# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1h2vC 771 5.83e-02 a.118.1.2 76592 a.118.1.2 76593 a.118.1.2 76594 1h6kA 757 2.25e-01 a.118.1.2 60675 a.118.1.2 60676 a.118.1.2 60677 1gw5B 591 3.01e-01 a.118.1.10 70630 1cjaA 342 4.15e-01 1cjaA d.144.1.3 41708 1qbkB 890 5.03e-01 1qbkB a.118.1.1 19127 1fkmA 396 5.12e-01 1fkmA a.69.2.1 18315 a.69.2.1 18316 6cts 433 8.68e-01 1csh a.103.1.1 18891 1n1bA 549 9.88e-01 a.102.4.1 79799 a.128.1.3 79800 1pw4A 451 9.95e-01 1kqfC 217 1.03e+00 f.21.1.1 72874 1gw9A 388 1.34e+00 c.1.15.3 70658 1mhyB 395 1.34e+00 1mtyB a.25.1.2 16781 1pu6A 218 1.48e+00 1mnzA 388 1.51e+00 c.1.15.3 79328 1oahA 519 1.53e+00 a.138.1.3 86736 4xis 387 1.83e+00 4xis c.1.15.3 29421 1xis 387 1.86e+00 4xis c.1.15.3 29422 1jcqA 382 1.97e+00 a.118.6.1 66504 1lnh 857 1.99e+00 1yge a.119.1.1 19237 b.12.1.1 23637 2xis 387 2.08e+00 4xis c.1.15.3 29427 1ld8A 382 2.10e+00 a.118.6.1 73838 1qjbA 245 2.43e+00 1qjaA a.118.7.1 19202 1ezfA 340 2.44e+00 1ezfA a.128.1.2 19440 3xis 387 2.92e+00 4xis c.1.15.3 29423 2pflA 759 3.14e+00 1cm5A c.7.1.1 30675 1csc 433 3.16e+00 1csh a.103.1.1 18886 1j4nA 271 3.40e+00 f.19.1.1 71510 1qhbA 596 3.58e+00 1qhbA a.111.1.2 19055 1avc 673 3.82e+00 1avc a.65.1.1 18178 a.65.1.1 18179 1t7pA 698 3.83e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 1mhyG 169 4.04e+00 1mtyG a.23.3.1 16518 1keyA 235 4.19e+00 a.118.16.1 72389 1ihgA 370 4.20e+00 2cpl a.118.8.1 62380 b.62.1.1 62381 1tn6A 382 4.27e+00 1h16A 759 4.72e+00 c.7.1.1 76462 1hmcB 148 4.74e+00 1hmcB a.26.1.2 16868 2bidA 197 4.85e+00 2bidA f.1.4.1 43398 1b9zA 516 5.06e+00 1b9zA b.3.1.1 22528 c.1.8.1 28798 1eupA 403 5.12e+00 1rom a.104.1.1 18967 1dofA 403 5.43e+00 1c3cA a.127.1.1 19429 1is2A 661 5.47e+00 a.29.3.2 71382 a.29.3.2 71383 e.6.1.2 71384 1itcA 516 5.69e+00 b.3.1.1 83705 c.1.8.1 83706 1muwA 386 5.73e+00 c.1.15.3 79495 1dnpA 471 5.78e+00 1qnf a.99.1.1 18775 c.28.1.1 31630 1be3C 379 5.83e+00 1be3C f.32.1.1 75805 f.21.1.2 75806 1jipA 403 5.97e+00 a.104.1.1 66748 1x9mA 698 6.39e+00 1b77A 228 6.39e+00 1b77A d.131.1.2 41362 d.131.1.2 41363 3pflA 759 6.40e+00 1cm5A c.7.1.1 30673 1e8yA 966 6.60e+00 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1pzlA 237 7.27e+00 1qjaA 245 7.32e+00 1qjaA a.118.7.1 19204 1l2tA 235 7.40e+00 c.37.1.12 73514 1iapA 211 7.45e+00 a.91.1.1 62119 1hmcA 148 7.67e+00 1hmcB a.26.1.2 16867 1cm5A 759 7.79e+00 1cm5A c.7.1.1 30671 3crxA 343 7.88e+00 4crxA a.60.9.1 18101 d.163.1.1 42161 1j0mA 752 8.05e+00 a.102.3.2 83910 b.24.1.1 83911 b.30.5.2 83912 1fjgD 209 8.45e+00 1c05A d.66.1.2 39553 1yge 839 8.50e+00 1yge a.119.1.1 19234 b.12.1.1 23634 1up8A 598 8.72e+00 1kbuA 349 8.98e+00 a.60.9.1 72284 d.163.1.1 72285 1q52A 314 9.16e+00 1dugA 234 9.40e+00 1b8xA a.45.1.1 17718 c.47.1.5 33012 1a8b 318 9.66e+00 1avc a.65.1.1 18171 1e7uA 961 9.67e+00 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1fgqA 839 9.75e+00 1yge a.119.1.1 59826 b.12.1.1 59827 1h3nA 878 1.03e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1amz 435 1.05e+01 1csh a.103.1.1 18884 1ft1A 377 1.06e+01 1ft1A a.118.6.1 19186 1iqrA 420 1.06e+01 a.99.1.1 66275 c.28.1.1 66276 1sly 618 1.07e+01 1qsaA a.118.5.1 19184 d.2.1.6 36990 2ran 316 1.07e+01 1avc a.65.1.1 18170 1d8dA 377 1.09e+01 1ft1A a.118.6.1 19185 1f8nA 839 1.11e+01 1yge a.119.1.1 59703 b.12.1.1 59704 4crxA 322 1.13e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1fvzA 271 1.13e+01 1fvzA d.129.3.4 60050 1j78A 458 1.13e+01 a.126.1.1 66397 a.126.1.1 66398 a.126.1.1 66399 2dri 271 1.22e+01 2dri c.93.1.1 35637 1b43A 340 1.25e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 2pgd 482 1.25e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1u19A 349 1.26e+01 1a76 326 1.26e+01 1a76 a.60.7.1 18091 c.120.1.2 33361 1ls6A 295 1.29e+01 1n5uA 585 1.30e+01 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1so2A 420 1.32e+01 1jb0A 755 1.36e+01 1jb0A f.29.1.1 62820 1s2xA 206 1.37e+01 1csh 435 1.45e+01 1csh a.103.1.1 18880 1l7vA 326 1.50e+01 f.22.1.1 73672 1a0jA 223 1.51e+01 5ptp b.47.1.2 26002 1aurA 218 1.54e+01 1auoA c.69.1.14 34718 1jcrA 377 1.58e+01 a.118.6.1 66506 1ha2A 585 1.66e+01 1bj5 a.126.1.1 60866 a.126.1.1 60867 a.126.1.1 60868 1crxA 322 1.69e+01 4crxA a.60.9.1 18097 d.163.1.1 42157 1gaxA 862 1.69e+01 1gaxA a.2.7.3 75842 a.27.1.1 75843 b.51.1.1 26893 c.26.1.1 31595 1auoA 218 1.73e+01 1auoA c.69.1.14 34716 1ovlA 271 1.77e+01 a.123.1.1 87455 1cnsA 243 1.81e+01 1cnsA d.2.1.1 36241 1ea3A 164 1.82e+01 1aa7A a.95.1.1 59398 1eguA 731 1.82e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.5.2 24423 1j1jA 240 1.86e+01 1xsm 390 1.86e+01 1xsm a.25.1.2 16804 1mmoG 162 1.87e+01 1mtyG a.23.3.1 16512 1nvmA 345 1.88e+01 a.5.7.1 86249 c.1.10.5 86250 1dpjA 329 1.96e+01 1smrA b.50.1.2 26828 1b8xA 280 1.97e+01 1b8xA a.45.1.1 17739 c.47.1.5 33033 1i4lA 224 2.00e+01 1i49A h.4.7.1 61718 1aw9 216 2.04e+01 1gnwA a.45.1.1 17736 c.47.1.5 33030 1mctA 223 2.08e+01 5ptp b.47.1.2 25961 1n7oA 721 2.10e+01 a.102.3.2 80259 b.24.1.1 80260 b.30.5.2 80261 1wmdA 434 2.11e+01 1buqA 125 2.12e+01 1opy d.17.4.3 38111 1ofcX 304 2.13e+01 1clqA 903 2.13e+01 1clqA c.55.3.5 33717 e.8.1.1 43006 1nvvS 481 2.16e+01 a.117.1.1 86279 1amoA 615 2.18e+01 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1o86A 589 2.18e+01 d.92.1.5 81177 1j8rA 196 2.20e+01 1j8rA b.2.3.3 62745 1aa7A 158 2.24e+01 1aa7A a.95.1.1 18741 1k47A 337 2.24e+01 d.14.1.5 72040 d.58.26.4 72041 1a8a 318 2.26e+01 1avc a.65.1.1 18169 6prcM 323 2.29e+01 6prcM f.26.1.1 43435 1jk0B 345 2.29e+01 a.25.1.2 63143 1oi2A 366 2.31e+01 c.32.1.2 87039 d.79.2.2 87040 1kcmA 270 2.31e+01 d.129.3.4 72300 1dxjA 242 2.32e+01 1cnsA d.2.1.1 36244 1mtyG 162 2.33e+01 1mtyG a.23.3.1 16498 1ujnA 348 2.34e+01 1dxrM 323 2.37e+01 6prcM f.26.1.1 43432 1uzeA 589 2.41e+01 1s83A 223 2.42e+01 1qi9A 556 2.43e+01 1qhbA a.111.1.2 19053 1ih7A 903 2.45e+01 1clqA c.55.3.5 62375 e.8.1.1 62376 1rr7A 129 2.47e+01 1g5aA 628 2.49e+01 b.71.1.1 65152 c.1.8.1 65153 1d6mA 653 2.53e+01 1d6mA e.10.1.1 43248 1fniA 223 2.54e+01 5ptp b.47.1.2 25962 1kiyA 374 2.80e+01 a.128.1.5 72555 1qsaA 618 2.80e+01 1qsaA a.118.5.1 19182 d.2.1.6 36988 1nrfA 262 2.80e+01 1bj5 585 2.85e+01 1bj5 a.126.1.1 19369 a.126.1.1 19370 a.126.1.1 19371 1lrv 244 2.87e+01 1lrv a.118.1.5 19146 1mzeA 351 2.88e+01 b.82.2.6 79694 2baa 243 2.89e+01 1cnsA d.2.1.1 36243 1j99A 293 2.91e+01 c.37.1.5 71618 1lxkA 721 2.94e+01 a.102.3.2 74331 b.24.1.1 74332 b.30.5.2 74333 1l9hA 349 2.98e+01 f.13.1.2 73720 1tdpA 111 3.03e+01 1iv8A 720 3.03e+01 b.71.1.1 76842 c.1.8.1 76843 1oxa 403 3.04e+01 1f4tA a.104.1.1 18965 1aisB 200 3.07e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1eh9A 558 3.14e+01 1ehaA b.1.18.2 21858 b.71.1.1 27785 c.1.8.1 28772 1h4wA 224 3.22e+01 b.47.1.2 65622 1pot 325 3.24e+01 1pot c.94.1.1 35807 1e3oC 160 3.26e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1hzxA 349 3.33e+01 1f88A f.13.1.2 61466 3lynA 136 3.35e+01 1lis a.19.1.1 16413 1vljA 407 3.37e+01 1fyhA 258 3.42e+01 1d9cA a.26.1.3 16907 a.26.1.3 16908 1fm2A 169 3.49e+01 1fm2A d.153.1.2 59877 1dcnD 436 3.50e+01 1auwA a.127.1.1 19423 1be3D 241 3.50e+01 1be3D a.3.1.3 15955 f.23.11.1 43666 1mxmA 254 3.55e+01 b.38.1.3 79647 d.58.43.1 79648 f.34.1.1 79649 1fcdC 174 3.57e+01 1fcdC a.3.1.4 15966 a.3.1.4 15967 1ja1A 622 3.60e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1h2kA 349 3.60e+01 b.82.2.6 76572 1br2A 791 3.64e+01 1lvk b.34.3.1 24558 c.37.1.9 32155 1h7eA 245 3.67e+01 c.68.1.13 60717 1ichA 112 3.74e+01 a.77.1.2 71182 1ehkA 562 3.82e+01 1ehkA f.24.1.1 43624 1s9uA 207 3.86e+01 1jgjA 217 3.88e+01 1c3wA f.13.1.1 62952 1w68A 390 3.90e+01 1rh2F 165 3.96e+01 1rh2F a.26.1.3 16898 1i5nA 146 3.97e+01 1i5nA a.24.10.3 61805