# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 1xqaA 113 9.11e-01 2gfgA 193 9.46e-01 1w25A 459 1.05e+00 1mp9A 198 1.58e+00 d.129.1.1,d.129.1.1 91385,91386 1b76A 442 1.63e+00 1atiA c.51.1.1,d.104.1.1 33198,40747 1atiB 505 1.74e+00 1atiA c.51.1.1,d.104.1.1 33197,40746 1jdqA 98 2.18e+00 d.68.3.3 66559 1atiA 505 2.37e+00 1atiA c.51.1.1,d.104.1.1 33196,40745 1ckv 141 2.44e+00 1ckv d.137.1.1 41452 1nx8A 273 2.48e+00 b.82.2.8 86374 1e1dA 553 2.74e+00 1e1dA e.26.1.1 43363 1gntA 553 3.05e+00 e.26.1.1 70290 1e2uA 553 3.08e+00 1e1dA e.26.1.1 43362 1v6tA 255 4.03e+00 1c2pA 576 4.33e+00 1quvA e.8.1.4 43117 1y2qA 143 4.95e+00 1vetB 125 5.24e+00 d.110.7.1 108554 1wqaA 455 5.55e+00 1ymqA 261 5.82e+00 1vgjA 184 5.83e+00 1wy7A 207 5.97e+00 1pvgA 418 6.00e+00 d.14.1.3,d.122.1.2 95161,95162 1ockA 412 6.12e+00 c.117.1.1 86802 1quvA 578 7.31e+00 1quvA e.8.1.4 43119 1k5dC 386 7.71e+00 c.10.1.2 68170 1sesA 421 7.93e+00 1sesA a.2.7.1,d.104.1.1 15710,40710 1v5vA 401 8.03e+00 1gudA 288 8.15e+00 c.93.1.1 83326 1qupA 222 8.24e+00 1qupA b.1.8.1,d.58.17.1 22301,39352 1j8yF 297 8.38e+00 1ng1 a.24.13.1,c.37.1.10 62747,62748 1zin 217 8.48e+00 1zin c.37.1.1,g.41.2.1 31915,45178 1yrgB 385 8.82e+00 1yrgA c.10.1.2 30855 1a8p 258 9.10e+00 1fdr b.43.4.2,c.25.1.1 25654,31544 1s69A 124 9.29e+00 a.1.1.1 105305 1uroA 367 9.34e+00 1uroA c.1.22.1 29675 1dlyA 164 9.77e+00 1dlyA a.1.1.1 14983 2ca6A 386 9.89e+00 1ofuA 320 1.01e+01 c.32.1.1,d.79.2.1 86972,86973 1dloA 556 1.01e+01 1rthA c.55.3.1,e.8.1.2 33584,43040 1skoB 130 1.02e+01 d.110.7.1 105677 2bb6A 414 1.07e+01 1gnlA 544 1.10e+01 e.26.1.1 70287 1bqnB 430 1.12e+01 1rthA e.8.1.2 43065 1hmvA 560 1.12e+01 1rthA c.55.3.1,e.8.1.2 33587,43046 1fk9A 543 1.12e+01 1rthA c.55.3.1,e.8.1.2 33607,43080 1vrtA 560 1.12e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1rtxA 123 1.13e+01 a.1.1.1 97827 1rthA 560 1.19e+01 1rthA c.55.3.1,e.8.1.2 33576,43028 1x13A 401 1.20e+01 1jayA 212 1.21e+01 c.2.1.6 66478 1yrgA 385 1.22e+01 1yrgA c.10.1.2 30854 1vmbA 140 1.24e+01 1hizA 379 1.25e+01 c.1.8.3 65841 1r3sA 367 1.27e+01 c.1.22.1 96963 1fx2A 235 1.32e+01 1fx2A d.58.29.1 39430 1gx5A 536 1.32e+01 e.8.1.4 70682 2hmiA 558 1.32e+01 1rthA c.55.3.1,e.8.1.2 33604,43106 1zip 217 1.37e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1ufkA 254 1.40e+01 c.66.1.39 99340 1wvfA 520 1.40e+01 1jaxA 212 1.41e+01 c.2.1.6 66476 1vdxA 184 1.43e+01 1kmmA 424 1.46e+01 1adjA c.51.1.1,d.104.1.1 33174,40723 1httA 423 1.51e+01 1adjA c.51.1.1,d.104.1.1 33178,40727 1tqjA 230 1.55e+01 c.1.2.2 107228 1nonA 179 1.56e+01 c.61.1.1 103868 1wvcA 259 1.59e+01 1us5A 314 1.65e+01 c.94.1.1 99856 1ionA 243 1.86e+01 c.37.1.10 62633 1fj7A 101 1.92e+01 1fj7A d.58.7.1 39209 1bt4A 362 1.93e+01 1bjnA c.67.1.4 34468 1csjA 531 2.02e+01 1quvA e.8.1.4 43120 1tzfA 259 2.02e+01 c.68.1.13 107476 1vhiA 142 2.02e+01 1b3tA d.58.8.1 39230 1e25A 282 2.20e+01 1e25A e.3.1.1 42731 1xznA 179 2.23e+01 1hniA 558 2.25e+01 1rthA c.55.3.1,e.8.1.2 33586,43044 1dttA 560 2.27e+01 1rthA c.55.3.1,e.8.1.2 33611,43088 1cnt3 187 2.30e+01 1cnt3 1tzjA 338 2.33e+01 1bqnA 558 2.35e+01 1rthA c.55.3.1,e.8.1.2 33599,43064 1aznA 128 2.38e+01 1nwpA b.6.1.1 23003 2cdnA 201 2.39e+01 1ka1A 357 2.42e+01 e.7.1.1 68369 1qgxA 357 2.44e+01 1qgxA e.7.1.1 42973 1eetA 557 2.45e+01 1rthA c.55.3.1,e.8.1.2 33608,43078 1rpjA 288 2.45e+01 2dri c.93.1.1 35656 1b5eA 246 2.50e+01 1b5eA d.117.1.1 41056 1cnt1 187 2.56e+01 1cnt3 1pczA 191 2.66e+01 1ytbA d.129.1.1,d.129.1.1 41292,41293 1tvlA 454 2.72e+01 c.1.16.4 107366 1iae 200 2.76e+01 1iae d.92.1.8 40311 1d3uA 181 2.77e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1vimA 200 2.85e+01 c.80.1.3 100758 1cc8A 73 2.86e+01 1cc8A d.58.17.1 39343 1n3yA 198 2.86e+01 c.62.1.1 79976 1ast 200 2.87e+01 1iae d.92.1.8 40310 1iab 200 2.87e+01 1iae d.92.1.8 40312 1bj4A 470 2.87e+01 1bj4A c.67.1.4 34479 1fyeA 229 2.88e+01 1fyeA c.23.16.4 31477 1rv3A 483 2.92e+01 c.67.1.4 105101 1rpxA 230 2.96e+01 1rpxA c.1.2.2 28536 1fkoA 543 2.96e+01 1rthA c.55.3.1,e.8.1.2 33612,43094 1u14A 172 2.99e+01 c.51.4.3 107579 1jkeA 145 3.02e+01 c.110.1.1 66791 2bjiA 277 3.05e+01 1w3uA 362 3.05e+01 1lfpA 249 3.06e+01 e.39.1.1 73885 1c9bB 180 3.07e+01 1ytbA d.129.1.1,d.129.1.1 41216,41217 1u02A 239 3.10e+01 c.108.1.15 107538 1q9jA 422 3.12e+01 c.43.1.2,c.43.1.2 104590,104591 1o59A 355 3.16e+01 b.18.1.22,b.18.1.22 92495,92496 1ow1A 195 3.23e+01 b.131.1.3 93625 1aisA 182 3.23e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1xtqA 177 3.24e+01 1c1bB 440 3.26e+01 1rthA e.8.1.2 43077 1q2lA 939 3.32e+01 1qhtA 775 3.35e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1dtwB 342 3.36e+01 1qs0B c.36.1.7,c.48.1.2 31828,33102 2fuvA 549 3.37e+01 1h75A 81 3.43e+01 1h75A c.47.1.1 60716 1fy2A 229 3.45e+01 1fyeA c.23.16.4 31478 1qysA 106 3.48e+01 k.41.1.1 96603 1rzmA 338 3.58e+01 c.1.10.4 105137 1vpjA 192 3.71e+01 1w66A 232 3.71e+01 2reb 352 3.76e+01 2reb c.37.1.11,d.48.1.1 32282,38767 1gcb 454 3.81e+01 3gcb d.3.1.1 37034 1d9eA 284 3.81e+01 1d9eA c.1.10.4 29195 1qtoA 122 3.83e+01 1bylA d.32.1.2 38494 1cg2A 393 3.83e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1kv7A 488 3.85e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1b3tA 147 3.87e+01 1b3tA d.58.8.1 39228 1qs0B 338 3.87e+01 1qs0B c.36.1.7,c.48.1.2 31830,33103 1q5qA 259 3.94e+01 d.153.1.4 95904 1tplA 426 3.98e+01 1ax4A c.67.1.2 34387 1wy2A 351 4.00e+01 2c0rA 362 4.11e+01 1kyqA 274 4.15e+01 c.2.1.11,e.37.1.1 73281,73282 1b24A 188 4.25e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1pt6A 213 4.26e+01 c.62.1.1 95091 1j98A 157 4.38e+01 1j98A d.185.1.2 62755 2ci1A 275 4.48e+01 1gheA 177 4.57e+01 d.108.1.1 76222 2amyA 246 4.68e+01 1adjA 421 4.68e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1gwyA 175 4.69e+01 b.97.1.1 83356 1vr6A 350 4.69e+01 2atxA 194 4.73e+01 1ugjA 141 4.81e+01 b.41.1.3 107826 1rp4A 389 4.88e+01 a.227.1.1 105027 1o89A 345 4.91e+01 b.35.1.2,c.2.1.1 92644,92645 1u9iA 519 4.93e+01 2f4nA 273 4.94e+01 1fx4A 231 4.98e+01 1fx2A d.58.29.1 39431 1p3jA 217 5.09e+01 c.37.1.1,g.41.2.1 94022,94023 1z92B 219 5.21e+01 1tns 76 5.22e+01 1qpmA a.6.1.7 16228 2gf6A 135 5.25e+01 1h4vB 421 5.28e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1ipiA 123 5.31e+01 c.52.1.18 66255 1u94A 356 5.41e+01 c.37.1.11,d.48.1.1 107743,107744 1aod 289 5.47e+01 2plc c.1.18.2 29615 2acvA 463 5.55e+01 1g5hA 454 5.63e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1vdc 333 5.64e+01 1trb c.3.1.5,c.3.1.5 30545,30546 1fd8A 73 5.67e+01 1cc8A d.58.17.1 59770 1kmnD 424 5.72e+01 1adjA c.51.1.1,d.104.1.1 33185,40734 1kanA 253 5.75e+01 1knyA a.24.16.1,d.218.1.1 75878,75879 2dbbA 151 5.82e+01 1louA 101 5.89e+01 1ris d.58.14.1 39323 1xzoA 174 5.98e+01 1tgoA 773 6.00e+01 1tgoA c.55.3.5,e.8.1.1 33721,43010 1gefA 123 6.02e+01 1gefA c.52.1.18 60465 1hniB 427 6.02e+01 1rthA e.8.1.2 43045 1avyA 74 6.07e+01 1avyB h.1.17.1 45656 1ne2A 200 6.14e+01 c.66.1.32 85586 2asfA 137 6.25e+01 2bfdB 345 6.27e+01 1usgA 346 6.39e+01 c.93.1.1 99864 2ft6A 124 6.39e+01 1ris 101 6.55e+01 1ris d.58.14.1 39314 1olsB 342 6.57e+01 c.36.1.7,c.48.1.2 93332,93333 1knyA 253 6.60e+01 1knyA a.24.16.1,d.218.1.1 75896,75897 1v1rB 342 6.62e+01 c.36.1.7,c.48.1.2 108273,108274 1ywzA 175 6.65e+01 3gcb 470 6.68e+01 3gcb d.3.1.1 37032 1twuA 139 6.75e+01 d.32.1.8 107413 1r8gA 372 6.77e+01 d.128.1.3 104845 1e8pA 46 6.86e+01 g.55.1.1 59385 1azrA 128 6.90e+01 1nwpA b.6.1.1 22983 1h5yA 253 6.92e+01 c.1.2.1 65638 1y1pA 342 6.93e+01 2b4gA 317 6.94e+01 1zetA 388 6.98e+01 1x7yB 342 7.05e+01 1ewjA 126 7.06e+01 1ecsA d.32.1.2 59526 1ju2A 536 7.09e+01 c.3.1.2,d.16.1.1 77169,77170 1g0uG 252 7.10e+01 d.153.1.4 41952 1fjeB 175 7.18e+01 1fj7A d.58.7.1,d.58.7.1 39210,39211 1vp8A 201 7.19e+01 1jg1A 235 7.20e+01 c.66.1.7 66661 1ujmA 342 7.36e+01 1jyhA 157 7.40e+01 d.60.1.3 71956 1ytbA 180 7.45e+01 1ytbA d.129.1.1,d.129.1.1 41276,41277 1qrdA 273 7.48e+01 1d4aA c.23.5.3 31217 1sr4B 261 7.51e+01 d.151.1.1 105949 1i88A 389 7.52e+01 c.95.1.2,c.95.1.2 66070,66071 2plc 274 7.53e+01 2plc c.1.18.2 29614 1dgjA 907 7.54e+01 1alo a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 17909,37694,38585,41415 2bh9A 489 7.55e+01 1fjgI 128 7.57e+01 1fjfI d.14.1.1 37559 1hd2A 161 7.64e+01 c.47.1.10 60962 1c0aA 585 7.65e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1ebdC 41 7.75e+01 1ebdC a.9.1.1 16355 1ur5A 309 7.80e+01 c.2.1.5,d.162.1.1 99807,99808 1js3A 486 7.85e+01 c.67.1.6 67215 1aa0 113 7.86e+01 1aa0 h.1.17.1 45659 1avyB 74 7.87e+01 1avyB h.1.17.1 45657 1x67A 146 7.97e+01 1dq3A 454 8.03e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1ymkA 175 8.07e+01 1v37A 177 8.17e+01 1fmaE 150 8.28e+01 1fmaE d.41.5.1 38630 1rzrA 332 8.34e+01 1lqpA 135 8.38e+01 d.32.1.2 78151 1kwhA 492 8.43e+01 c.94.1.1 68876 1tbaB 180 8.44e+01 1ytbA d.129.1.1,d.129.1.1 41286,41287 1fm0E 150 8.47e+01 1fmaE d.41.5.1 38629 1yx0A 159 8.52e+01 1vkmA 297 8.52e+01 c.138.1.1 108670 1tikA 213 8.54e+01 c.23.5.3 107003 1j1nA 492 8.56e+01 c.94.1.1 83978 1w19A 160 8.60e+01 1xb3A 128 8.61e+01 1qc5A 192 8.62e+01 1aoxA c.62.1.1 34147 1kczA 413 8.63e+01 c.1.11.2,d.54.1.1 68451,68452 1zyeA 220 8.67e+01 1jh6A 189 8.68e+01 d.61.1.1 66707 1vixA 420 8.68e+01 c.56.5.4,d.58.19.1 100777,100778 1yvkA 163 8.72e+01 1aoxA 203 8.75e+01 1aoxA c.62.1.1 34151 1sqiA 393 8.79e+01 d.32.1.3,d.32.1.3 105914,105915 2c8vA 288 8.86e+01 2a2kA 175 8.90e+01 1uf2A 1019 8.97e+01 e.28.1.2 99289