# List of top-scoring protein chains for t04-100-30-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 1din 236 2.06e-01 1din c.69.1.9 34682 1zi8A 236 2.17e-01 1kshA 186 5.54e-01 c.37.1.8 72914 1qfxA 460 2.92e+00 1qfxA c.60.1.2 33994 1tfzA 424 3.36e+00 d.32.1.3,d.32.1.3 106886,106887 1nlfA 279 3.64e+00 c.37.1.11 85850 1q15A 503 3.75e+00 c.26.2.1,d.153.1.1 95538,95539 1g8yA 279 3.76e+00 1g8yA c.37.1.11 32302 1voqa 90 4.17e+00 1o17A 345 4.62e+00 a.46.2.1,c.27.1.1 80765,80766 1itcA 516 5.80e+00 b.3.1.1,c.1.8.1 83705,83706 2cblA 305 6.20e+00 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1n3gA 113 8.12e+00 d.204.1.1 79962 1yyaA 250 8.56e+00 1uurA 473 8.91e+00 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1sqsA 242 9.53e+00 c.23.5.5 98968 2f1kA 279 1.01e+01 1bb8 71 1.06e+01 2bb8 d.10.1.1 37478 1jlyA 304 1.13e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1jmcA 246 1.18e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1vemA 516 1.25e+01 2cb2A 318 1.46e+01 2ew0A 192 1.46e+01 1xcbA 211 1.46e+01 a.4.5.38,c.2.1.12 109552,109553 1z8gA 372 1.47e+01 1o50A 157 1.54e+01 d.37.1.1,d.37.1.1 92478,92479 1f9zA 135 1.60e+01 1qipA d.32.1.1 38484 1nnsA 326 1.60e+01 c.88.1.1 85910 2agyA 361 1.71e+01 1f6bA 198 1.78e+01 c.37.1.8 64986 1yvhA 329 1.86e+01 1k8tA 510 2.04e+01 e.41.1.1 68316 1t2jA 116 2.19e+01 2cbuA 468 2.25e+01 1t5bA 201 2.33e+01 c.23.5.3 106433 1y1uA 585 2.36e+01 8dfr 189 2.40e+01 1aoeA c.71.1.1 34895 1bylA 125 2.45e+01 1bylA d.32.1.2 38495 1rpyA 114 2.45e+01 d.93.1.1 97718 4icb 76 2.64e+01 4icb a.39.1.1 17145 1b35B 255 2.65e+01 1b35B b.121.4.1 23334 1xrkA 124 2.67e+01 1zyiA 171 2.71e+01 1wzvA 155 2.72e+01 1h49A 512 2.79e+01 c.1.8.4 83477 1bf5A 545 2.83e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1rcqA 357 2.86e+01 b.49.2.2,c.1.6.1 104882,104883 1nmoA 247 2.88e+01 c.135.1.1 91980 1apyA 162 2.91e+01 1apyA d.153.1.5 42004 1t3qB 788 2.98e+01 d.41.1.1,d.133.1.1 106369,106370 1zd9A 188 3.09e+01 1e55A 512 3.13e+01 1e70M c.1.8.4 28934 2bh8A 101 3.16e+01 1uv4A 293 3.26e+01 1fa8A 135 3.37e+01 1qipA d.32.1.1 38486 3fib 249 3.38e+01 3fib d.171.1.1 42455 1q0xH 221 3.41e+01 b.1.1.1,b.1.1.2 95517,95518 1v72A 356 3.45e+01 2a5dA 175 3.48e+01 2cxxA 190 3.48e+01 1wjxA 122 3.61e+01 1y80A 210 3.66e+01 1r7lA 110 3.67e+01 d.277.1.1 104837 2fibA 269 3.69e+01 3fib d.171.1.1 42457 1awd 94 3.70e+01 1awd d.15.4.1 37673 1evfA 264 3.72e+01 1bkpA d.117.1.1 40932 1o4rA 108 3.74e+01 d.93.1.1 92469 1m22A 503 3.74e+01 c.117.1.1 78464 2gdzA 267 3.82e+01 1r9fA 136 3.93e+01 d.255.1.1 97257 1pbgA 468 4.05e+01 1e70M c.1.8.4 28946 1bmtA 246 4.09e+01 1bmtA a.46.1.1,c.23.6.1 17757,31235 1zy4A 303 4.10e+01 1y3tA 337 4.21e+01 1xahA 354 4.23e+01 1el6A 219 4.26e+01 1el6B d.182.1.1 42606 1u0mA 382 4.29e+01 c.95.1.2,c.95.1.2 107557,107558 1qqqA 264 4.33e+01 1bkpA d.117.1.1 40931 1zt2B 212 4.41e+01 1i3zA 103 4.41e+01 d.93.1.1 83667 1ig5A 75 4.45e+01 4icb a.39.1.1 62363 1uw4A 91 4.47e+01 d.58.7.4 100071 2g8mA 264 4.67e+01 1w3jA 468 4.69e+01 c.1.8.4 109156 1qzgA 187 4.72e+01 b.40.4.3 96643 2b6hA 192 4.78e+01 2f9dA 125 4.82e+01 1fbnA 230 5.00e+01 1fbnA c.66.1.3 34181 1ntvA 152 5.01e+01 b.55.1.2 86168 1xniA 118 5.09e+01 1shbA 104 5.09e+01 1fmk d.93.1.1 40425 1mo9A 523 5.20e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1hz6A 72 5.22e+01 2ptl d.15.7.1 61429 1r1qA 100 5.22e+01 d.93.1.1 104763 1t92A 116 5.25e+01 1si6X 282 5.26e+01 2chnA 716 5.39e+01 1qvbA 481 5.41e+01 1qvbA c.1.8.4 28983 2d2jA 329 5.42e+01 1seiA 130 5.50e+01 1seiA d.140.1.1 41463 1fy7A 278 5.58e+01 1fy7A d.108.1.1 40817 1g2iA 166 5.58e+01 1g2iA c.23.16.2 31438 1x0vA 354 5.67e+01 2g8oA 264 5.70e+01 1gycA 499 5.73e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1byqA 228 5.77e+01 1yer d.122.1.1 41100 1yf5L 254 5.82e+01 2b30A 301 5.84e+01 1oaoA 674 5.88e+01 e.26.1.2 86744 2fp7B 172 5.92e+01 1m1sA 116 5.94e+01 b.1.11.2 84747 1oo0A 147 6.00e+01 d.232.1.1 87182 1pysA 350 6.10e+01 1pysA d.104.1.1 40775 1kolA 398 6.13e+01 b.35.1.2,c.2.1.1 77474,77475 2calA 154 6.15e+01 1y21A 282 6.19e+01 1rcy 151 6.19e+01 1rcy b.6.1.1 23018 1pu5A 164 6.38e+01 b.95.1.1 104310 2fcjA 119 6.38e+01 1em2A 229 6.43e+01 1em2A d.129.3.2 41321 1mr3F 181 6.45e+01 c.37.1.8 79422 1x6vA 630 6.46e+01 1jr7A 311 6.46e+01 b.82.2.3 63255 1nteA 82 6.50e+01 b.36.1.1 86163 1rypF 233 6.53e+01 1rypF d.153.1.4 41937 2aclB 244 6.61e+01 1sddA 306 6.62e+01 b.6.1.3,b.6.1.3 105431,105432 2bw2A 140 6.64e+01 2sak 121 6.64e+01 2sak d.15.5.1 37711 2agcA 162 6.68e+01 1uteA 313 6.69e+01 1uteA d.159.1.1 42078 1zm8A 259 6.75e+01 1gpr 162 6.80e+01 1gpr b.84.3.1 28267 1d8wA 426 6.82e+01 1de5A c.1.15.2 29394 1j1hA 144 6.82e+01 b.111.1.1 77056 1r8sA 164 6.89e+01 c.37.1.8 97247 1fdr 248 6.92e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1krs 120 6.97e+01 1krs b.40.4.1 25256 1hurA 180 7.07e+01 1hurA c.37.1.8 32052 1q33A 292 7.15e+01 d.113.1.1 95657 1ds1A 324 7.22e+01 1drtA b.82.2.2 28127 1us5A 314 7.35e+01 c.94.1.1 99856 1yc9A 442 7.36e+01 1zpuA 534 7.38e+01 2gqrA 237 7.40e+01 1w97L 246 7.40e+01 1zelA 298 7.46e+01 2ap1A 327 7.59e+01 1ef1A 294 7.60e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 2ag4A 164 7.65e+01 1g8sA 230 7.69e+01 c.66.1.3 90507 2ex0A 399 7.78e+01 1lci 550 7.83e+01 1lci e.23.1.1 43349 1cbjA 151 7.85e+01 1mfmA b.1.8.1 22213 2b20A 403 7.86e+01 1ykjA 394 7.97e+01 1zw8A 64 7.97e+01 1dkuA 317 8.08e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1g38A 393 8.11e+01 2admA c.66.1.27 60235 2bh1A 250 8.12e+01 1rypL 212 8.14e+01 d.153.1.4 41880 1ex1A 605 8.21e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 2sas 185 8.30e+01 2sas a.39.1.5 17258 1azo 232 8.33e+01 1azo c.52.1.14 33329 2aegA 268 8.39e+01 1mr7A 209 8.41e+01 b.81.1.3 91430 1pbe 394 8.42e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1tw9A 206 8.48e+01 a.45.1.1,c.47.1.5 107381,107382 2a4nA 182 8.51e+01 1v02A 565 8.51e+01 c.1.8.4 108194 1x36A 237 8.52e+01 1lfc 25 8.59e+01 j.3.1.5 46074 1sgoA 139 8.62e+01 d.82.3.1 98857 1bbpA 173 8.64e+01 1bbpA b.60.1.1 27147 1im3D 95 8.66e+01 1im3D b.1.18.5 62568 1g13A 162 8.66e+01 1g13A b.95.1.1 60194 1w2wB 191 8.76e+01 1pcfA 66 8.86e+01 1pcfA d.18.1.1 38142 1zd0A 150 8.87e+01 1p57B 255 8.95e+01 b.47.1.2 94126 1uz1A 468 8.97e+01