# List of top-scoring protein chains for t04-100-30-near-backbone-11-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.soe.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 1aihA 170 1.83e-01 1aihA d.163.1.1 42149 3h3iA 150 2.56e+00 2ckkA 127 2.70e+00 1onqA 283 2.74e+00 b.1.1.2,d.19.1.1 93365,93366 2jysA 107 3.68e+00 2amuA 143 3.98e+00 3k62A 412 7.39e+00 1z5rA 306 7.89e+00 c.56.5.1 124488 1y6kR 214 8.23e+00 b.1.2.1,b.1.2.1 122663,122664 2fblA 153 8.25e+00 d.63.1.2 133249 2c1fA 234 8.53e+00 1yn3A 98 8.70e+00 3gxsA 109 9.86e+00 3laxA 109 1.12e+01 2wgoA 98 1.16e+01 2heqA 84 1.21e+01 b.34.20.1 147272 2zklA 369 1.29e+01 1b7yB 785 1.30e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,b.153.1.1 16301,16302,25312,39311,40780,41456 2i24N 121 1.35e+01 2rdkA 109 1.41e+01 2glzA 153 1.43e+01 d.81.3.1 135348 1yn5A 103 1.51e+01 3bd3A 112 1.72e+01 2hbwA 235 1.80e+01 3ibsA 218 1.88e+01 1wvvA 265 2.01e+01 2cx6A 90 2.03e+01 c.9.1.1 130981 3h7lA 586 2.16e+01 1waaA 93 2.18e+01 3a57A 165 2.23e+01 3f1zA 133 2.28e+01 1ocsA 162 2.32e+01 d.189.1.1 92776 3l9jT 149 2.33e+01 1f9rA 70 2.34e+01 d.9.1.1 90484 1yezA 68 2.39e+01 b.40.4.12 123026 1r4yA 136 2.43e+01 d.1.1.3 97056 1k3bA 119 2.51e+01 b.61.5.1 72016 1cf9A 753 2.56e+01 1cf9A c.23.16.3,e.5.1.1 31441,42815 2tnfA 156 2.58e+01 2tnfA b.22.1.1 23880 2jk9A 212 2.60e+01 1qr4A 186 2.68e+01 1qr4B b.1.2.1,b.1.2.1 21986,21987 1z77A 200 2.68e+01 a.4.1.9,a.121.1.1 124588,124589 2pbeA 294 2.72e+01 a.160.1.5,d.218.1.13 149355,149356 2amlA 373 2.85e+01 3dgtA 280 2.88e+01 1zowA 313 2.90e+01 2vbuA 136 3.02e+01 b.43.5.2 152911 1h6hA 143 3.04e+01 d.189.1.1 65681 3cc1A 433 3.09e+01 2jamA 304 3.21e+01 2e7aA 157 3.23e+01 3jxsA 174 3.26e+01 1v30A 124 3.28e+01 d.269.1.1 113496 2jngA 105 3.29e+01 b.34.9.4 148150 1p80A 753 3.32e+01 c.23.16.3,e.5.1.1 94337,94338 1yvcA 70 3.35e+01 b.40.4.12 124094 2oynA 146 3.47e+01 b.43.5.2 149067 2id6A 202 3.50e+01 a.4.1.9,a.121.1.1 147624,147625 1z47A 355 3.50e+01 1krsA 120 3.52e+01 b.40.4.1 25256 3eo6A 106 3.53e+01 2vnuD 760 3.54e+01 b.40.4.5,b.40.4.5,b.40.4.5,b.40.4.16 153344,153345,153346,153347 1do6A 124 3.77e+01 1do6A b.1.13.1 22361 2dawA 154 3.82e+01 d.20.1.3 146477 3d4uA 309 3.95e+01 1xwvA 129 4.04e+01 b.1.18.7 116134 1ktjA 129 4.07e+01 b.1.18.7 72974 1tit 98 4.22e+01 1tit 2bl5A 140 4.24e+01 d.51.1.1 128728 1r17A 343 4.35e+01 b.2.3.4,b.2.3.4 96796,96797 3fjuA 307 4.36e+01 3cvbA 105 4.66e+01 1mdcA 131 4.72e+01 b.60.1.2 27198 2a5zA 262 4.76e+01 b.29.1.24 126184 1mdc 133 4.76e+01 1hmt 1qqrA 138 4.79e+01 1bmlC d.15.5.1 37721 3eipA 84 4.80e+01 3eipA d.26.2.1 38434 3hzhB 172 4.80e+01 3hi0A 508 4.81e+01 3cwxA 176 4.88e+01 2bnqD 203 5.15e+01 b.1.1.1,b.1.1.2 144996,144997 1dxgA 36 5.25e+01 1dxgA g.41.5.2 45247 1zxfA 155 5.30e+01 d.129.3.5 125771 2ctc 307 5.35e+01 1aye 1umkA 275 5.40e+01 b.43.4.2,c.25.1.1 113312,113313 1dqiA 124 5.41e+01 1do6A b.1.13.1 22357 2djfA 119 5.76e+01 b.61.5.1 131541 1aqzA 149 5.77e+01 1aqzA d.1.1.3 36238 2a6zA 222 5.78e+01 b.29.1.13 126319 2qsdA 187 5.82e+01 2w9qA 87 5.87e+01 3c26A 266 5.90e+01 2fvgA 340 5.93e+01 b.49.3.1,c.56.5.4 134201,134202 3gm8A 801 5.96e+01 2d4nA 152 6.05e+01 1bavA 309 6.09e+01 1aye c.56.5.1 33806 2gfaA 119 6.23e+01 b.34.9.1,b.34.9.1 135089,135090 2jjuA 127 6.23e+01 2yz1A 120 6.30e+01 1m4lA 307 6.49e+01 c.56.5.1 78604 2ibpA 409 6.55e+01 2j2zB 173 6.57e+01 b.2.3.2 145642 2bnuA 203 6.58e+01 2qqrA 118 6.63e+01 b.34.9.1,b.34.9.1 151226,151227 2q5bA 105 6.64e+01 b.6.1.1 150045 1jhnA 424 6.68e+01 b.104.1.1,b.29.1.12 66722,70060 1pv9A 348 6.74e+01 c.55.2.1,d.127.1.1 95157,95158 3gkuA 225 6.76e+01 2z15A 130 6.83e+01 d.370.1.1 153921 3fx6A 307 6.92e+01 1zkgA 212 7.14e+01 a.4.1.9,a.121.1.1 125194,125195 2v8qA 157 7.17e+01 d.129.6.2 152781 1fjrA 195 7.23e+01 1fjrA b.102.1.1 59855 1r61A 207 7.24e+01 c.8.8.1 97138 2fyqA 194 7.31e+01 1pdkB 157 7.37e+01 1pdkB b.2.3.2 22427 3l51B 166 7.45e+01 4tsvA 150 7.48e+01 2tnfA b.22.1.1 23860 1i7pA 274 7.55e+01 b.43.4.2,c.25.1.1 66048,66049 2bdwA 362 7.57e+01 3cloA 258 7.59e+01 3b3fA 341 7.61e+01 3fssA 237 7.61e+01 1ykdA 398 7.61e+01 1z8kA 193 7.81e+01 b.159.1.1 124703 3iduA 127 7.88e+01 1w70A 60 7.93e+01 1a14L 104 7.98e+01 8fabA b.1.1.1 20060