# List of top-scoring protein chains for t2k-100-30-dssp_ehl2 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 1bouB 302 7.96e-03 1bouB c.56.6.1 33859 1dciA 275 1.40e-02 1dciA c.14.1.3 30918 1xxbA 78 1.84e-01 1xxaA d.74.2.1 39706 1fds 327 1.86e-01 1fds c.2.1.2 29838 1fxkC 133 1.90e-01 1fxkC a.2.5.1 15702 1a27 289 2.05e-01 1fds c.2.1.2 29839 1xxaA 78 2.23e-01 1xxaA d.74.2.1 39700 1fdt 327 3.36e-01 1fds c.2.1.2 29841 1xxcA 78 4.39e-01 1xxaA d.74.2.1 39712 1l2rA 458 4.71e-01 1l2qA 458 4.76e-01 1dysA 348 6.12e-01 1bvwA c.6.1.1 30669 1c3pA 375 6.30e-01 1c3pA c.42.1.2 32606 1fjgI 128 7.88e-01 1fjfI d.14.1.1 37559 1ej2A 181 9.57e-01 1f9aA c.26.1.3 59414 1qe5A 266 1.00e+00 1b8oA c.56.2.1 33784 1mroB 442 1.04e+00 1mroB a.89.1.1 18531 d.58.31.2 39449 1h7xC 1025 1.66e+00 a.1.2.2 15689 c.1.4.1 28634 c.3.1.1 30330 c.4.1.1 30615 d.58.1.5 39013 1h7xD 1025 1.69e+00 a.1.2.2 15690 c.1.4.1 28635 c.3.1.1 30331 c.4.1.1 30616 d.58.1.5 39014 1h7xB 1025 1.70e+00 a.1.2.2 15688 c.1.4.1 28633 c.3.1.1 30329 c.4.1.1 30614 d.58.1.5 39012 1h7wB 1025 1.70e+00 a.1.2.2 15684 c.1.4.1 28629 c.3.1.1 30325 c.4.1.1 30610 d.58.1.5 39008 1h7wD 1025 1.71e+00 a.1.2.2 15686 c.1.4.1 28631 c.3.1.1 30327 c.4.1.1 30612 d.58.1.5 39010 1h7xA 1025 1.78e+00 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 1kamA 194 1.79e+00 1gteA 1025 1.79e+00 1ek0A 170 2.13e+00 1ctqA c.37.1.8 32076 1hbnB 442 2.21e+00 1mroB a.89.1.1 60900 d.58.31.2 60901 1g2oA 268 2.23e+00 1b8oA c.56.2.1 60228 1ceqA 316 2.24e+00 1ceqA c.2.1.5 30163 d.162.1.1 42130 2gsaA 432 2.59e+00 2gsaA c.67.1.4 34446 6paxA 133 2.77e+00 6paxA a.4.1.5 64758 a.4.1.5 64759 1dtdA 303 2.88e+00 1aye c.56.5.1 33823 1gteD 1025 2.95e+00 1gthA 1025 2.99e+00 1gthD 1025 3.04e+00 1gthB 1025 3.07e+00 1gthC 1025 3.12e+00 1h7wA 1025 3.18e+00 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1gt8B 1025 3.61e+00 1gg1A 350 3.65e+00 1qr7A c.1.10.4 29187 1hrdA 449 3.78e+00 1k89 c.2.1.7 30219 c.58.1.1 33867 1qopA 268 4.03e+00 2tysA c.1.2.4 28570 1qnf 484 4.22e+00 1qnf a.99.1.1 18777 c.28.1.1 31632 1i86A 389 4.27e+00 c.95.1.2 66068 c.95.1.2 66069 1bksA 268 4.38e+00 2tysA c.1.2.4 28585 1i88A 389 4.48e+00 c.95.1.2 66070 c.95.1.2 66071 1bi5A 389 4.49e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1a6f 119 4.68e+00 1a6f d.14.1.2 37564 1fmcA 255 4.96e+00 1cydA c.2.1.2 29856 1gt8D 1025 5.97e+00 1gt8A 1025 6.07e+00 1aye 401 6.22e+00 1aye c.56.5.1 33824 d.58.3.1 39065 1tdj 514 6.44e+00 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1qo7A 394 6.67e+00 1qo7A c.69.1.11 34697 1i5nA 146 6.71e+00 1i5nA a.24.10.3 61805 1hufA 140 7.08e+00 1hufA d.195.1.1 61272 1kl9A 182 7.26e+00 1oatA 439 7.63e+00 2dkb c.67.1.4 34461 1gs5A 258 7.66e+00 1fs5A 266 7.66e+00 c.35.1.1 65044 2tysA 268 7.70e+00 2tysA c.1.2.4 28572 1gt8C 1025 7.92e+00 1dqnA 230 7.98e+00 1dqnA c.61.1.1 34067 1bk7A 190 8.03e+00 1bk7A d.124.1.1 41121 1deaA 266 8.18e+00 1deaA c.35.1.1 31760 1dqpA 230 8.26e+00 1dqnA c.61.1.1 34069 1brwA 433 8.82e+00 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1qgpA 77 8.84e+00 1qbjA a.4.5.19 16158 1bgvA 449 8.85e+00 1k89 c.2.1.7 30217 c.58.1.1 33865 1dcfA 136 8.87e+00 1dcfA c.23.1.2 31124 2tysB 397 8.98e+00 2tysB c.79.1.1 35272 1atzA 189 9.03e+00 1atzA c.62.1.1 34132 1atzB 189 9.03e+00 1atzA c.62.1.1 34133 1jndA 420 9.28e+00 1k89 449 9.35e+00 1k89 c.2.1.7 30218 c.58.1.1 33866 1cor 82 9.36e+00 451c a.3.1.1 15903 1dixA 208 9.71e+00 1bk7A d.124.1.1 41122 1qusA 322 9.76e+00 1ltm d.2.1.6 36991 1j96A 323 1.02e+01 1dgkN 917 1.02e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1php 394 1.03e+01 16pk c.86.1.1 35452 1fsfA 266 1.07e+01 c.35.1.1 65047 1ltm 320 1.10e+01 1ltm d.2.1.6 36992 5eau 548 1.11e+01 5eat a.102.4.1 18851 a.128.1.3 19443 1htwA 158 1.16e+01 1aihA 170 1.21e+01 1aihA d.163.1.1 42149 1d2zB 153 1.22e+01 1d2zB a.77.1.1 18439 1bt4A 362 1.22e+01 1bjnA c.67.1.4 34468 1czaN 917 1.25e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1ef8A 261 1.34e+01 1ef8A c.14.1.3 30921 1mjhA 162 1.35e+01 1mjhA c.29.1.2 31639 1fwxA 595 1.38e+01 b.6.1.4 60069 b.69.3.1 60070 2cevA 299 1.39e+01 1d3vA c.42.1.1 32576 1gklA 297 1.40e+01 c.69.1.2 65250 1ex1A 605 1.40e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 1ppt 36 1.41e+01 1ppt j.6.1.1 46089 1hyt 316 1.43e+01 1hyt d.92.1.2 59005 6tmnE 316 1.43e+01 1hyt d.92.1.2 59071 8tlnE 316 1.43e+01 1hyt d.92.1.2 59075 1iexA 605 1.44e+01 c.1.8.7 66127 c.23.11.1 66128 1l7vC 249 1.45e+01 2tmnE 316 1.48e+01 1hyt d.92.1.2 59055 1g99A 408 1.48e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1hkbA 917 1.52e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 2cmd 312 1.55e+01 2cmd c.2.1.5 30135 d.162.1.1 42102 1qhaA 917 1.56e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1e39A 571 1.57e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1ten 90 1.59e+01 1ten b.1.2.1 21990 1qjdA 571 1.61e+01 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1a8s 273 1.61e+01 1brt c.69.1.12 34710 3chbD 104 1.61e+01 3chbD b.40.2.1 24970 1bkjA 240 1.63e+01 1bkjA d.90.1.1 40243 1gkkA 297 1.64e+01 c.69.1.2 65248 2occH 85 1.69e+01 2occH a.51.1.1 17796 1dguA 183 1.74e+01 1dguA a.39.1.5 17333 1ekjB 221 1.75e+01 1ekjB c.53.2.1 33365 1qopB 396 1.76e+01 2tysB c.79.1.1 35270 1ekjA 221 1.78e+01 1ekjB c.53.2.1 33364 1pdo 135 1.81e+01 1pdo c.54.1.1 33376 1eudA 311 1.83e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1wab 232 1.84e+01 1wab c.23.10.3 31341 1ehiA 377 1.84e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1a5j 110 1.86e+01 1a5j a.4.1.3 16043 a.4.1.3 16044 1pymA 295 1.87e+01 1pymA c.1.12.4 29308 1rpmA 278 1.87e+01 2shpA c.45.1.2 32679 1hkcA 917 1.96e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1mjhB 162 1.97e+01 1mjhA c.29.1.2 31640 1es9A 232 1.97e+01 1wab c.23.10.3 31340 1jjfA 268 2.00e+01 c.69.1.2 66765 1kiyA 374 2.01e+01 1thg 544 2.02e+01 1thg c.69.1.17 34763 1jg8A 347 2.02e+01 1jg8A c.67.1.1 62946 1dd3A 128 2.04e+01 1dd3C a.108.1.1 19031 d.45.1.1 38760 1qczA 169 2.07e+01 1qczA c.23.8.1 31276 1uok 558 2.12e+01 1uok b.71.1.1 27801 c.1.8.1 28788 1jgtA 513 2.12e+01 c.26.2.1 66684 d.153.1.1 66685 2scuA 288 2.12e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 2wsyB 396 2.12e+01 2tysB c.79.1.1 35288 2gar 212 2.16e+01 2gar c.65.1.1 34161 1pprM 312 2.17e+01 1pprM a.131.1.1 19502 a.131.1.1 19503 1jfgA 374 2.18e+01 a.128.1.5 66636 1c3yA 108 2.27e+01 1c3yA a.39.2.1 17387 1qniA 581 2.31e+01 1qniA b.6.1.4 23042 b.69.3.1 27642 1e6pA 499 2.32e+01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1k78A 149 2.32e+01 a.4.1.5 68255 a.4.1.5 68256 1ag9A 175 2.34e+01 1rcf c.23.5.1 31178 1lk5A 229 2.38e+01 1repC 251 2.40e+01 1repC a.4.5.10 16125 a.4.5.10 16126 1jjuA 489 2.44e+01 a.3.1.7 66774 a.3.1.7 66775 b.1.1.6 66776 b.1.1.6 66777 b.61.4.1 66778 1bksB 397 2.46e+01 2tysB c.79.1.1 35285 1hyeA 313 2.46e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1jfaA 374 2.53e+01 a.128.1.5 66622 1egaA 301 2.53e+01 1egaA c.37.1.8 32150 d.52.3.1 38836 1f4pA 147 2.57e+01 5nul c.23.5.1 59651 1qtnA 164 2.59e+01 1pauA c.17.1.1 30999 2wsyA 268 2.62e+01 2tysA c.1.2.4 28588 1h8aC 128 2.67e+01 a.4.1.3 65731 a.4.1.3 65732 1j9eA 147 2.69e+01 c.23.5.1 62756 1ek8A 185 2.69e+01 1ek8A d.67.3.1 59444 2fx2 147 2.69e+01 1rcf c.23.5.1 31158 1bu5A 147 2.70e+01 5nul c.23.5.1 31155 1g71A 347 2.71e+01 1g71A e.16.1.1 43268 2gsq 202 2.71e+01 1pd21 a.45.1.1 17715 c.47.1.5 33009 1akr 147 2.71e+01 1rcf c.23.5.1 31152 1gryA 290 2.79e+01 1hr6A 475 2.80e+01 1hr6A d.185.1.1 61164 d.185.1.1 61165 4tmkA 213 2.86e+01 5tmpA c.37.1.1 31930 1e15A 499 2.88e+01 1e15A b.72.2.1 27810 c.1.8.5 29006 d.26.3.1 38440 1igtD 444 2.89e+01 1igtB b.1.1.1 19767 b.1.1.2 20871 b.1.1.2 20872 b.1.1.2 20873 1lgyA 269 2.90e+01 3tgl c.69.1.17 34758 1bmtA 246 2.90e+01 1bmtA a.46.1.1 17757 c.23.6.1 31235 1hlb 158 2.90e+01 1hlb a.1.1.2 15625 1cb2A 365 2.91e+01 1bvwA c.6.1.1 30661 1k4iA 233 2.93e+01 1igtB 444 2.93e+01 1igtB b.1.1.1 19765 b.1.1.2 20867 b.1.1.2 20868 b.1.1.2 20869 1f9aA 168 2.94e+01 1f9aA c.26.1.3 31602 1daqA 71 2.97e+01 1daqA a.139.1.1 59113 1g6uA 48 2.98e+01 1g6uA k.9.1.1 46425 1qr7A 350 3.03e+01 1qr7A c.1.10.4 29191 1iqqA 200 3.04e+01 d.124.1.1 66274 1h5qA 265 3.05e+01 1cydA c.2.1.2 60643 1yrgA 385 3.06e+01 1yrgA c.10.1.2 30854 1gmxA 108 3.09e+01 c.46.1.3 65355 1gtxA 472 3.15e+01 1gtxA c.67.1.4 34464 2oatA 439 3.16e+01 2dkb c.67.1.4 34452 1gm6A 175 3.17e+01 1fnnA 389 3.18e+01 1fnnA a.4.5.11 16129 c.37.1.13 32426 1goiA 499 3.18e+01 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1f60A 458 3.19e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1garA 212 3.22e+01 2gar c.65.1.1 34162 1b57A 358 3.24e+01 1dosA c.1.10.2 29177 1ggwA 140 3.24e+01 1ggwA a.39.1.5 60490 1ewkA 490 3.26e+01 1ewkA c.93.1.1 35712 1hyuA 521 3.34e+01 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1ldg 316 3.36e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1l7mA 211 3.38e+01 1g6q2 328 3.38e+01 1g6q2 7odcA 424 3.41e+01 7odcA b.49.2.1 26488 c.1.6.1 28650 1qbjA 81 3.41e+01 1qbjA a.4.5.19 16155 1jkxA 212 3.43e+01 c.65.1.1 66813 5eat 548 3.44e+01 5eat a.102.4.1 18853 a.128.1.3 19445 1qj5A 429 3.44e+01 1dtyA c.67.1.4 34493 1hv8A 367 3.55e+01 1hv8A c.37.1.13 32405 c.37.1.13 32406 2fnbA 95 3.57e+01 2fnbA b.1.2.1 21979 1emsA 440 3.58e+01 1emsA d.13.1.1 37520 d.160.1.1 42086 5tmpA 213 3.60e+01 5tmpA c.37.1.1 31931 1c7qA 445 3.60e+01 2pgi c.80.1.2 35307 1yrgB 385 3.63e+01 1yrgA c.10.1.2 30855 1bw9A 356 3.65e+01 1bw9A c.2.1.7 30274 c.58.1.1 33922 1aerA 205 3.67e+01 1aerA d.166.1.1 42249 1fpzA 212 3.71e+01 1fpzA c.45.1.1 59976 1nstA 325 3.76e+01 1nstA c.37.1.5 31951 1scuA 288 3.76e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1gv4A 528 3.76e+01 1a0cA 438 3.80e+01 1a0cA c.1.15.3 29529 1b8qA 127 3.85e+01 1qauA b.36.1.1 24781 1adoA 363 3.88e+01 1fbaA c.1.10.1 29124 1dtyA 429 3.90e+01 1dtyA c.67.1.4 34495 1eco 136 3.92e+01 1flp a.1.1.2 15208 1eca 136 3.93e+01 1flp a.1.1.2 15209 1ecd 136 3.93e+01 1flp a.1.1.2 15211 1a8q 274 3.99e+01 1brt c.69.1.12 34702