# List of top-scoring protein chains for t06-100-30-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 1dyqA 234 2.50e-01 3seb b.40.2.2,d.15.6.1 59140,59141 2fclA 169 6.20e-01 2rslA 140 6.75e-01 2rslA c.53.1.1 33345 1sqsA 242 1.39e+00 c.23.5.5 98968 1repC 251 1.48e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1m93A 55 1.77e+00 e.1.1.1 91235 1qhlA 227 2.65e+00 1qhlA c.37.1.12 32382 1ex0A 731 2.72e+00 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 2bg5A 324 3.37e+00 1exg 110 3.58e+00 1exg b.2.2.1 22387 1hdoA 206 3.92e+00 1he2A c.2.1.2 60965 1y96B 85 4.17e+00 2flsA 132 4.34e+00 2g9iA 249 4.45e+00 1ydmA 187 4.66e+00 1regX 122 4.79e+00 1regX d.58.27.1 39406 1v0lA 313 4.85e+00 c.1.8.3 108207 1d2oA 187 5.18e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1zpvA 91 5.48e+00 1iz5A 249 5.56e+00 d.131.1.2,d.131.1.2 83834,83835 2cxcA 144 5.57e+00 1c7qA 445 5.82e+00 2pgi c.80.1.2 35307 2afbA 351 6.07e+00 1kqpA 271 6.81e+00 c.26.2.1 72883 1a53 247 6.81e+00 1a53 c.1.2.4 28564 2b7eA 59 6.84e+00 1c52 131 7.01e+00 1c52 a.3.1.1 15810 1g7nA 131 7.10e+00 b.60.1.2 83274 1ej0A 180 7.92e+00 1ej0A c.66.1.2 34179 1m07A 111 8.24e+00 d.5.1.1 78328 1s55A 156 8.46e+00 1zruA 264 8.74e+00 1e0tA 470 8.76e+00 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1b25A 619 8.98e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 1xwvA 129 9.14e+00 1b56 135 9.51e+00 1hmt b.60.1.2 27183 2gmqA 118 9.60e+00 1i6lA 328 1.05e+01 c.26.1.1 66041 1o1zA 234 1.05e+01 c.1.18.3 86555 1sek 378 1.07e+01 1sek e.1.1.1 42675 1vkuA 100 1.11e+01 a.28.1.1 108690 1nijA 318 1.13e+01 c.37.1.10,d.237.1.1 85741,85742 1o6dA 163 1.21e+01 c.116.1.3 92567 2fgtA 417 1.23e+01 1a99A 344 1.27e+01 1pot c.94.1.1 35812 1tf1A 198 1.29e+01 d.110.2.2 106826 1n8kA 374 1.33e+01 b.35.1.2,c.2.1.1 80298,80299 1bn8A 420 1.35e+01 1pcl b.80.1.1 28022 1qavA 90 1.38e+01 1qauA b.36.1.1 24777 1bia 321 1.40e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1o0yA 260 1.49e+01 c.1.10.1 80756 1t0hA 132 1.54e+01 b.34.2.1 106207 1kshA 186 1.61e+01 c.37.1.8 72914 1x8dA 104 1.61e+01 1fl2A 310 1.70e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1s0pA 176 1.70e+01 a.192.1.1 98300 1h72C 296 1.75e+01 d.14.1.5,d.58.26.1 60712,60713 1u3wA 374 1.79e+01 1v04A 355 1.87e+01 b.68.6.2 100240 2aefA 234 1.91e+01 1qzgA 187 1.94e+01 b.40.4.3 96643 1zthA 258 1.94e+01 2cygA 312 1.95e+01 1ma3A 253 1.95e+01 c.31.1.5 78883 1vqoL 165 2.02e+01 1qlmA 316 2.05e+01 1qlmA d.147.1.1 41765 1s9rA 410 2.07e+01 d.126.1.4 98758 2etxA 209 2.07e+01 1ois 223 2.07e+01 1a36A e.15.1.1 43267 1t0aA 159 2.08e+01 1xttA 216 2.09e+01 1i8fA 81 2.11e+01 1i8fA b.38.1.1 61959 1vcvA 226 2.11e+01 1s50A 259 2.12e+01 1fh9A 312 2.12e+01 1taxA c.1.8.3 28913 1idk 359 2.17e+01 1qcxA b.80.1.2 28025 1wwhA 119 2.17e+01 1vjpA 394 2.18e+01 c.2.1.3,d.81.1.3 100828,100829 1gyxA 76 2.19e+01 d.80.1.1 76387 1xcbA 211 2.20e+01 a.4.5.38,c.2.1.12 109552,109553 2fbyA 205 2.22e+01 1dkuA 317 2.25e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1wu3I 161 2.26e+01 2gfgA 193 2.26e+01 1qy1A 174 2.28e+01 b.60.1.1 96568 2bwfA 77 2.29e+01 1vjjA 692 2.33e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1wrjA 156 2.33e+01 1ydyA 356 2.34e+01 1quqB 121 2.39e+01 1quqB b.40.4.3 25305 2aioA 269 2.43e+01 5nul 138 2.49e+01 5nul c.23.5.1 31191 2amhA 207 2.58e+01 1xn5A 146 2.63e+01 1w9zA 283 2.67e+01 1xkiA 162 2.68e+01 1o58A 303 2.68e+01 c.79.1.1 92491 1juvA 193 2.69e+01 c.71.1.1 90912 4uagA 437 2.73e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1rwzA 245 2.77e+01 d.131.1.2,d.131.1.2 98005,98006 1oa2A 218 2.77e+01 b.29.1.11 86721 2bo4A 397 2.87e+01 1vr7A 142 2.87e+01 2asbA 251 2.89e+01 1vddA 228 2.90e+01 e.49.1.1 108519 1nf3C 128 2.94e+01 b.36.1.1 85596 1tt8A 164 2.97e+01 1m4jA 142 3.02e+01 d.109.1.2 78602 1epwA 1290 3.05e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 2gw6A 123 3.06e+01 1nu4A 97 3.07e+01 d.58.7.1 80731 1qi9A 556 3.07e+01 1qhbA a.111.1.2 19053 1cfr 285 3.10e+01 1cfr c.52.1.7 33312 1zp4A 304 3.13e+01 1rwrA 301 3.13e+01 b.80.1.11 97990 1hqz1 141 3.16e+01 1xkrA 206 3.21e+01 1zndA 174 3.23e+01 1z5sD 83 3.33e+01 2b2aA 199 3.36e+01 1svpA 161 3.42e+01 1svpA b.47.1.3 26384 1nq6A 302 3.50e+01 c.1.8.3 92046 1qopB 396 3.50e+01 2tysB c.79.1.1 35270 1ukuA 102 3.52e+01 d.58.5.2 99533 2fh7A 595 3.56e+01 1nf2A 268 3.61e+01 c.108.1.10 91849 1bdfA 235 3.63e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1ta8A 332 3.63e+01 1oj4A 283 3.63e+01 d.14.1.5,d.58.26.5 93083,93084 1h6lA 353 3.66e+01 b.68.3.1 60687 2aq4A 434 3.79e+01 1sr4B 261 3.83e+01 d.151.1.1 105949 1cf7B 95 3.83e+01 1cf7B a.4.5.17 16152 1qhtA 775 3.84e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1jy5A 212 3.85e+01 d.124.1.1 71940 1fg7A 356 3.86e+01 1gewA c.67.1.1 59819 1kq1A 77 3.89e+01 b.38.1.2 72848 1cojA 212 3.89e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1yiyA 429 3.93e+01 1r6xA 395 3.95e+01 b.122.1.3,c.26.1.5 97167,97168 1udc 338 3.95e+01 1xel c.2.1.2 29785 2cq2A 114 4.01e+01 1gxqA 106 4.06e+01 a.4.6.1 70721 1xdpA 687 4.12e+01 1id0A 152 4.20e+01 d.122.1.3 66111 2fcjA 119 4.22e+01 1yoaA 159 4.31e+01 1njhA 119 4.33e+01 b.128.1.1 85787 1wlyA 333 4.46e+01 1f0lA 535 4.47e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1u55A 188 4.47e+01 d.278.1.1 107677 1hm9A 468 4.54e+01 b.81.1.4,c.68.1.5 65866,65867 1fzqA 181 4.57e+01 1hurA c.37.1.8 32060 2ffeA 311 4.57e+01 1ur1A 378 4.63e+01 c.1.8.3 99804 1xfcA 384 4.67e+01 1pyfA 312 4.68e+01 c.1.7.1 95334 1b43A 340 4.68e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 2as9A 210 4.70e+01 1luzA 88 4.74e+01 b.40.4.5 74271 1of8A 370 4.78e+01 c.1.10.4 92819 1n8jA 186 4.78e+01 c.47.1.10 85401 1je0A 236 4.81e+01 c.56.2.1 66581 1ns5A 155 4.84e+01 c.116.1.3 80705 1xyiA 66 4.84e+01 1wohA 305 4.88e+01 c.42.1.1 109446 1z90A 469 4.93e+01 1tygB 87 4.95e+01 d.15.3.2 107455 1vbuA 328 4.98e+01 1fhgA 154 5.04e+01 1tlk b.1.1.4 21706 1xklA 273 5.04e+01 1uc7A 125 5.16e+01 c.47.1.1 99163 1i8dA 213 5.25e+01 b.43.4.3,b.43.4.3 61953,61954 1o69A 394 5.25e+01 c.67.1.4 92560 1ft5A 211 5.28e+01 1bvb a.138.1.3 19681 1zetA 388 5.30e+01 2f6hX 419 5.32e+01 1l1sA 113 5.34e+01 c.114.1.1 73484 1f9vA 347 5.40e+01 1bg2 c.37.1.9 59745 1xtoA 311 5.42e+01 1b0uA 262 5.47e+01 1b0uA c.37.1.12 32370 1whvA 100 5.48e+01 1p3dA 475 5.52e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1m12A 84 5.59e+01 a.64.1.1 84745 1rf6A 427 5.72e+01 d.68.2.2 97366 2ftzA 284 5.76e+01 1xvqA 175 5.76e+01 1pbjA 125 5.80e+01 d.37.1.1,d.37.1.1 94414,94415 1g291 372 5.80e+01 1g291 1i1rB 181 5.84e+01 1i1rB a.26.1.1 61548 1vknA 351 6.02e+01 c.2.1.3,d.81.1.1 108676,108677 1uxzA 131 6.02e+01 b.18.1.10 100170 1duvG 333 6.08e+01 1othA c.78.1.1,c.78.1.1 35228,35229 1yb2A 275 6.09e+01 1eceA 358 6.09e+01 1eceA c.1.8.3 28813 1in0A 163 6.12e+01 d.58.49.1,d.58.49.1 83694,83695 1vfsA 386 6.14e+01 b.49.2.2,c.1.6.1 108584,108585 2g5dA 422 6.15e+01 1bby 69 6.16e+01 2bby a.4.5.15 16149 1ri6A 343 6.23e+01 b.69.11.1 97503 2cxaA 256 6.24e+01 1zhvA 134 6.28e+01 1ve0A 134 6.29e+01 1e9rA 437 6.30e+01 c.37.1.11 64827 1vbvA 105 6.31e+01 1tiqA 180 6.32e+01 d.108.1.1 107010 2bbkL 125 6.33e+01 2bbkL g.21.1.1 44882 2tpt 440 6.39e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1v30A 124 6.39e+01 2fn0A 437 6.40e+01 1ob8A 135 6.47e+01 1yizA 429 6.55e+01 1ljoA 77 6.64e+01 b.38.1.1 73941 1cq3A 233 6.65e+01 1cq3A b.27.1.1 23923 1su0B 159 6.66e+01 d.224.1.2 106015 2bz6L 53 6.68e+01 1gntA 553 6.70e+01 e.26.1.1 70290 1bg6 359 6.72e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1no5A 114 6.75e+01 d.218.1.5 92014 1y96A 86 6.79e+01 1y43B 173 6.80e+01 16pk 415 6.80e+01 16pk c.86.1.1 35454 1iwmA 186 6.82e+01 b.125.1.2 83758 1wspA 84 6.84e+01 2a41C 32 6.84e+01 2trcP 217 6.86e+01 1b9yC c.47.1.6 33051 1a8q 274 6.89e+01 1brt c.69.1.12 34702 1gs5A 258 6.97e+01 c.73.1.2 70395 1ee6A 197 7.19e+01 1ee6A b.80.1.1 28024 1s6lA 212 7.19e+01 2dfkA 402 7.21e+01 1tdzA 272 7.22e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1uc2A 481 7.23e+01 d.261.1.1 99161 2fkcA 247 7.28e+01 1zpsA 138 7.30e+01 1cxc 124 7.32e+01 1ycc a.3.1.1 15890 1jp4A 308 7.42e+01 1jp4A e.7.1.1 63223 2f42A 179 7.46e+01 2ptd 298 7.50e+01 2plc c.1.18.2 29605 1l2tA 235 7.53e+01 c.37.1.12 73514 1u7eB 154 7.56e+01 2gh1A 301 7.56e+01 1wfeA 86 7.66e+01 1khbA 625 7.70e+01 c.91.1.1,c.109.1.1 68606,68607 8rucI 123 7.71e+01 1rboC d.73.1.1 39629 1du9A 28 7.73e+01 g.3.7.2 44148 1vmeA 410 7.76e+01 c.23.5.1,d.157.1.3 108893,108894 1hrkA 359 7.81e+01 1hrkA c.92.1.1 61228 1qg8A 255 7.84e+01 1qg8A c.68.1.1 34505 1q3lA 69 7.84e+01 1ok7A 366 7.85e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 2gk3A 256 7.86e+01 1s14A 194 7.87e+01 d.122.1.2 98329 1z7aA 308 7.88e+01 2a9dA 372 7.96e+01 1k38A 254 8.08e+01 e.3.1.1 84303 1wy6A 172 8.09e+01 1wouA 123 8.15e+01 c.47.1.16 109471 1ll2A 333 8.21e+01 c.68.1.14 74005 1z0wA 207 8.21e+01 1ze3C 205 8.28e+01 2cdpA 160 8.29e+01 1gd1O 334 8.35e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 2av5A 120 8.35e+01 1h09A 338 8.37e+01 b.109.1.1,c.1.8.8 83420,83421 1r6jA 82 8.38e+01 b.36.1.1 97151 1azsA 220 8.38e+01 1azsA d.58.29.1 39416 1y2tA 142 8.46e+01 1yg6A 193 8.47e+01 1rfeA 162 8.51e+01 1tyjA 170 8.52e+01 2ez6A 221 8.54e+01 1mwwA 128 8.55e+01 d.80.1.4 91483 2g6tA 306 8.55e+01 1wqsA 173 8.60e+01 1vmaA 306 8.61e+01 a.24.13.1,c.37.1.10 108887,108888 2a1xA 308 8.62e+01 1xnaA 183 8.73e+01 1xnaA b.18.1.8 23773 2hvm 273 8.73e+01 1cnv c.1.8.5 28985 1c7gA 456 8.74e+01 c.67.1.2 90415 1vq3A 94 8.79e+01 2ga9D 469 8.81e+01 2axtO 247 8.82e+01 1josA 128 8.84e+01 d.52.7.1 84191 1ghhA 81 8.97e+01 1ghhA d.57.1.1 38940