# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1zq9A 285 6.96e-22 1vb3A 428 9.14e-01 1jmsA 381 1.39e+00 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 2astA 159 1.58e+00 1i58A 189 1.74e+00 1b3qA d.122.1.3 61773 1nxuA 333 2.30e+00 c.122.1.1 86389 2g7gA 213 2.33e+00 1mvwC 147 2.96e+00 i.15.1.1 79525 1o1fC 147 2.96e+00 i.15.1.1 80997 1a3aC 148 3.03e+00 1a3aA d.112.1.1 40919 1w7jB 151 3.22e+00 1j8uA 325 4.16e+00 d.178.1.1 71611 2ax3A 502 4.34e+00 1yf3A 259 4.50e+00 1i4wA 353 4.56e+00 c.66.1.24 66028 1hqvA 191 6.12e+00 1hqvA a.39.1.8 61160 2f4lA 297 6.21e+00 1pah 308 6.44e+00 4pah d.178.1.1 42578 1q0sA 259 6.64e+00 c.66.1.28 95509 4pah 308 6.71e+00 4pah d.178.1.1 42576 1dmwA 307 6.98e+00 4pah d.178.1.1 42580 1p35A 299 7.10e+00 1p35A b.28.1.1 23925 1a3aA 148 7.10e+00 1a3aA d.112.1.1 40917 1b2vA 188 7.66e+00 1b2vA d.35.1.1 38532 1dk0A 188 7.66e+00 1b2vA d.35.1.1 38530 1cxqA 162 8.62e+00 1cxqA c.55.3.2 33621 1vsd 152 9.08e+00 1cxqA c.55.3.2 33625 1yadA 221 9.36e+00 1a5v 162 9.46e+00 1cxqA c.55.3.2 33629 1fs1B 141 9.75e+00 1vcbB a.157.1.1,d.42.1.1 19252,38664 1ap4 89 9.82e+00 1ncx a.39.1.5 17253 1asu 162 1.12e+01 1cxqA c.55.3.2 33626 1hlvA 131 1.15e+01 a.4.1.7,a.4.1.7 65854,65855 2ah5A 210 1.30e+01 1v97A 1332 1.48e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1zrn 232 1.58e+01 1qq5A c.108.1.1 43323 1jud 232 1.61e+01 1qq5A c.108.1.1 43325 1vljA 407 1.64e+01 e.22.1.2 108832 1mlwA 301 1.67e+01 d.178.1.1 79289 1wy1A 172 1.70e+01 1lvaA 258 1.85e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1x0vA 354 1.94e+01 1m65A 245 2.01e+01 c.6.3.1 84847 2azqA 311 2.04e+01 1fzpB 123 2.07e+01 1fznD a.4.5.28 19008 1qcwA 410 2.12e+01 1gox c.1.4.1 28622 1xclA 235 2.24e+01 1s5lA 344 2.26e+01 1dp3A 55 2.33e+01 1dp3A a.55.1.2 59128 1n9dA 199 2.35e+01 a.26.1.1 85464 2ch4A 320 2.43e+01 1fyvA 161 2.45e+01 1fyvA c.23.2.1 31127 1ltdA 506 2.49e+01 1gox c.1.4.1,d.120.1.1 28618,41086 1ak2 233 2.62e+01 1zin c.37.1.1,g.41.2.1 31894,45195 2ba2A 85 2.75e+01 1fo4A 1332 2.80e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 2d2mA 140 2.98e+01 1fqvJ 149 3.05e+01 1fqvD a.157.1.1,d.42.1.1 19266,38670 1fp1D 372 3.19e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1fqvD 149 3.21e+01 1fqvD a.157.1.1,d.42.1.1 19263,38667 1fcbA 511 3.28e+01 1gox c.1.4.1,d.120.1.1 28620,41087 2bvpA 276 3.32e+01 1br1B 150 3.36e+01 1wdcC a.39.1.5 17309 1zk8A 183 3.38e+01 2bjfA 329 3.46e+01 1rwtA 232 3.61e+01 f.43.1.1 97992 2eutA 294 3.65e+01 2btoA 473 3.76e+01 1v4aA 440 3.88e+01 a.24.16.4,d.218.1.9 108350,108351 1ccg 291 3.88e+01 1ryc a.93.1.1 18627 1scuA 288 3.93e+01 2scuA c.2.1.8,c.23.4.1 30307,31135 1ryc 294 3.95e+01 1ryc a.93.1.1 18601 1ds4A 292 4.00e+01 1ryc a.93.1.1 59129 1cy5A 97 4.04e+01 1cy5A a.77.1.3 18430 1a2g 291 4.13e+01 1ryc a.93.1.1 18620 1a2f 291 4.25e+01 1ryc a.93.1.1 18619 1kjvA 284 4.41e+01 b.1.1.2,d.19.1.1 77421,77422 2ygsA 92 4.41e+01 1cy5A a.77.1.3 18431 1aj4 161 4.48e+01 1ncx a.39.1.5 17244 1ynuA 473 4.49e+01 1it2A 146 4.50e+01 a.1.1.2 66365 1g8jA 825 4.54e+01 1g8jA b.52.2.2,c.81.1.1 26924,35332 1fcyA 236 4.56e+01 2lbd a.123.1.1 19282 1ncx 162 4.56e+01 1ncx a.39.1.5 17222 1top 162 4.56e+01 1ncx a.39.1.5 17223 1ponB 36 4.56e+01 1ponB 1t3cA 421 4.57e+01 d.92.1.7 106343 1ggzA 148 4.58e+01 a.39.1.5 70176 1g8kA 825 4.63e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 2f62A 161 4.71e+01 2a0kA 161 4.71e+01 2f2tA 161 4.71e+01 1y96B 85 4.71e+01 1ujmA 342 4.74e+01 1dseA 292 4.76e+01 1ryc a.93.1.1 59130 1zcoA 262 4.79e+01 1y1pA 342 4.84e+01 1ac4 294 4.86e+01 1ryc a.93.1.1 18657 1kwfA 363 4.93e+01 a.102.1.2 73078 1k9dA 679 4.97e+01 c.1.8.10,d.92.2.2 77292,77293 1j6pA 418 4.98e+01 b.92.1.4,c.1.9.9 77089,77090 1yzyA 413 5.00e+01 2mysC 149 5.07e+01 1wdcC a.39.1.5 17323 2awpA 198 5.08e+01 1zu4A 320 5.15e+01 1m7yA 435 5.18e+01 c.67.1.4 78761 1p1mA 406 5.22e+01 b.92.1.4,c.1.9.9 87696,87697 1b8gA 429 5.24e+01 1b8gA c.67.1.4 34499 1s69A 124 5.41e+01 a.1.1.1 105305 1kb9I 55 5.43e+01 f.23.14.1 77324 1kbjA 412 5.44e+01 c.1.4.1 72280 1v0dA 329 5.58e+01 d.4.1.7 108204 1y5iC 225 5.63e+01 4lbd 267 5.64e+01 2lbd a.123.1.1 19289 2f05A 105 5.74e+01 2ew2A 316 5.75e+01 1jdw 423 5.79e+01 1jdw d.126.1.2 41129 1cem 363 5.80e+01 1cem a.102.1.2 18826 2lbd 267 5.82e+01 2lbd a.123.1.1 19287 2cyp 294 5.86e+01 1ryc a.93.1.1 18600 1ezvI 55 5.86e+01 1be3J f.23.14.1 59553 1khhA 198 5.87e+01 c.66.1.16 68615 1jdrA 294 5.88e+01 1ryc a.93.1.1 62908 1baq 139 5.89e+01 1baq 1ofdA 1520 5.95e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1ek8A 185 5.98e+01 1ek8A d.67.3.1 59444 1l8nA 679 5.99e+01 c.1.8.10,d.92.2.2 84564,84565 1z53A 294 6.00e+01 1onqA 283 6.01e+01 b.1.1.2,d.19.1.1 93365,93366 1p57B 255 6.01e+01 b.47.1.2 94126 1zbyA 294 6.03e+01 1gpeA 587 6.06e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1t4hA 290 6.12e+01 d.144.1.7 106420 1zlqA 502 6.22e+01 2jdxA 385 6.23e+01 1jdw d.126.1.2 41139 1g73A 162 6.30e+01 1fewA a.7.4.1 16332 1abv 134 6.33e+01 1abv a.70.1.1 18317 1qyrA 252 6.38e+01 c.66.1.24 104657 1p1cA 199 6.39e+01 c.66.1.16 87669 1b3jA 274 6.42e+01 1agdA b.1.1.2,d.19.1.1 20855,38319 1q8cA 151 6.43e+01 a.79.1.2 96202 1mkrA 294 6.45e+01 a.93.1.1 84997 1cwwA 102 6.51e+01 1cy5A a.77.1.3 18434 1fiqC 763 6.77e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1a4pA 96 6.79e+01 1b4cA a.39.1.2 17176 2gfnA 209 6.81e+01 1cnzA 363 6.84e+01 1cnzA c.77.1.1 35061 1ockA 412 7.13e+01 c.117.1.1 86802 1p4kA 295 7.21e+01 d.153.1.5 87772 1jbaA 204 7.38e+01 1rec a.39.1.5 17330 1sk7A 198 7.65e+01 a.132.1.2 105671 1avsA 90 7.74e+01 1cll a.39.1.5 17226 1h8dH 260 7.80e+01 5ptp 1q5dA 419 7.82e+01 a.104.1.1 95891 1w33A 181 7.92e+01 1irxA 523 7.97e+01 a.97.1.2,c.26.1.1 71378,71379 1q16C 225 8.02e+01 f.21.3.1 95549 1zs4A 83 8.16e+01 1gr0A 367 8.16e+01 c.2.1.3,d.81.1.3 70379,70380 2fh5A 185 8.18e+01 1cjgA 62 8.33e+01 1pru a.35.1.5 17112 1i17A 107 8.39e+01 1i17A d.6.1.1 61519 1ji7A 89 8.40e+01 a.60.1.1 71682 1mgtA 174 8.43e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1pmaA 233 8.45e+01 1pmaA d.153.1.4 41918 1vgmA 378 8.60e+01 2a74A 643 8.71e+01 1yqfA 203 8.73e+01 1ojrA 274 8.87e+01 c.74.1.1 93147