# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 1rfeA 162 9.15e-19 2asfA 137 2.72e-15 2fg9A 178 1.21e-12 1xxoA 147 4.51e-12 2aq6A 147 5.03e-12 1w9aA 147 6.39e-12 2fhqA 141 1.24e-11 1g79A 218 2.43e-10 1ci0A b.45.1.1 25752 1dnlA 199 2.89e-10 1ci0A b.45.1.1 25753 2furA 209 3.93e-10 1t9mA 214 4.04e-08 1vl7A 157 4.96e-08 b.45.1.1 108732 1nrgA 261 7.54e-08 b.45.1.1 80694 1w3oA 216 2.71e-07 2arzA 247 2.91e-07 1flmA 122 2.98e-07 1axj b.45.1.1 25747 1axj 122 3.91e-07 1axj b.45.1.1 25749 1ty9A 222 9.03e-07 1ci0A 228 2.08e-04 1ci0A b.45.1.1 25750 1ejeA 192 4.95e-03 1ejeA b.45.1.2 25757 1xhnA 184 1.22e-02 1pvtA 238 1.71e-02 c.74.1.1 95189 1ko3A 230 3.82e-01 d.157.1.1 90974 2gibA 103 7.12e-01 1qi6A 475 1.67e+00 1euhA c.82.1.1 35373 1euhA 475 1.67e+00 1euhA c.82.1.1 35369 1ecl 597 1.91e+00 1ecl e.10.1.1 43238 1qs2A 401 2.24e+00 1qs1A d.166.1.1,d.166.1.1 42268,42269 1qm4A 396 2.36e+00 1mxb d.130.1.1,d.130.1.1,d.130.1.1 41350,41351,41352 1diwA 441 3.10e+00 1a8d b.29.1.6,b.42.4.2 24264,25609 2cbzA 237 3.39e+00 1qs1A 462 3.55e+00 1qs1A d.166.1.1,d.166.1.1 42260,42261 1f6fB 210 3.62e+00 1axiB b.1.2.1,b.1.2.1 22033,22034 1d0hA 469 3.70e+00 1a8d b.29.1.6,b.42.4.2 24265,25610 1widA 130 3.84e+00 1gteA 1025 3.93e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1h7wA 1025 4.03e+00 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1h7wD 1025 4.07e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15686,28631,30327,30612,39010 1gthC 1025 4.09e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70493,70494,70495,70496,70497 1gthA 1025 4.13e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70483,70484,70485,70486,70487 1a8d 452 4.18e+00 1a8d b.29.1.6,b.42.4.2 24262,25607 1cy9A 264 4.59e+00 1ecl e.10.1.1 43236 2f2hA 773 4.70e+00 1obpA 159 5.13e+00 1obpA b.60.1.1 27092 2bitX 165 5.29e+00 2cxaA 256 5.77e+00 1gt8C 1025 5.84e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70428,70429,70430,70431,70432 1qr4A 186 6.14e+00 1qr4B b.1.2.1,b.1.2.1 21986,21987 1tuaA 191 6.50e+00 d.51.1.1,d.51.1.1 107321,107322 1gteD 1025 6.65e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70455,70456,70457,70458,70459 1m40A 263 7.00e+00 e.3.1.1 74437 2bgiA 272 7.33e+00 1vk8A 106 7.38e+00 d.58.48.1 108636 1h7xC 1025 7.50e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15689,28634,30330,30615,39013 1j5yA 187 7.58e+00 a.4.5.1,d.94.2.1 71592,71593 1xsjA 778 7.64e+00 1faoA 126 7.70e+00 1faoA b.55.1.1 26974 1h7xB 1025 7.86e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15688,28633,30329,30614,39012 1yo8A 634 8.00e+00 1h7wB 1025 8.01e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15684,28629,30325,30610,39008 1j5kA 89 8.03e+00 d.51.1.1 71565 1g2oA 268 8.72e+00 1b8oA c.56.2.1 60228 1h7xA 1025 9.52e+00 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1fxlA 167 9.56e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 2g0qA 173 9.80e+00 1n71A 180 1.00e+01 d.108.1.1 85370 1mw9X 592 1.06e+01 e.10.1.1 91480 1k3eA 156 1.08e+01 d.198.1.1 68103 1tmcA 175 1.09e+01 1agdA d.19.1.1 38258 1dj0A 264 1.10e+01 1dj0A d.265.1.1 90337 1btkB 169 1.12e+01 1btkA b.55.1.1 26960 1wxaA 116 1.13e+01 1jkmA 358 1.14e+01 1jkmA c.69.1.2 34633 1gt8A 1025 1.17e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70418,70419,70420,70421,70422 1upqA 123 1.18e+01 1jlxA 304 1.24e+01 1jlyA b.42.3.1,b.42.3.1 25583,25584 2a4nA 182 1.25e+01 1h7xD 1025 1.27e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15690,28635,30331,30616,39014 1gthB 1025 1.29e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70488,70489,70490,70491,70492 1jlyA 304 1.32e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1fqgA 263 1.36e+01 1btl e.3.1.1 42699 1gt8B 1025 1.38e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70423,70424,70425,70426,70427 1ivd 388 1.45e+01 2qwc b.68.1.1 27568 1btl 263 1.47e+01 1btl e.3.1.1 42691 1ermA 263 1.47e+01 1btl e.3.1.1 42690 1tr8A 102 1.48e+01 2fsqA 243 1.49e+01 2au3A 407 1.52e+01 1dgrV 79 1.58e+01 1caxB b.82.1.2 28099 1gw0A 559 1.60e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 1b87A 181 1.68e+01 1b87A d.108.1.1 40797 1nr4A 71 1.71e+01 d.9.1.1 92077 1vfqA 143 1.72e+01 1b9hA 388 1.74e+01 1b9hA c.67.1.4 34488 1dgrN 79 1.77e+01 1caxB 1ylnA 252 1.78e+01 2bvpA 276 1.78e+01 1xh3A 276 1.82e+01 1jkmB 361 1.84e+01 1jkmA c.69.1.2 34634 1odoA 408 1.85e+01 a.104.1.1 92783 1hilB 220 1.88e+01 1igtB b.1.1.1,b.1.1.2 19787,20897 1fybA 111 1.88e+01 4sgbI g.69.1.1,g.69.1.1 44726,44727 1yemA 179 1.96e+01 1a1mA 278 1.98e+01 1agdA b.1.1.2,d.19.1.1 20753,38266 1a1oA 276 1.98e+01 1agdA b.1.1.2,d.19.1.1 20751,38265 1b55A 169 2.03e+01 1btkA b.55.1.1 26963 2b5oA 402 2.04e+01 2glfA 450 2.04e+01 1dd5A 185 2.05e+01 1dd5A d.67.3.1 39564 1am2 199 2.09e+01 1am2 b.86.1.2 28381 1qbeA 132 2.17e+01 1qbeA d.85.1.1 40138 1cauB 184 2.19e+01 1caxB b.82.1.2 28103 1pz7A 204 2.29e+01 b.29.1.4 95405 1s8fA 177 2.29e+01 c.37.1.8 105370 1uurA 473 2.30e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1ihgA 370 2.33e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 1z47A 355 2.34e+01 1gt8D 1025 2.34e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70433,70434,70435,70436,70437 1azqA 66 2.36e+01 1azpA b.34.13.1 37469 1r6lA 239 2.37e+01 d.14.1.4,d.101.1.1 97153,97154 1qr4B 186 2.47e+01 1qr4B b.1.2.1,b.1.2.1 21988,21989 1azpA 66 2.52e+01 1azpA b.34.13.1 37467 1t3yA 141 2.57e+01 1t0qC 86 2.62e+01 d.15.12.1 106222 1z7dA 433 2.63e+01 1vq0A 302 2.68e+01 1nb9A 147 2.68e+01 b.43.5.1 85515 1mqkH 127 2.72e+01 b.1.1.1 85053 1qg0A 308 2.74e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1jd1A 129 2.74e+01 1qu9A d.79.1.1 62890 1a1nA 276 2.78e+01 1agdA b.1.1.2,d.19.1.1 20755,38267 1wmsA 177 2.82e+01 c.37.1.8 109414 1fzyA 149 2.86e+01 d.20.1.1 65072 1fxtA 149 2.87e+01 d.20.1.1 65055 1lxdA 100 3.10e+01 1lfdA d.15.1.5 37624 1i4fA 275 3.12e+01 1agdA b.1.1.2,d.19.1.1 61687,61688 1u4nA 310 3.14e+01 1xyiA 66 3.15e+01 1yw5A 177 3.18e+01 1duzA 275 3.20e+01 1agdA b.1.1.2,d.19.1.1 20670,38224 1mg4A 113 3.20e+01 d.15.11.1 84953 2av7A 275 3.20e+01 1pjjA 271 3.25e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1nnjA 271 3.26e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1igtB 444 3.28e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 19765,20867,20868,20869 2b8eA 273 3.36e+01 2bjrA 368 3.39e+01 1ukuA 102 3.40e+01 d.58.5.2 99533 1cvrA 435 3.49e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1dgwX 79 3.52e+01 1caxB b.82.1.2 28091 1sjwA 144 3.61e+01 d.17.4.9 98899 1btkA 169 3.64e+01 1btkA b.55.1.1 26959 1d3uA 181 3.65e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 2cmwA 310 3.67e+01 1xipA 388 3.69e+01 1xt8A 292 3.76e+01 1npdA 288 3.80e+01 c.2.1.7,c.58.1.5 80681,80682 1yzgA 179 3.84e+01 1zzkA 82 3.85e+01 1xt9A 212 3.94e+01 1oi0A 124 3.95e+01 c.97.3.1 93045 1i50K 120 4.07e+01 d.74.3.2 61765 1sauA 115 4.14e+01 1ww7A 160 4.21e+01 2bznA 351 4.21e+01 1m2xA 223 4.22e+01 d.157.1.1 84764 1e6pA 499 4.22e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 1tdzA 272 4.26e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1n8jA 186 4.31e+01 c.47.1.10 85401 1rg9A 383 4.33e+01 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 1chrA 370 4.36e+01 1mucA c.1.11.2,d.54.1.1 29252,38896 1e9pA 151 4.37e+01 1mfmA b.1.8.1 22215 2d93A 134 4.44e+01 1i9yA 347 4.56e+01 1i9yA d.151.1.2 62101 1aisA 182 4.57e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1kskA 234 4.62e+01 d.66.1.5,d.265.1.3 72920,90389 1ob8A 135 4.65e+01 1n3lA 372 4.69e+01 c.26.1.1 79966 1s1dA 331 4.70e+01 b.67.3.1 98344 1jtdB 273 4.70e+01 b.69.5.2 67265 2bgzA 299 4.81e+01 1mxb 383 4.84e+01 1mxb d.130.1.1,d.130.1.1,d.130.1.1 41329,41330,41331 2av1A 275 4.87e+01 1zvhA 134 4.92e+01 1wlgA 299 4.93e+01 1uirA 314 4.93e+01 c.66.1.17 99429 1ti6A 875 4.97e+01 b.52.2.2,c.81.1.1 106974,106975 2tscA 264 5.00e+01 1bkpA d.117.1.1 40952 1xv2A 237 5.02e+01 1igtD 444 5.02e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 19767,20871,20872,20873 1lci 550 5.11e+01 1lci e.23.1.1 43349 1jic 62 5.13e+01 1azpA b.34.13.1 37462 2pcy 99 5.16e+01 1plc b.6.1.1 22849 1t2lA 141 5.16e+01 1egaA 301 5.27e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 1plc 99 5.30e+01 1plc b.6.1.1 22846 1i2mA 216 5.34e+01 1byuA c.37.1.8 61568 1mxa 383 5.38e+01 1mxb d.130.1.1,d.130.1.1,d.130.1.1 41326,41327,41328 1bolA 222 5.40e+01 1bolA d.124.1.1 41120 1kbvA 327 5.47e+01 b.6.1.3,b.6.1.3 68395,68396 1qyaA 307 5.58e+01 d.21.1.2,d.21.1.2 104653,104654 1y4jA 284 5.65e+01 1wexA 104 5.69e+01 1wd6A 123 5.70e+01 1a7qH 116 5.74e+01 1gc1H b.1.1.1 19955 1jb0F 164 5.79e+01 1jb0F f.23.16.1 62825 1ri6A 343 5.91e+01 b.69.11.1 97503 1wduA 245 5.96e+01 d.151.1.1 109286 1pysA 350 6.01e+01 1pysA d.104.1.1 40775 1i9zA 347 6.06e+01 1i9yA d.151.1.2 62102 1qmyA 167 6.09e+01 1qmyA d.3.1.2 37094 1gmlA 178 6.14e+01 c.8.5.2 70273 1hfoA 113 6.15e+01 d.80.1.3 61006 1q0eA 152 6.16e+01 b.1.8.1 95504 1a9eA 277 6.18e+01 1agdA b.1.1.2,d.19.1.1 20757,38268 1vmeA 410 6.19e+01 c.23.5.1,d.157.1.3 108893,108894 1kgdA 180 6.24e+01 c.37.1.1 68582 1c4kA 730 6.32e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31273,34502,41123 1o5oA 221 6.36e+01 c.61.1.1 92509 1agdA 276 6.36e+01 1agdA b.1.1.2,d.19.1.1 20741,38260 1yjdC 140 6.38e+01 1w98B 283 6.39e+01 7pcy 98 6.45e+01 1plc b.6.1.1 22863 2g8oA 264 6.47e+01 1gtxA 472 6.48e+01 1gtxA 3fivA 116 6.49e+01 1fmb b.50.1.1 26768 1nnt 328 6.61e+01 1nnt c.94.1.2 35884 1cbjA 151 6.70e+01 1mfmA b.1.8.1 22213 1rl6A 177 6.71e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1qhdA 398 6.73e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1n9lA 109 6.77e+01 d.110.3.6 85468 1d7pM 159 6.79e+01 1cztA b.18.1.2 23718 1caxB 184 6.83e+01 1caxB b.82.1.2 28105 2bnfB 241 6.95e+01 1jkxA 212 7.00e+01 c.65.1.1 66813 1udsA 255 7.00e+01 d.14.1.4,d.101.1.1 99219,99220 1ao7E 245 7.10e+01 1bec b.1.1.1,b.1.1.2 20646,21575 1twfK 120 7.11e+01 1snzA 344 7.26e+01 b.30.5.4 98930 1tzlA 622 7.30e+01 1obbA 480 7.46e+01 c.2.1.5,d.162.1.2 86760,86761 1umgA 362 7.47e+01 d.280.1.1 107956 1s3iA 310 7.51e+01 b.46.1.1,c.65.1.1 98435,98436 1l5oA 356 7.51e+01 c.39.1.1 77711 2fblA 153 7.56e+01 1pzsA 208 7.59e+01 b.1.8.1 104397 1xreA 217 7.66e+01 1qp2A 70 7.72e+01 1pse b.34.4.2 24596 1e8bA 160 7.76e+01 1e8bA g.14.1.2,g.14.1.2,g.27.1.1 44671,44672,44951 1oatA 439 7.80e+01 2dkb c.67.1.4 34461 1gd0A 122 7.81e+01 1dptA d.80.1.3 39834 1b3bA 415 7.82e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1axwA 265 7.98e+01 1bkpA d.117.1.1 40938 1jh8A 356 7.99e+01 c.39.1.1 63052 1ooeA 236 8.04e+01 c.2.1.2 87196 2bduA 297 8.06e+01 1dzkA 157 8.06e+01 1obpA b.60.1.1 27096 1uzbA 516 8.11e+01 c.82.1.1 100220 1qqqA 264 8.13e+01 1bkpA d.117.1.1 40931 2bw0A 329 8.16e+01 1t13A 158 8.19e+01 1j6uA 469 8.24e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1cdzA 96 8.29e+01 1cdzA c.15.1.1 30925 2bbsA 290 8.39e+01 1zvkA 358 8.42e+01 1ttuA 477 8.45e+01 b.1.18.1,b.2.5.8,b.42.7.1 107305,107306,107307 2bneA 241 8.49e+01 1a3yA 149 8.50e+01 1obpA b.60.1.1 27110 2bgcA 238 8.53e+01 1pyiA 96 8.55e+01 1pyiA g.38.1.1,h.1.3.1 45079,45512 1pguA 615 8.57e+01 b.69.4.1,b.69.4.1 88069,88070 1t5hX 504 8.59e+01 e.23.1.1 106449 1ztxE 108 8.59e+01 1pzwA 80 8.62e+01 g.39.1.10 95483 1vi2A 300 8.64e+01 c.2.1.7,c.58.1.5 100726,100727 1k07A 263 8.66e+01 d.157.1.1 77218 2cw5A 255 8.66e+01 1a8rA 221 8.74e+01 1a8rA d.96.1.1 40587 1b00A 127 8.75e+01 3chy c.23.1.1 31122 2f5vA 595 8.81e+01 1gwiA 411 8.81e+01 a.104.1.1 76364 1fivA 113 8.83e+01 1fmb b.50.1.1 26764 1evfA 264 8.86e+01 1bkpA d.117.1.1 40932 1fgyA 127 8.88e+01 1faoA b.55.1.1 26976 4fiv 113 8.91e+01 1fmb b.50.1.1 26762 1gifA 115 8.94e+01 1dptA d.80.1.3 39837 1b8aA 438 8.95e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765