# 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 1jdqA 98 5.11e-01 d.68.3.3 66559 1e1dA 553 7.34e-01 1e1dA e.26.1.1 43363 1e2uA 553 7.35e-01 1e1dA e.26.1.1 43362 1gntA 553 7.35e-01 e.26.1.1 70290 2gfgA 193 1.00e+00 1y2qA 143 1.29e+00 1mp9A 198 1.51e+00 d.129.1.1,d.129.1.1 91385,91386 1vljA 407 2.06e+00 e.22.1.2 108832 1vetB 125 2.10e+00 d.110.7.1 108554 1ckv 141 2.18e+00 1ckv d.137.1.1 41452 1gnlA 544 2.70e+00 e.26.1.1 70287 1b76A 442 3.07e+00 1atiA c.51.1.1,d.104.1.1 33198,40747 1atiB 505 3.52e+00 1atiA c.51.1.1,d.104.1.1 33197,40746 1atiA 505 3.67e+00 1atiA c.51.1.1,d.104.1.1 33196,40745 1httA 423 3.69e+00 1adjA c.51.1.1,d.104.1.1 33178,40727 1skoB 130 3.70e+00 d.110.7.1 105677 1oz9A 150 3.72e+00 d.92.1.15 93808 1ockA 412 3.90e+00 c.117.1.1 86802 1nx8A 273 3.97e+00 b.82.2.8 86374 1xqaA 113 4.01e+00 1vmbA 140 4.53e+00 1v6tA 255 4.56e+00 1vpjA 192 5.80e+00 1dlyA 164 5.85e+00 1dlyA a.1.1.1 14983 1tgoA 773 6.14e+00 1tgoA c.55.3.5,e.8.1.1 33721,43010 1vdxA 184 6.58e+00 1pvgA 418 7.14e+00 d.14.1.3,d.122.1.2 95161,95162 1vgjA 184 7.22e+00 2bb6A 414 7.23e+00 1kmmA 424 7.36e+00 1adjA c.51.1.1,d.104.1.1 33174,40723 1xsnA 335 7.80e+00 1ofuA 320 7.84e+00 c.32.1.1,d.79.2.1 86972,86973 1w25A 459 8.21e+00 1s69A 124 8.35e+00 a.1.1.1 105305 1ufkA 254 8.40e+00 c.66.1.39 99340 1rtxA 123 8.94e+00 a.1.1.1 97827 1y0uA 96 8.98e+00 1wqaA 455 1.06e+01 1xx1A 285 1.20e+01 1q5qA 259 1.25e+01 d.153.1.4 95904 1fmaE 150 1.26e+01 1fmaE d.41.5.1 38630 1wy7A 207 1.26e+01 1fm0E 150 1.28e+01 1fmaE d.41.5.1 38629 1fnoA 417 1.28e+01 d.58.19.1,c.56.5.4 70145,75841 2bcqA 335 1.29e+01 1kmnD 424 1.31e+01 1adjA c.51.1.1,d.104.1.1 33185,40734 1m55A 197 1.39e+01 d.89.1.3 74469 1kczA 413 1.41e+01 c.1.11.2,d.54.1.1 68451,68452 1qhtA 775 1.54e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1vixA 420 1.61e+01 c.56.5.4,d.58.19.1 100777,100778 1tzjA 338 1.68e+01 1fx2A 235 1.68e+01 1fx2A d.58.29.1 39430 1qqcA 773 1.72e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1gajA 257 1.73e+01 1gajA c.37.1.12 60416 1ka1A 357 1.94e+01 e.7.1.1 68369 1qgxA 357 1.95e+01 1qgxA e.7.1.1 42973 1vhiA 142 2.01e+01 1b3tA d.58.8.1 39230 1w96A 554 2.13e+01 1lgyA 269 2.13e+01 3tgl c.69.1.17 34758 1usgA 346 2.17e+01 c.93.1.1 99864 1rztA 331 2.20e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1b5eA 246 2.20e+01 1b5eA d.117.1.1 41056 2ci1A 275 2.23e+01 1j8yF 297 2.36e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1o59A 355 2.43e+01 b.18.1.22,b.18.1.22 92495,92496 1fyeA 229 2.51e+01 1fyeA c.23.16.4 31477 1tvlA 454 2.57e+01 c.1.16.4 107366 1c9bB 180 2.69e+01 1ytbA d.129.1.1,d.129.1.1 41216,41217 2lbp 346 2.70e+01 2liv c.93.1.1 35709 1gudA 288 2.73e+01 c.93.1.1 83326 1sesA 421 2.79e+01 1sesA a.2.7.1,d.104.1.1 15710,40710 1gwyA 175 2.85e+01 b.97.1.1 83356 2bkqA 212 2.89e+01 1kanA 253 2.92e+01 1knyA a.24.16.1,d.218.1.1 75878,75879 2fgeA 995 2.92e+01 1fjgI 128 2.93e+01 1fjfI d.14.1.1 37559 1dtwB 342 2.97e+01 1qs0B c.36.1.7,c.48.1.2 31828,33102 1fy2A 229 2.97e+01 1fyeA c.23.16.4 31478 1quvA 578 2.99e+01 1quvA e.8.1.4 43119 2bvfA 459 3.01e+01 1aisA 182 3.10e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1j98A 157 3.15e+01 1j98A d.185.1.2 62755 1uroA 367 3.15e+01 1uroA c.1.22.1 29675 1g6hA 257 3.19e+01 1gajA c.37.1.12 60318 1fmcA 255 3.19e+01 1cydA c.2.1.2 29856 1us5A 314 3.21e+01 c.94.1.1 99856 1p27B 106 3.24e+01 d.58.7.1 93908 1u14A 172 3.24e+01 c.51.4.3 107579 1gx5A 536 3.27e+01 e.8.1.4 70682 2bjiA 277 3.28e+01 1qupA 222 3.29e+01 1qupA b.1.8.1,d.58.17.1 22301,39352 1tzfA 259 3.38e+01 c.68.1.13 107476 1qb7A 236 3.47e+01 1qb7A c.61.1.1 34087 1r3sA 367 3.54e+01 c.1.22.1 96963 1a8p 258 3.56e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1x13A 401 3.62e+01 1tikA 213 3.62e+01 c.23.5.3 107003 1kyqA 274 3.63e+01 c.2.1.11,e.37.1.1 73281,73282 2hmiA 558 3.72e+01 1rthA c.55.3.1,e.8.1.2 33604,43106 1qtoA 122 3.75e+01 1bylA d.32.1.2 38494 1ionA 243 3.77e+01 c.37.1.10 62633 1ymqA 261 3.79e+01 1bqnA 558 3.84e+01 1rthA c.55.3.1,e.8.1.2 33599,43064 2bkrA 212 3.85e+01 1csjA 531 3.91e+01 1quvA e.8.1.4 43120 1rl6A 177 3.92e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1tqjA 230 3.99e+01 c.1.2.2 107228 1fjhB 257 4.00e+01 1fjhB c.2.1.2 29871 1wvcA 259 4.01e+01 1xxlA 239 4.02e+01 1kv7A 488 4.07e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1v1rB 342 4.21e+01 c.36.1.7,c.48.1.2 108273,108274 1e8pA 46 4.24e+01 g.55.1.1 59385 8fabB 224 4.28e+01 1igtB b.1.1.1,b.1.1.2 19773,20883 1qysA 106 4.30e+01 k.41.1.1 96603 1wwhA 119 4.31e+01 1bqnB 430 4.35e+01 1rthA e.8.1.2 43065 1lfpA 249 4.36e+01 e.39.1.1 73885 1olsB 342 4.48e+01 c.36.1.7,c.48.1.2 93332,93333 1dloA 556 4.48e+01 1rthA c.55.3.1,e.8.1.2 33584,43040 1gheA 177 4.49e+01 d.108.1.1 76222 1a3wA 500 4.52e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 1vr6A 350 4.62e+01 2acvA 463 4.63e+01 1hskA 326 4.64e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1xmxA 385 4.66e+01 1x7yB 342 4.70e+01 1nonA 179 4.75e+01 c.61.1.1 103868 1nv8A 284 4.96e+01 c.66.1.30 86224 2aalA 131 4.97e+01 1dgjA 907 4.97e+01 1alo a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 17909,37694,38585,41415 1b3tA 147 4.99e+01 1b3tA d.58.8.1 39228 1bj4A 470 5.00e+01 1bj4A c.67.1.4 34479 1fjhA 257 5.03e+01 1fjhB c.2.1.2 29870 1wy2A 351 5.05e+01 1pczA 191 5.08e+01 1ytbA d.129.1.1,d.129.1.1 41292,41293 1hr6B 443 5.18e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1tv8A 340 5.18e+01 c.1.28.3 107352 1cc8A 73 5.30e+01 1cc8A d.58.17.1 39343 1vzsA 76 5.38e+01 f.45.1.1 108972 1v5vA 401 5.40e+01 1vimA 200 5.41e+01 c.80.1.3 100758 1nvmB 312 5.42e+01 c.2.1.3,d.81.1.1 86251,86252 2bfdB 345 5.45e+01 1c2pA 576 5.50e+01 1quvA e.8.1.4 43117 1zsqA 528 5.52e+01 1z4rA 168 5.54e+01 1rz3A 201 5.58e+01 c.37.1.6 98132 2asfA 137 5.60e+01 1q9jA 422 5.68e+01 c.43.1.2,c.43.1.2 104590,104591 1sgvA 316 5.74e+01 b.122.1.1,d.265.1.2 98858,98859 1rzmA 338 5.79e+01 c.1.10.4 105137 1ow1A 195 5.80e+01 b.131.1.3 93625 1e19A 314 5.80e+01 1b7bA c.73.1.1 34967 1d3uA 181 5.81e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1agy 200 5.82e+01 1cex c.69.1.30 31286 1kg0C 136 5.96e+01 d.169.1.1 72445 2c8vA 288 5.97e+01 1c0aA 585 5.99e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1xznA 179 6.06e+01 1v7pC 200 6.11e+01 c.62.1.1 108408 1eetA 557 6.14e+01 1rthA c.55.3.1,e.8.1.2 33608,43078 1w1iE 357 6.27e+01 c.1.9.1 109051 1q2lA 939 6.28e+01 1n3yA 198 6.28e+01 c.62.1.1 79976 1rp4A 389 6.31e+01 a.227.1.1 105027 1vheA 373 6.33e+01 b.49.3.1,c.56.5.4 100669,100670 1hizA 379 6.39e+01 c.1.8.3 65841 1aoxA 203 6.40e+01 1aoxA c.62.1.1 34151 2gf6A 135 6.44e+01 1hmvA 560 6.45e+01 1rthA c.55.3.1,e.8.1.2 33587,43046 1hniA 558 6.50e+01 1rthA c.55.3.1,e.8.1.2 33586,43044 1b24A 188 6.50e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1pv9A 348 6.56e+01 c.55.2.1,d.127.1.1 95157,95158 2reb 352 6.68e+01 2reb c.37.1.11,d.48.1.1 32282,38767 1rypA 243 6.82e+01 1pmaA d.153.1.4 41932 2ewtA 71 6.82e+01 1vkmA 297 6.85e+01 c.138.1.1 108670 2a35A 215 6.87e+01 1ffa 214 6.89e+01 1cex c.69.1.30 31289 1u94A 356 6.95e+01 c.37.1.11,d.48.1.1 107743,107744 1qrdA 273 7.20e+01 1d4aA c.23.5.3 31217 1jh6A 189 7.20e+01 d.61.1.1 66707 1r85A 379 7.28e+01 c.1.8.3 104839 1n9lA 109 7.31e+01 d.110.3.6 85468 1pt6A 213 7.34e+01 c.62.1.1 95091 1y7rA 133 7.44e+01 1xviA 275 7.46e+01 1d9tA 289 7.48e+01 1deaA 1fjgD 209 7.57e+01 1c05A d.66.1.2 39553 1hniB 427 7.60e+01 1rthA e.8.1.2 43045 2polA 366 7.61e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 1r8gA 372 7.64e+01 d.128.1.3 104845 1gxjA 186 7.70e+01 d.215.1.1 70707 1fkoA 543 7.74e+01 1rthA c.55.3.1,e.8.1.2 33612,43094 1wvfA 520 7.82e+01 1cg2A 393 7.84e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1rpjA 288 7.88e+01 2dri c.93.1.1 35656 1cnt3 187 8.01e+01 1cnt3 1t5bA 201 8.03e+01 c.23.5.3 106433 1yz7A 188 8.06e+01 1h6hA 143 8.23e+01 d.189.1.1 65681 1gy7A 125 8.23e+01 d.17.4.2 70738 1xa3A 437 8.28e+01 1jl0A 334 8.34e+01 1jenA d.156.1.1 63155 1vkyA 347 8.36e+01 e.53.1.1 108696 1u0mA 382 8.36e+01 c.95.1.2,c.95.1.2 107557,107558 1ujmA 342 8.52e+01 1et9A 204 8.55e+01 1an8 b.40.2.2,d.15.6.1 25204,37793 1yvkA 163 8.62e+01 1nm2A 317 8.66e+01 c.19.1.1,d.58.23.1 80654,80655 1g2iA 166 8.71e+01 1g2iA c.23.16.2 31438 1uy4A 145 8.88e+01 b.18.1.10 108131 1fztA 211 8.91e+01 1qhfA c.60.1.1 60158 1ne7A 289 8.94e+01 c.124.1.1 91833