# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1jgsA 138 8.58e-03 a.4.5.28 66683 1lvaA 258 3.80e-02 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1i1sA 96 1.53e-01 1bjaA a.4.5.9 16124 1hw5A 210 1.71e-01 2cgpA a.4.5.4 16098 b.82.3.2 28137 2cgpA 210 1.87e-01 2cgpA a.4.5.4 16102 b.82.3.2 28141 1j5yA 187 2.03e-01 a.4.5.1 71592 d.94.2.1 71593 1lj9A 144 3.55e-01 a.4.5.28 78035 1fp2A 352 3.56e-01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1q1hA 110 4.46e-01 unknown_sccs -262 1j75A 67 4.90e-01 a.4.5.19 62673 1smtA 122 5.77e-01 1smtA a.4.5.5 16109 1fpxA 352 6.69e-01 1fpxA a.4.5.29 59950 c.66.1.12 59951 1bjaA 95 7.23e-01 1bjaA a.4.5.9 16122 1cjtA 217 7.51e-01 1azsA d.58.29.1 39419 1r1tA 122 8.18e-01 1lnwA 147 8.56e-01 a.4.5.28 78104 1aisB 200 8.63e-01 1aisB a.74.1.2 18384 a.74.1.2 18385 1lea 84 8.97e-01 1lea a.4.5.2 16085 1jhfA 202 9.07e-01 a.4.5.2 63057 b.87.1.1 63058 1smtB 122 9.28e-01 1smtA a.4.5.5 16110 1okrA 123 1.20e+00 unknown_sccs -235 1in6A 334 1.20e+00 1hqcA a.4.5.11 62601 c.37.1.20 62602 1oz9A 150 1.29e+00 unknown_sccs -10588 1oyiA 82 1.33e+00 a.4.5.19 -292 1odd 118 1.33e+00 1opc a.4.6.1 16232 1in4A 334 1.47e+00 1hqcA a.4.5.11 62597 c.37.1.20 62598 1azsA 220 1.68e+00 1azsA d.58.29.1 39416 1culA 217 1.70e+00 1azsA d.58.29.1 39417 1gd8A 118 1.85e+00 d.188.1.1 60445 1p2fA 220 1.89e+00 a.4.6.1 87720 c.23.1.1 87721 1volA 204 1.97e+00 1tfb a.74.1.2 18370 a.74.1.2 18371 1d3uB 201 2.09e+00 1aisB a.74.1.2 18386 a.74.1.2 18387 1np7A 489 2.21e+00 a.99.1.1 80677 c.28.1.1 80678 1opc 110 2.53e+00 1opc a.4.6.1 16231 1j3wA 163 2.75e+00 unknown_sccs -10870 1hqcA 324 2.80e+00 1hqcA a.4.5.11 16127 c.37.1.20 32424 1au7A 146 2.84e+00 1au7A a.4.1.1 15995 a.35.1.1 17021 1hleA 345 3.07e+00 1ovaA e.1.1.1 42618 1tplA 426 3.17e+00 1ax4A c.67.1.2 34387 1l9vA 317 3.31e+00 d.13.2.1 73760 d.216.1.1 73761 1res 43 3.40e+00 1ret a.4.1.2 16023 1l2lA 457 3.45e+00 c.72.1.3 77656 9apiA 347 3.46e+00 1ovaA e.1.1.1 42630 1fx4A 231 4.08e+00 1fx2A d.58.29.1 39431 1ret 43 4.09e+00 1ret a.4.1.2 16024 2bdpA 580 4.20e+00 1xwl c.55.3.5 33709 e.8.1.1 43002 1c7gA 456 4.21e+00 c.67.1.2 -8153 3bdpA 580 4.47e+00 1xwl c.55.3.5 33711 e.8.1.1 43004 1xwl 580 4.48e+00 1xwl c.55.3.5 33708 e.8.1.1 43001 1nk4A 580 4.50e+00 c.55.3.5 -7625 e.8.1.1 -11875 1l3sA 580 4.51e+00 c.55.3.5 84521 e.8.1.1 84522 1dpuA 99 4.53e+00 1dpuA a.4.5.16 16150 1i27A 73 4.56e+00 1i27A a.4.5.30 61555 1pylA 97 4.60e+00 1je8A 82 4.64e+00 a.4.6.2 77108 1rwyA 109 4.84e+00 a.39.1.4 -825 1g71A 347 5.00e+00 1g71A unknown_sccs 43268 1pu6A 218 5.10e+00 unknown_sccs -1282 1bib 321 5.12e+00 1bia a.4.5.1 16084 b.34.1.1 24448 d.104.1.2 40788 1p4xA 250 5.13e+00 a.4.5.28 87784 a.4.5.28 87785 1mkmA 249 5.52e+00 a.4.5.33 79242 d.110.2.2 79243 1bia 321 5.53e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1ng6A 148 5.65e+00 a.182.1.1 85670 1nxiA 132 5.86e+00 d.58.47.1 86381 1te5A 257 6.08e+00 1gxqA 106 6.59e+00 a.4.6.1 70721 1v33A 366 6.71e+00 unknown_sccs -11384 1jmoA 480 6.74e+00 e.1.1.1 77138 1jpdX 324 6.93e+00 c.1.11.2 67014 d.54.1.1 67015 1fx2A 235 7.00e+00 1fx2A d.58.29.1 39430 1ua4A 455 7.05e+00 c.72.1.3 -8416 1jrrA 382 7.58e+00 e.1.1.1 63256 1an7A 136 7.92e+00 1seiA d.140.1.1 41465 1kbuA 349 7.98e+00 a.60.9.1 72284 d.163.1.1 72285 1mjnA 179 8.39e+00 c.62.1.1 79210 1o57A 291 8.51e+00 unknown_sccs -249 c.61.1.1 -7960 1p41A 291 8.51e+00 1f1zA 273 8.56e+00 1f1zA a.4.5.27 16081 c.52.1.16 33334 1lj5A 379 8.67e+00 e.1.1.1 73928 1qqiA 104 8.76e+00 1opc a.4.6.1 16233 1no4A 97 9.30e+00 h.1.24.1 85918 1qlpA 394 9.44e+00 1ovaA e.1.1.1 42628 1jx4A 352 9.45e+00 unknown_sccs -10188 unknown_sccs -11898 1a7cA 379 9.73e+00 1sek e.1.1.1 42660 1ctt 294 1.00e+01 1ctt c.97.1.1 36022 c.97.1.1 36023 1k8kE 178 1.01e+01 a.148.1.1 68311 1khyA 148 1.02e+01 a.174.1.1 77410 1r4wA 226 1.02e+01 unknown_sccs -7447 1cuk 203 1.03e+01 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1qc7A 101 1.04e+01 1qc7A a.118.14.1 18456 1tfb 208 1.07e+01 1tfb a.74.1.2 18382 a.74.1.2 18383 1cbs 137 1.08e+01 1hmt b.60.1.2 27201 1gvjA 146 1.09e+01 a.4.5.21 -293 1tikA 213 1.10e+01 1l0oA 150 1.19e+01 d.122.1.3 73403 1regX 122 1.19e+01 1regX d.58.27.1 39406 1rro 108 1.20e+01 1a75A a.39.1.4 17195 8rucI 123 1.25e+01 1rboC d.73.1.1 39629 1j2rA 199 1.26e+01 unknown_sccs -6799 1rboC 123 1.27e+01 1rboC d.73.1.1 39634 1l58 164 1.32e+01 1l92 d.2.1.3 36635 1hw1A 239 1.35e+01 1e2xA a.4.5.6 16111 a.78.1.1 18441 1a5t 334 1.37e+01 1a5t a.80.1.1 18450 c.37.1.20 32423 1l3lA 234 1.38e+01 a.4.6.2 73541 d.110.5.1 73542 1lqc 56 1.44e+01 1pru a.35.1.5 17109 1teaA 299 1.46e+01 1keeE 1073 1.50e+01 a.92.1.1 68508 c.24.1.1 68509 c.30.1.1 68510 c.30.1.1 68511 d.142.1.2 68512 d.142.1.2 68513 1fy7A 278 1.51e+01 1fy7A d.108.1.1 40817 1on2A 142 1.52e+01 a.4.5.24 87103 a.76.1.1 87104 1c3oE 1073 1.52e+01 a.92.1.1 18564 c.24.1.1 31493 c.30.1.1 31685 c.30.1.1 31686 d.142.1.2 41530 d.142.1.2 41531 1jn5B 250 1.53e+01 d.17.4.2 66922 1jkgB 250 1.63e+01 d.17.4.2 66796 119l 164 1.67e+01 1l92 d.2.1.3 36622 1d6mA 653 1.67e+01 1d6mA e.10.1.1 43248 1e2xA 243 1.75e+01 1e2xA a.4.5.6 16113 a.78.1.1 18443 1e6yB 433 1.75e+01 1mroB a.89.1.1 18535 d.58.31.2 39453 1or7A 194 1.78e+01 a.4.13.2 87332 a.177.1.1 87333 1nigA 152 1.82e+01 a.25.2.1 85740 1qbjA 81 1.83e+01 1qbjA a.4.5.19 16155 5eau 548 1.84e+01 5eat a.102.4.1 18851 a.128.1.3 19443 1dxeA 256 1.87e+01 1dxeA c.1.12.5 29310 1qgpA 77 1.89e+01 1qbjA a.4.5.19 16158 1dguA 183 1.89e+01 1dguA a.39.1.5 17333 1t6aA 126 1.97e+01 1mf7A 194 2.00e+01 c.62.1.1 84937 1o0iA 138 2.01e+01 d.38.1.5 86532 1ucrA 78 2.05e+01 unknown_sccs -308 1lw9A 164 2.05e+01 d.2.1.3 84727 1lfaA 187 2.06e+01 1ido c.62.1.1 34122 1p36A 164 2.09e+01 d.2.1.3 -8840 1l92 164 2.12e+01 1l92 d.2.1.3 36629 1jbgA 109 2.15e+01 a.6.1.3 66480 1i7dA 659 2.16e+01 1d6mA e.10.1.1 61886 1r6rA 100 2.20e+01 unknown_sccs -1071 1mw9X 592 2.20e+01 e.10.1.1 -11986 1jtvA 327 2.20e+01 c.2.1.2 84230 1dgnA 89 2.21e+01 1dgnA a.77.1.3 18436 1k3bB 164 2.21e+01 d.3.1.1 72015 1q5qA 259 2.24e+01 d.153.1.4 -11433 1ecl 597 2.34e+01 1ecl e.10.1.1 43238 1kppA 145 2.34e+01 d.20.1.2 72846 1k7jA 206 2.38e+01 d.115.1.1 72103 1gy8A 397 2.39e+01 c.2.1.2 83376 6paxA 133 2.39e+01 6paxA a.4.1.5 64758 a.4.1.5 64759 1rcwA 231 2.42e+01 unknown_sccs -1921 1g0oA 283 2.44e+01 1ybvA c.2.1.2 60181 1jfkA 134 2.45e+01 a.39.1.5 66639 1i5rA 327 2.45e+01 c.2.1.2 83668 3crxA 343 2.47e+01 4crxA a.60.9.1 18101 d.163.1.1 42161 1a27 289 2.49e+01 1fds c.2.1.2 29839 1kk9A 221 2.51e+01 d.115.1.1 77432 1fds 327 2.56e+01 1fds c.2.1.2 29838 7a3hA 303 2.68e+01 7a3hA c.1.8.3 28817 1j3mA 129 2.72e+01 1lkvX 232 2.74e+01 a.118.14.1 73980 1avyB 74 2.77e+01 1avyB h.1.17.1 45657 1fezA 256 2.78e+01 1fezA c.108.1.3 43343 1dgqA 188 2.79e+01 1ido c.62.1.1 34131 1azsB 212 2.79e+01 1azsA d.58.29.1 39423 1fdt 327 2.81e+01 1fds c.2.1.2 29841 1a3h 300 2.81e+01 7a3hA c.1.8.3 28819 1h5vA 304 2.83e+01 c.1.8.3 70898 1lcdA 51 2.84e+01 1pru a.35.1.5 17111 1byi 224 2.90e+01 1byi c.37.1.10 32199 1lccA 51 2.92e+01 1pru a.35.1.5 17110 1ufmA 84 2.93e+01 1f44A 324 2.96e+01 a.60.9.1 64982 d.163.1.1 64983 1fr1A 361 2.99e+01 1gceA e.3.1.1 42734 1kgsA 225 3.02e+01 a.4.6.1 68596 c.23.1.1 68597 5eat 548 3.02e+01 5eat a.102.4.1 18853 a.128.1.3 19445 1gw5M 435 3.05e+01 b.2.7.1 70631 d.110.4.2 70632 1gdtA 183 3.06e+01 2rslA a.4.1.2 16021 c.53.1.1 33348 1a04A 215 3.09e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1hr6B 443 3.28e+01 1be3A d.185.1.1 61166 d.185.1.1 61167 1ido 192 3.29e+01 1ido c.62.1.1 34139 1th8A 145 3.30e+01 1rgyA 360 3.35e+01 e.3.1.1 -11768 1k1vA 41 3.36e+01 a.37.1.1 71999 1jlm 192 3.38e+01 1ido c.62.1.1 34140 1tiqA 180 3.39e+01 1qmzB 259 3.40e+01 1vin a.74.1.1 18338 a.74.1.1 18339 1l4dB 122 3.40e+01 d.15.5.1 77684 1ckiA 317 3.41e+01 1csn d.144.1.7 41660 1pueE 89 3.44e+01 1awcA a.4.5.21 16165 1jb9A 316 3.46e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1ybvA 283 3.49e+01 1ybvA c.2.1.2 29948 1edg 380 3.51e+01 1edg c.1.8.3 28807 2frvA 264 3.51e+01 2frvA e.19.1.1 43303 1q2wA 308 3.51e+01 b.47.1.4 88355 1b79A 119 3.56e+01 1b79A a.81.1.1 18451 1fi2A 201 3.57e+01 1fi2A b.82.1.2 59845 1tbmA 326 3.64e+01 1pmaA 233 3.64e+01 1pmaA d.153.1.4 41918 1tml 286 3.71e+01 1tml c.6.1.1 30656 1apyB 141 3.84e+01 1apyB 1qnf 484 3.86e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1kzhA 555 3.89e+01 c.89.1.1 73361 1m98A 317 3.90e+01 a.175.1.1 78866 d.17.4.6 78867 1crxA 322 3.94e+01 4crxA a.60.9.1 18097 d.163.1.1 42157 1ft9A 222 3.94e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 1qo7A 394 3.95e+01 1qo7A c.69.1.11 34697 1q41A 424 3.95e+01 d.144.1.7 -11308 1k78A 149 3.97e+01 a.4.1.5 68255 a.4.1.5 68256