 1axj b.45.1.1 25747 1c44A 123 8.95e+01 1qndA d.106.1.1 40795 1gpeA 587 8.96e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1ywnA 316 8.97e+01