# 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 1esfA 233 3.07e-01 3seb b.40.2.2,d.15.6.1 25146,37735 1dyqA 234 4.29e-01 3seb b.40.2.2,d.15.6.1 59140,59141 1zynA 202 4.98e-01 1hyuA 521 6.68e-01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1my6A 199 1.47e+00 a.2.11.1,d.44.1.1 85232,85233 1rwiA 270 1.72e+00 b.68.9.1 97987 1ockA 412 2.29e+00 c.117.1.1 86802 1m93A 55 2.34e+00 e.1.1.1 91235 1souA 194 2.41e+00 c.124.1.6 105858 1ge8A 249 3.03e+00 1plq d.131.1.2,d.131.1.2 41398,41399 1iz5A 249 3.07e+00 d.131.1.2,d.131.1.2 83834,83835 1igs 248 3.25e+00 1a53 c.1.2.4 28565 1a53 247 3.30e+00 1a53 c.1.2.4 28564 2fvtA 135 3.66e+00 1agnA 373 4.24e+00 2ohxA b.35.1.2,c.2.1.1 24737,29753 1juk 248 4.51e+00 1a53 c.1.2.4 28567 2c3zA 222 4.99e+00 1u2xA 474 5.20e+00 c.72.1.3 107622 1thg 544 5.24e+00 1thg c.69.1.17 34763 1wspA 84 5.51e+00 1gdtA 183 6.64e+00 2rslA a.4.1.2,c.53.1.1 16021,33348 1a0rP 245 6.94e+00 1b9yC c.47.1.6 33054 2d1uA 104 7.17e+00 1q59A 172 7.26e+00 f.1.4.1 95881 2a2pA 129 8.26e+00 2ewrA 170 8.74e+00 2fclA 169 8.74e+00 1ddf 127 8.89e+00 1ddf a.77.1.2 18423 1v30A 124 8.94e+00 1vfsA 386 9.08e+00 b.49.2.2,c.1.6.1 108584,108585 1es6A 296 9.26e+00 1es6A b.31.1.1,b.31.1.1 83048,83049 1repC 251 9.31e+00 1repC a.4.5.10,a.4.5.10 16125,16126 2rslA 140 9.63e+00 2rslA c.53.1.1 33345 1id0A 152 9.73e+00 d.122.1.3 66111 1c0dA 358 1.03e+01 1eceA c.1.8.3 28815 1eceA 358 1.03e+01 1eceA c.1.8.3 28813 1ma3A 253 1.05e+01 c.31.1.5 78883 1ur1A 378 1.07e+01 c.1.8.3 99804 1qhlA 227 1.16e+01 1qhlA c.37.1.12 32382 2bg5A 324 1.19e+01 1rwzA 245 1.22e+01 d.131.1.2,d.131.1.2 98005,98006 1isaA 192 1.38e+01 1avmA a.2.11.1,d.44.1.1 15731,38724 1j5vA 351 1.39e+01 c.72.1.1 71585 1iscA 192 1.42e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1c52 131 1.49e+01 1c52 a.3.1.1 15810 1t9bA 677 1.56e+01 2adbA 148 1.69e+01 1g8lA 411 1.71e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1bc9 200 1.72e+01 1pbv a.118.3.1 19180 2awpA 198 1.73e+01 1sqsA 242 1.79e+01 c.23.5.5 98968 1jhfA 202 1.84e+01 a.4.5.2,b.87.1.1 63057,63058 1nxiA 132 1.86e+01 d.58.47.1 86381 1hqz9 141 1.88e+01 1p8kZ 254 1.90e+01 d.95.2.1,d.95.2.1 94361,94362 2pil 159 1.91e+01 2pil d.24.1.1 38376 1ay2 159 1.92e+01 2pil d.24.1.1 38377 1pnsC 206 1.95e+01 i.1.1.1 88170 1k38A 254 1.97e+01 e.3.1.1 84303 1xn5A 146 2.02e+01 1flcA 432 2.07e+01 1flcA b.19.1.3,c.23.10.2 23837,31337 1qavA 90 2.07e+01 1qauA b.36.1.1 24777 2cxcA 144 2.13e+01 1y96B 85 2.15e+01 1tzaA 134 2.19e+01 b.1.23.1 107468 1xedA 117 2.28e+01 1ygs 234 2.31e+01 1ygs b.26.1.1 23907 1fl2A 310 2.32e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1tf1A 198 2.44e+01 d.110.2.2 106826 2axpA 173 2.47e+01 1ri6A 343 2.54e+01 b.69.11.1 97503 2aw2A 120 2.56e+01 2ifeA 100 2.75e+01 1tig d.68.1.1 39567 1xkiA 162 2.79e+01 1xwvA 129 2.80e+01 1smlA 269 2.83e+01 1smlA d.157.1.1 42053 1h2cA 140 2.89e+01 b.31.1.1 83462 1sr4B 261 2.94e+01 d.151.1.1 105949 1pyfA 312 2.97e+01 c.1.7.1 95334 2f4mA 295 3.11e+01 1ej0A 180 3.12e+01 1ej0A c.66.1.2 34179 2axwA 134 3.15e+01 2aioA 269 3.19e+01 1f13A 731 3.22e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21877,22163,22164,37107 2b33A 140 3.24e+01 1c7sA 858 3.24e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1g6gA 127 3.32e+01 1g6gA b.26.1.2 23916 1qlmA 316 3.35e+01 1qlmA d.147.1.1 41765 1c7qA 445 3.36e+01 2pgi c.80.1.2 35307 1yiyA 429 3.37e+01 1fhgA 154 3.37e+01 1tlk b.1.1.4 21706 1e9rA 437 3.42e+01 c.37.1.11 64827 1b0zA 445 3.42e+01 2pgi c.80.1.2 35309 2pgi 445 3.42e+01 2pgi c.80.1.2 35308 1hqz1 141 3.48e+01 1m07A 111 3.48e+01 d.5.1.1 78328 1ft5A 211 3.49e+01 1bvb a.138.1.3 19681 1bvb 211 3.50e+01 1bvb a.138.1.3 19683 1evuA 731 3.53e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1tlk 154 3.57e+01 1tlk b.1.1.4 21707 1j5eC 239 3.60e+01 d.52.3.1,d.53.1.1 71544,71545 1qi9A 556 3.61e+01 1qhbA a.111.1.2 19053 1wrjA 156 3.63e+01 1vddA 228 3.64e+01 e.49.1.1 108519 1ycyA 71 3.74e+01 1a99A 344 3.75e+01 1pot c.94.1.1 35812 1hfbA 370 3.77e+01 c.1.10.4 76706 1cby 259 3.77e+01 1cby d.103.1.1 40705 1of8A 370 3.87e+01 c.1.10.4 92819 2aefA 234 3.88e+01 2myr 501 3.89e+01 1cc1S 283 3.89e+01 2frvA e.19.1.1 43313 1qba 858 3.89e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21810,22406,29009,40408 1bc4 111 3.89e+01 1onc d.5.1.1 37279 1u6tA 121 3.91e+01 1exg 110 3.95e+01 1exg b.2.2.1 22387 1xewY 172 3.95e+01 1mm4A 170 3.97e+01 f.4.1.2 79294 1t64A 377 4.01e+01 c.42.1.2 106543 1d2oA 187 4.30e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1pp0A 199 4.41e+01 d.103.1.1 104211 1ryjA 70 4.48e+01 d.15.3.2 98104 1tq5A 242 4.57e+01 1ee2A 373 4.59e+01 2ohxA b.35.1.2,c.2.1.1 24663,29679 1ex0A 731 4.62e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1xttA 216 4.64e+01 1wb4A 297 4.65e+01 1tiqA 180 4.71e+01 d.108.1.1 107010 1d2pA 373 4.72e+01 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1ltlA 279 4.73e+01 b.40.4.11 84701 1mo9A 523 4.76e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1ydmA 187 4.78e+01 1ix9A 205 4.78e+01 a.2.11.1,d.44.1.1 76899,76900 1d5nA 205 4.78e+01 1avmA a.2.11.1,d.44.1.1 15762,38687 1gklA 297 4.81e+01 c.69.1.2 65250 1xuqA 212 4.81e+01 1i0hA 205 4.83e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 1gkkA 297 4.84e+01 c.69.1.2 65248 2wsyB 396 4.87e+01 2tysB c.79.1.1 35288 1bia 321 4.88e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1fr3A 67 4.88e+01 1fr3A b.40.6.1 25436 8adh 374 4.88e+01 2ohxA b.35.1.2,c.2.1.1 24690,29706 1ri7A 171 4.89e+01 a.4.5.32,d.58.4.2 97504,97505 1njhA 119 4.91e+01 b.128.1.1 85787 2gfgA 193 4.92e+01 1o58A 303 4.99e+01 c.79.1.1 92491 1n8kA 374 4.99e+01 b.35.1.2,c.2.1.1 80298,80299 1woqA 267 5.00e+01 c.55.1.10,c.55.1.10 109462,109463 1a71A 374 5.00e+01 2ohxA b.35.1.2,c.2.1.1 24673,29689 1nijA 318 5.00e+01 c.37.1.10,d.237.1.1 85741,85742 2ohxA 374 5.01e+01 2ohxA b.35.1.2,c.2.1.1 24669,29685 1hetA 374 5.01e+01 2ohxA b.35.1.2,c.2.1.1 60975,60976 1heuA 374 5.05e+01 2ohxA b.35.1.2,c.2.1.1 60979,60980 1mixA 206 5.07e+01 a.11.2.1,b.55.1.5 79166,79167 1axeA 374 5.18e+01 2ohxA b.35.1.2,c.2.1.1 24681,29697 1he2A 206 5.21e+01 1he2A c.2.1.2 60966 1e6qM 501 5.21e+01 1e70M c.1.8.4 28920 1hdoA 206 5.23e+01 1he2A c.2.1.2 60965 1vetA 124 5.26e+01 d.110.7.1 108553 1booA 323 5.29e+01 1booA c.66.1.11 34248 1o0pA 104 5.37e+01 d.58.7.1 86535 2bbkL 125 5.38e+01 2bbkL g.21.1.1 44882 1gguA 731 5.38e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21885,22179,22180,37115 1axgA 374 5.38e+01 2ohxA b.35.1.2,c.2.1.1 24691,29707 1vcvA 226 5.39e+01 1fjgC 239 5.39e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 1o0yA 260 5.41e+01 c.1.10.1 80756 1regX 122 5.52e+01 1regX d.58.27.1 39406 5gcnA 166 5.52e+01 1yghA d.108.1.1 40807 1x8dA 104 5.53e+01 1lwjA 441 5.54e+01 b.71.1.1,c.1.8.1 74303,74304 1v0lA 313 5.55e+01 c.1.8.3 108207 1od8A 313 5.57e+01 c.1.8.3 86838 1p5vA 235 5.59e+01 b.1.11.1,b.7.2.1 87812,87813 1bib 321 5.60e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 1e70M 501 5.62e+01 1e70M c.1.8.4 28926 1e4mM 501 5.70e+01 1e70M c.1.8.4 59226 1e0wA 313 5.77e+01 1taxA c.1.8.3 59150 1l9xA 315 5.81e+01 c.23.16.1 73762 1fw9A 164 5.82e+01 1fw9A d.190.1.1 60059 1tt8A 164 5.82e+01 1vbvA 105 5.84e+01 1ghtA 105 5.87e+01 2rslA c.53.1.1 60526 1rv9A 259 6.02e+01 d.194.1.2 105105 1ri5A 298 6.05e+01 c.66.1.34 97502 1fht 116 6.13e+01 1urnA d.58.7.1 39157 1wmhB 86 6.15e+01 1xubA 298 6.30e+01 1sek 378 6.34e+01 1sek e.1.1.1 42675 1u1wA 298 6.36e+01 2g9iA 249 6.37e+01 1xsqA 168 6.37e+01 1skoA 143 6.45e+01 d.110.7.1 105676 1vr4A 103 6.45e+01 2fh7A 595 6.48e+01 1jlyA 304 6.50e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1bxlA 181 6.56e+01 1maz f.1.4.1 43396 1q48A 134 6.60e+01 d.224.1.2 95783 1wouA 123 6.62e+01 c.47.1.16 109471 1zp4A 304 6.69e+01 1kal 29 6.74e+01 g.3.3.1 44077 1xfcA 384 6.88e+01 1epwA 1290 6.90e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1mg2B 131 7.00e+01 g.21.1.1 79060 1focA 132 7.02e+01 1c52 a.3.1.1 15812 1a9v 129 7.09e+01 1a9v b.1.18.7 21946 1i8fA 81 7.19e+01 1i8fA b.38.1.1 61959 1r5lA 262 7.27e+01 a.5.3.1,c.13.1.1 97099,97100 2amhA 207 7.39e+01 1ta3B 303 7.46e+01 c.1.8.3 106732 1bby 69 7.47e+01 2bby a.4.5.15 16149 1g0sA 209 7.57e+01 1g0sA d.113.1.1 60187 1fzqA 181 7.58e+01 1hurA c.37.1.8 32060 2b7eA 59 7.61e+01 2cygA 312 7.71e+01 2g6tA 306 7.71e+01 1ztsA 139 7.75e+01 1o1zA 234 7.75e+01 c.1.18.3 86555 1xhfA 123 7.80e+01 1h7zA 194 7.84e+01 1qhvA b.21.1.1 60733 1plq 258 7.90e+01 1plq d.131.1.2,d.131.1.2 41388,41389 1larA 575 7.96e+01 1larA c.45.1.2,c.45.1.2 32693,32694 2ab5A 269 7.97e+01 1wcdJ 441 7.99e+01 2arcA 164 8.09e+01 2arcA b.82.4.1 28148 1ggwA 140 8.13e+01 1ggwA a.39.1.5 60490 1bksB 397 8.17e+01 2tysB c.79.1.1 35285 2gw6A 123 8.21e+01 2arcB 164 8.24e+01 2arcA b.82.4.1 28149 2tysB 397 8.39e+01 2tysB c.79.1.1 35272 1a50B 396 8.53e+01 2tysB c.79.1.1 35280 2aacA 177 8.54e+01 2arcA b.82.4.1 28150 1nf3C 128 8.57e+01 b.36.1.1 85596 1vr0A 247 8.65e+01 1yizA 429 8.70e+01 1nmuB 104 8.71e+01 d.79.3.1 80666 2fug1 438 8.71e+01 1dg3A 592 8.73e+01 1dg3A a.114.1.1,c.37.1.8 19078,32153 1ve0A 134 8.83e+01 1vjpA 394 8.89e+01 c.2.1.3,d.81.1.3 100828,100829 2g0uA 92 8.92e+01 1dzlA 505 8.95e+01 1dzlA b.121.6.1 23586 1db3A 372 8.96e+01 1db3A c.2.1.2 29813