# List of top-scoring protein chains for t2k-100-30-alpha-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 1i9sA 210 9.14e-01 1i9sA c.45.1.1 62099 2c46A 241 1.02e+00 1tx4B 178 4.28e+00 1ctqA c.37.1.8 32045 1sqhA 312 4.62e+00 d.108.1.5 98966 1kmqA 184 4.81e+00 c.37.1.8 84412 1jr7A 311 4.88e+00 b.82.2.3 63255 1s6cA 183 5.21e+00 a.39.1.5 98594 1db1A 259 5.35e+00 1db1A a.123.1.1 19329 1s1eA 224 9.02e+00 1nr6A 473 9.45e+00 a.104.1.1 92085 1b3qA 379 9.91e+00 1b3qA a.30.2.1,b.40.7.1,d.122.1.3 16993,25454,41112 2a1xA 308 1.02e+01 1fzqA 181 1.05e+01 1hurA c.37.1.8 32060 2sas 185 1.14e+01 2sas a.39.1.5 17258 1ie9A 259 1.25e+01 1db1A a.123.1.1 62318 1z08A 170 1.29e+01 1g8jB 133 1.37e+01 1g8jB b.33.1.1 24439 1ow4A 129 1.47e+01 a.39.2.1 93628 1zbsA 291 1.49e+01 1n6bA 473 1.50e+01 a.104.1.1 85359 1aqcA 172 1.56e+01 1x11A b.55.1.2 26983 1y60A 169 1.61e+01 1ovnA 248 1.65e+01 a.71.1.1,c.47.1.7 93602,93603 2hekA 371 1.78e+01 1w4vA 119 1.83e+01 1nd7A 374 1.92e+01 d.148.1.1 91817 1g8kB 133 1.95e+01 1g8jB b.33.1.1 24435 1uvzA 119 1.96e+01 2abk 211 2.02e+01 2abk a.96.1.1 18743 1lkxA 697 2.02e+01 c.37.1.9 73981 2fcr 173 2.09e+01 1rcf c.23.5.1 31151 1gab 53 2.13e+01 1gab a.8.1.2 16353 2gk9A 426 2.22e+01 2cohA 202 2.35e+01 1f7zA 233 2.38e+01 5ptp b.47.1.2 59681 1dmhA 311 2.41e+01 1dmhA b.3.6.1 22633 1e58A 249 2.51e+01 1qhfA c.60.1.1 59262 1q4uA 151 2.58e+01 d.38.1.5 95828 1ltdA 506 2.71e+01 1gox c.1.4.1,d.120.1.1 28618,41086 1dt6A 473 2.73e+01 1dt6A a.104.1.1 18977 1n1cA 217 2.80e+01 a.184.1.1 85254 1szwA 379 2.95e+01 d.265.1.4 99047 1huqA 164 2.99e+01 1byuA c.37.1.8 32020 1yqfA 203 3.02e+01 1ofcX 304 3.03e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1si7A 369 3.03e+01 d.265.1.4 98883 1tf0B 53 3.09e+01 a.8.1.2 106825 2ffqA 171 3.10e+01 2c4jA 218 3.14e+01 2ae8A 221 3.18e+01 1wmuA 141 3.36e+01 a.1.1.2 109416 2dhqA 146 3.48e+01 2dhqA c.23.13.1 31382 1zxoA 291 3.55e+01 1qbgA 272 3.58e+01 1d4aA c.23.5.3 31227 2g0qA 173 3.67e+01 1hj9A 226 3.68e+01 b.47.1.2 65845 2h79A 269 3.73e+01 1sbyA 254 3.77e+01 1a4uA 254 3.81e+01 1b16A c.2.1.2 29878 1s8nA 205 3.89e+01 c.23.1.1 105374 1ddeA 338 3.93e+01 1dd9A e.13.1.1 43255 1vfgA 390 3.95e+01 a.173.1.1,d.218.1.4 108570,108571 1b16A 254 4.10e+01 1b16A c.2.1.2 29875 1dd9A 338 4.12e+01 1dd9A e.13.1.1 43254 1gvdA 52 4.23e+01 a.4.1.3 83338 1nubA 229 4.24e+01 1sra a.39.1.3,g.3.11.3,g.68.1.1 17191,44330,44715 1xw5A 217 4.32e+01 1ywzA 175 4.35e+01 2azqA 311 4.45e+01 1x3xA 82 4.52e+01 2fb1A 226 4.57e+01 2knt 58 4.58e+01 1bpi g.8.1.1 44537 2coeA 120 4.66e+01 1irdA 141 4.68e+01 a.1.1.2 66286 3rp2A 224 4.69e+01 1a7s b.47.1.2 26298 1v9sA 208 4.71e+01 1vj0A 380 4.71e+01 b.35.1.2,c.2.1.1 100786,100787 1fcbA 511 4.82e+01 1gox c.1.4.1,d.120.1.1 28620,41087 1kthA 58 4.85e+01 g.8.1.1 68863 1nt2A 210 4.99e+01 c.66.1.3 86149 1htoA 477 5.06e+01 d.15.9.1,d.128.1.1 70987,70988 1h49A 512 5.10e+01 c.1.8.4 83477 2bwvA 440 5.11e+01 1wl9A 440 5.13e+01 1knt 58 5.14e+01 1bpi g.8.1.1 44538 1e55A 512 5.19e+01 1e70M c.1.8.4 28934 1d4aA 273 5.23e+01 1d4aA c.23.5.3 31219 1a16 440 5.37e+01 1az9 c.55.2.1,d.127.1.1 33548,41165 1k1fA 72 5.39e+01 a.147.1.1 68007 1ysrA 150 5.45e+01 1q35A 320 5.47e+01 c.94.1.1 95661 1mc2A 122 5.52e+01 a.133.1.2 74622 1az9 457 5.58e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 2c4wA 176 5.62e+01 1vr5A 547 5.62e+01 1iwhA 141 5.70e+01 a.1.1.2 76882 1vdlA 80 5.70e+01 a.5.2.1 108528 1zkiA 133 5.71e+01 1s8fA 177 5.77e+01 c.37.1.8 105370 1kqfC 217 5.77e+01 f.21.1.1 72874 1fhjB 146 5.77e+01 1abwA a.1.1.2 59838 2d5xA 141 5.79e+01 1r6xA 395 5.83e+01 b.122.1.3,c.26.1.5 97167,97168 2d83A 363 5.86e+01 2drwA 363 5.89e+01 1dwkA 156 5.92e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1zruA 264 6.04e+01 1kbqA 273 6.06e+01 c.23.5.3 68391 2clbA 188 6.09e+01 1dw9A 156 6.17e+01 1dw9A a.35.1.4,d.72.1.1 17065,39596 1nxhA 126 6.25e+01 a.200.1.1 92300 3tss 194 6.29e+01 1aw7A b.40.2.2,d.15.6.1 25160,37749 1htqA 477 6.47e+01 d.15.9.1,d.128.1.1 71035,71036 1dxrC 336 6.52e+01 6prcC a.138.1.2 19670 2d0sA 79 6.56e+01 1n6hA 170 6.56e+01 c.37.1.8 80197 2a5dA 175 6.57e+01 1qpbA 563 6.63e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 1h5wA 309 6.64e+01 e.27.1.1 65635 2bvcA 486 6.64e+01 1s5lA 344 6.68e+01 1wv2A 265 6.69e+01 1wmsA 177 6.77e+01 c.37.1.8 109414 1pvdA 537 6.77e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1tp4A 97 6.80e+01 a.189.1.1 107183 1h7cA 108 6.88e+01 a.7.5.1 70914 1r2qA 170 6.89e+01 c.37.1.8 96874 1a4fA 141 6.91e+01 1abwA a.1.1.2 15394 1eyuA 157 7.12e+01 3pviA c.52.1.6 33304 1yzqA 170 7.13e+01 1sf8A 126 7.28e+01 d.271.1.1 105472 1k8kG 151 7.29e+01 a.118.13.1 68313 2pviA 157 7.31e+01 3pviA c.52.1.6 33302 1ifqA 138 7.39e+01 1ifqA d.110.4.1 62350 2d0oA 610 7.43e+01 1oktA 211 7.44e+01 a.45.1.1,c.47.1.5 93272,93273 1nffA 260 7.55e+01 c.2.1.2 80457 1asyA 490 7.56e+01 1b8aA b.40.4.1,d.104.1.1 25242,40763 1mbg 53 7.59e+01 a.4.1.3 16033 1avc 673 7.66e+01 1avc a.65.1.1,a.65.1.1 18178,18179 1je5A 206 7.67e+01 1je5A b.40.4.7 62909 4ptp 223 7.77e+01 3pviA 157 7.81e+01 3pviA c.52.1.6 33300 1nekA 588 7.91e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 5ptp 223 8.01e+01 5ptp b.47.1.2 25831 1qsgA 265 8.03e+01 1eny c.2.1.2 29935 1jvr 137 8.03e+01 1jvr a.61.1.2 18132 1h05A 146 8.06e+01 c.23.13.1 76433 1huvA 380 8.08e+01 c.1.4.1 61277 1ijgA 309 8.09e+01 1fouA e.27.1.1 62493 1gw5S 142 8.10e+01 d.110.4.2 70633 2g8lA 299 8.12e+01 1aii 323 8.14e+01 1avc a.65.1.1 18150 1nxiA 132 8.14e+01 d.58.47.1 86381 1ucpA 91 8.17e+01 a.77.1.5 99186 1yz7A 188 8.41e+01 1fo1A 271 8.45e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 1cokA 68 8.47e+01 1cokA a.60.1.2 17945 1aca 86 8.48e+01 1aca a.11.1.1 16367 7odcA 424 8.68e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1pydA 556 8.72e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31735,31773,31774 1w6sA 599 8.75e+01 1am2 199 8.82e+01 1am2 b.86.1.2 28381 1p4cA 380 8.82e+01 c.1.4.1 94100 1h9hE 223 8.90e+01 b.47.1.2 103810 1uok 558 8.93e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1y6lA 149 8.93e+01 1ecsA 126 8.95e+01 1ecsA d.32.1.2 59407