# List of top-scoring protein chains for t04-100-30-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 1fp2A 352 1.77e-02 1fpxA a.4.5.29 59941 c.66.1.12 59942 1lj9A 144 7.67e-02 a.4.5.28 78035 1hw5A 210 9.86e-02 2cgpA a.4.5.4 16098 b.82.3.2 28137 1lvaA 258 1.16e-01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1j5yA 187 1.96e-01 a.4.5.1 71592 d.94.2.1 71593 1bjaA 95 3.54e-01 1bjaA a.4.5.9 16122 1smtA 122 3.63e-01 1smtA a.4.5.5 16109 1r1tA 122 3.65e-01 1aisB 200 4.14e-01 1aisB a.74.1.2 18384 a.74.1.2 18385 1hw1A 239 7.43e-01 1e2xA a.4.5.6 16111 a.78.1.1 18441 1lnwA 147 7.75e-01 a.4.5.28 78104 1mkmA 249 7.81e-01 a.4.5.33 79242 d.110.2.2 79243 1o57A 291 8.01e-01 unknown_sccs -249 c.61.1.1 -7960 1opc 110 8.85e-01 1opc a.4.6.1 16231 1khyA 148 9.16e-01 a.174.1.1 77410 1p2fA 220 9.70e-01 a.4.6.1 87720 c.23.1.1 87721 1oyiA 82 1.02e+00 a.4.5.19 -292 1jhfA 202 1.10e+00 a.4.5.2 63057 b.87.1.1 63058 1q1hA 110 1.14e+00 unknown_sccs -262 1gvjA 146 1.34e+00 a.4.5.21 -293 1l9vA 317 1.41e+00 d.13.2.1 73760 d.216.1.1 73761 1j75A 67 1.48e+00 a.4.5.19 62673 1res 43 1.52e+00 1ret a.4.1.2 16023 1teaA 299 1.74e+00 1azsA 220 1.80e+00 1azsA d.58.29.1 39416 1bia 321 1.91e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1okrA 123 2.10e+00 unknown_sccs -235 1rypE 242 2.11e+00 1rypE d.153.1.4 41936 1j3mA 129 2.46e+00 1a5t 334 2.50e+00 1a5t a.80.1.1 18450 c.37.1.20 32423 1j2rA 199 3.02e+00 unknown_sccs -6799 1je8A 82 3.10e+00 a.4.6.2 77108 1pu6A 218 3.22e+00 unknown_sccs -1282 1rwyA 109 3.29e+00 a.39.1.4 -825 1d0vA 356 3.37e+00 1d0vA c.39.1.1 32476 1l5oA 356 3.38e+00 c.39.1.1 77711 1byi 224 3.55e+00 1byi c.37.1.10 32199 1in4A 334 3.79e+00 1hqcA a.4.5.11 62597 c.37.1.20 62598 1cuk 203 3.83e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1in6A 334 3.89e+00 1hqcA a.4.5.11 62601 c.37.1.20 62602 1vjzA 341 4.71e+00 c.1.8.3 -5318 1c7gA 456 4.74e+00 c.67.1.2 -8153 1o88A 353 4.78e+00 b.80.1.1 81178 1air 353 4.78e+00 1air b.80.1.1 28018 1l3lA 234 5.10e+00 a.4.6.2 73541 d.110.5.1 73542 1p4xA 250 5.11e+00 a.4.5.28 87784 a.4.5.28 87785 1fx2A 235 5.17e+00 1fx2A d.58.29.1 39430 1qlpA 394 5.20e+00 1ovaA e.1.1.1 42628 1g71A 347 6.99e+00 1g71A unknown_sccs 43268 1k47A 337 7.00e+00 d.14.1.5 72040 d.58.26.4 72041 1cbs 137 7.16e+00 1hmt b.60.1.2 27201 1b79A 119 7.28e+00 1b79A a.81.1.1 18451 1np7A 489 7.74e+00 a.99.1.1 80677 c.28.1.1 80678 1s3jA 155 8.16e+00 a.4.5.28 -227 1abv 134 8.26e+00 1abv a.70.1.1 18317 1te5A 257 8.39e+00 1mjnA 179 8.52e+00 c.62.1.1 79210 1no4A 97 9.23e+00 h.1.24.1 85918 1nxiA 132 9.31e+00 d.58.47.1 86381 7a3hA 303 9.61e+00 7a3hA c.1.8.3 28817 1xwl 580 9.68e+00 1xwl c.55.3.5 33708 e.8.1.1 43001 1pueE 89 1.06e+01 1awcA a.4.5.21 16165 1fi4A 416 1.15e+01 1fi4A d.14.1.5 59847 d.58.26.2 59848 1kgsA 225 1.22e+01 a.4.6.1 68596 c.23.1.1 68597 1pvmA 184 1.27e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1i7dA 659 1.29e+01 1d6mA e.10.1.1 61886 1oeyJ 107 1.30e+01 d.15.2.2 -9168 1burS 123 1.31e+01 1rboC 1aa6 715 1.33e+01 2napA b.52.2.2 26916 c.81.1.1 35324 1nk4A 580 1.37e+01 c.55.3.5 -7625 e.8.1.1 -11875 1g0oA 283 1.40e+01 1ybvA c.2.1.2 60181 1hg4A 279 1.41e+01 1lbd a.123.1.1 19333 1nqkA 381 1.42e+01 c.1.16.4 -5607 1l3sA 580 1.44e+01 c.55.3.5 84521 e.8.1.1 84522 1ub9A 100 1.49e+01 a.4.5.28 -231 1e87A 118 1.50e+01 1b6e d.169.1.1 42327 1ctt 294 1.51e+01 1ctt c.97.1.1 36022 c.97.1.1 36023 1mw9X 592 1.52e+01 e.10.1.1 -11986 1fobA 334 1.52e+01 c.1.8.3 83255 1nnvA 110 1.53e+01 unknown_sccs -9309 1regX 122 1.56e+01 1regX d.58.27.1 39406 1om0A 274 1.57e+01 c.1.8.5 87058 1tikA 213 1.60e+01 8rucI 123 1.61e+01 1rboC d.73.1.1 39629 1i27A 73 1.62e+01 1i27A a.4.5.30 61555 1hleA 345 1.62e+01 1ovaA e.1.1.1 42618 1or7A 194 1.66e+01 a.4.13.2 87332 a.177.1.1 87333 1fxjA 331 1.66e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1k7jA 206 1.69e+01 d.115.1.1 72103 1heiA 451 1.70e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 1v33A 366 1.73e+01 unknown_sccs -11384 1pylA 97 1.75e+01 1mi3A 322 1.78e+01 c.1.7.1 -5257 1aj8A 371 1.78e+01 1aj8A a.103.1.1 18900 1a8h 500 1.78e+01 1a8h a.27.1.1 16922 c.26.1.1 31589 1k8uA 90 1.80e+01 a.39.1.2 72181 1guxA 218 1.82e+01 1guxA a.74.1.3 18388 1mj3A 260 1.82e+01 c.14.1.3 79183 1o7tA 309 1.85e+01 c.94.1.1 86645 1nigA 152 1.85e+01 a.25.2.1 85740 1a04A 215 1.86e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1c9kA 180 1.88e+01 1c9kB c.37.1.11 32363 1f0yA 302 1.88e+01 2hdhA a.100.1.3 18793 c.2.1.6 30197 1rypL 212 1.90e+01 d.153.1.4 41880 1rypC 244 1.92e+01 1rypC d.153.1.4 41934 1v9dA 340 1.95e+01 unknown_sccs -1762 1jtvA 327 1.96e+01 c.2.1.2 84230 1qbjA 81 1.96e+01 1qbjA a.4.5.19 16155 1c3cA 429 2.02e+01 1c3cA a.127.1.1 19425 1b4pA 217 2.03e+01 a.45.1.1 83158 c.47.1.5 83159 1fi2A 201 2.08e+01 1fi2A b.82.1.2 59845 1f3vA 179 2.09e+01 1f3vA d.58.22.1 39382 1ckiA 317 2.10e+01 1csn d.144.1.7 41660 1fds 327 2.11e+01 1fds c.2.1.2 29838 1f1zA 273 2.18e+01 1f1zA a.4.5.27 16081 c.52.1.16 33334 1dxeA 256 2.20e+01 1dxeA c.1.12.5 29310 1udxA 416 2.20e+01 b.117.1.1 -3546 c.37.1.8 -7101 unknown_sccs -9009 1mf7A 194 2.22e+01 c.62.1.1 84937 1qnf 484 2.22e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1q5qA 259 2.23e+01 d.153.1.4 -11433 1oheA 348 2.25e+01 c.45.1.1 87013 c.45.1.1 87014 1r4vA 171 2.26e+01 unknown_sccs -1221 1b7yB 785 2.31e+01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1k78A 149 2.31e+01 a.4.1.5 68255 a.4.1.5 68256 1vj7A 393 2.38e+01 unknown_sccs -1265 unknown_sccs -9814 1rypD 241 2.40e+01 1rypD d.153.1.4 41935 6paxA 133 2.49e+01 6paxA a.4.1.5 64758 a.4.1.5 64759 1edg 380 2.50e+01 1edg c.1.8.3 28807 1gy8A 397 2.50e+01 c.2.1.2 83376 1j3wA 163 2.51e+01 unknown_sccs -10870 1o08A 221 2.51e+01 c.108.1.6 86525 1bcfA 158 2.54e+01 1bcfA a.25.1.1 16648 1qc7A 101 2.54e+01 1qc7A a.118.14.1 18456 1lfaA 187 2.60e+01 1ido c.62.1.1 34122 1on2A 142 2.65e+01 a.4.5.24 87103 a.76.1.1 87104 1o0iA 138 2.66e+01 d.38.1.5 86532 1q7bA 244 2.68e+01 c.2.1.2 -5826 1b24A 188 2.70e+01 1b24A d.95.2.1 40573 d.95.2.1 40574 1fmjA 351 2.70e+01 c.37.1.5 59879 2tct 207 2.70e+01 2tct a.4.1.9 16063 a.121.1.1 19240 1qo7A 394 2.76e+01 1qo7A c.69.1.11 34697 1dc1A 323 2.81e+01 1dc1A c.52.1.11 33321 1ef1C 90 2.81e+01 1ef1C a.137.5.1 19642 1ng6A 148 2.83e+01 a.182.1.1 85670 1uwsA 489 2.89e+01 1hr6B 443 2.92e+01 1be3A d.185.1.1 61166 d.185.1.1 61167 1fpzA 212 2.96e+01 1fpzA c.45.1.1 59976 1bpyA 335 2.99e+01 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1f44A 324 3.08e+01 a.60.9.1 64982 d.163.1.1 64983 1owlA 484 3.19e+01 a.99.1.1 -1296 c.28.1.1 -6646 1v7rA 186 3.25e+01 c.51.4.1 -7546 1jrrA 382 3.26e+01 e.1.1.1 63256 1mkp 144 3.37e+01 1vhrA c.45.1.1 32654 1drw 273 3.37e+01 1drw c.2.1.3 30057 d.81.1.3 39972 1g8lA 411 3.45e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1xsm 390 3.47e+01 1xsm a.25.1.2 16804 1l6rA 227 3.48e+01 c.108.1.10 77768 1pzlA 237 3.50e+01 2dtr 226 3.54e+01 1bi0 a.4.5.24 16193 a.76.1.1 18399 b.34.1.2 24450 1gegA 256 3.55e+01 1ybvA c.2.1.2 29888 1j1jA 240 3.55e+01 a.118.16.1 -1637 1j8uA 325 3.56e+01 d.178.1.1 71611 4crxA 322 3.56e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1e5dA 402 3.57e+01 1e5dA c.23.5.1 31208 d.157.1.3 42061 1bed 181 3.58e+01 1fvkA unknown_sccs -7444 1ass 159 3.61e+01 1a6dA c.8.5.2 30818 1apyB 141 3.71e+01 1apyB 1ufmA 84 3.76e+01 1r1mA 164 3.77e+01 unknown_sccs -10431 1ks9A 291 3.80e+01 a.100.1.7 68857 c.2.1.6 68858 1oz9A 150 3.86e+01 unknown_sccs -10588 1a48 306 3.91e+01 1a48 d.143.1.1 41590 1jk0A 419 3.95e+01 a.25.1.2 63142 1phnA 162 3.95e+01 1cpcA a.1.1.3 15641 1kkhA 317 3.97e+01 d.14.1.5 72645 d.58.26.3 72646