# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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.soe.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 2hztA 107 2.00e-16 1z7uA 112 2.26e-15 a.4.5.69 124672 2fswA 107 3.63e-15 a.4.5.69 134042 1yyvA 131 3.96e-15 a.4.5.69 124254 2f2eA 146 1.04e-13 a.4.5.69 132808 1smtA 122 1.90e-05 1smtA a.4.5.5 16109 1r1tA 122 2.14e-05 a.4.5.5 104769 3bpvA 138 7.62e-05 2oqgA 114 1.03e-04 2a61A 145 1.41e-04 a.4.5.28 126187 2fbhA 146 1.88e-04 a.4.5.28 133245 1ub9A 100 2.30e-04 a.4.5.28 99159 1sfxA 109 4.42e-04 a.4.5.50 105505 1r1uA 106 4.43e-04 a.4.5.5 104771 2ethA 154 6.21e-04 a.4.5.28 132358 2pexA 153 8.05e-04 1lnwA 147 8.89e-04 a.4.5.28 78104 3bj6A 152 9.19e-04 2fbiA 142 1.05e-03 a.4.5.28 133246 2gxgA 146 1.30e-03 1xmaA 145 1.54e-03 a.4.5.61 115477 3cjnA 162 1.72e-03 1lj9A 144 4.76e-03 a.4.5.28 78035 1jgsA 138 4.80e-03 a.4.5.28 66683 2h09A 155 4.92e-03 1bjaA 95 5.19e-03 1bjaA a.4.5.9 16122 2v7fA 150 5.81e-03 1z91A 147 6.40e-03 a.4.5.28 124736 2co5A 99 7.82e-03 3cdhA 155 8.68e-03 2d1hA 109 8.90e-03 a.4.5.50 131125 3ctaA 230 9.85e-03 3b73A 111 1.00e-02 3broA 141 1.30e-02 2hr3A 147 1.39e-02 a.4.5.28 136678 3bddA 142 1.48e-02 2eshA 118 1.51e-02 a.4.5.61 132325 1ucrA 78 1.55e-02 a.4.5.45 99188 2e1nA 138 1.59e-02 2nnnA 140 1.60e-02 1r7jA 95 1.64e-02 a.4.5.49 104836 1fx7A 230 1.96e-02 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 60088,60089,60090 2p5vA 162 2.01e-02 2v79A 135 2.03e-02 1y0uA 96 2.19e-02 a.4.5.5 116310 2dqlA 115 2.20e-02 2cfxA 144 2.43e-02 a.4.5.32,d.58.4.2 130395,130396 1mzbA 136 2.82e-02 a.4.5.42 91497 2cg4A 152 2.88e-02 a.4.5.32,d.58.4.2 130417,130418 2e7xA 150 2.97e-02 2pn6A 150 3.16e-02 2obpA 96 3.25e-02 2dtr 226 3.47e-02 1bi0 2bv6A 142 3.50e-02 1tw3A 360 3.60e-02 a.4.5.29,c.66.1.12 107373,107374 2pg4A 95 3.66e-02 1u2wA 122 3.86e-02 a.4.5.5 119487 2dtrA 226 4.05e-02 a.4.5.24,a.76.1.1,b.34.1.2 16193,18399,24450 2p8tA 200 4.65e-02 2dbbA 151 4.81e-02 1tbxA 99 5.67e-02 a.4.5.48 106748 1s3jA 155 5.99e-02 a.4.5.28 98437 2ia0A 171 6.08e-02 2qq9A 226 6.72e-02 1j75A 67 7.18e-02 a.4.5.19 62673 2qvoA 95 8.12e-02 2fbkA 181 8.79e-02 a.4.5.28 133247 2nyxA 168 9.14e-02 2b0lA 102 9.43e-02 a.4.5.66 127641 2rdpA 150 9.97e-02 2ev0A 142 1.29e-01 a.4.5.24,a.76.1.1 132413,132414 1hw1A 239 1.71e-01 1e2xA a.4.5.6,a.78.1.1 16111,18441 3c7jA 237 1.96e-01 1on2A 142 2.18e-01 a.4.5.24,a.76.1.1 87103,87104 2cyyA 151 2.25e-01 a.4.5.32,d.58.4.2 131028,131029 2qwwA 154 2.27e-01 2hs5A 239 2.46e-01 3boqA 160 2.57e-01 2heoA 67 2.69e-01 2hgcA 102 2.76e-01 1q1hA 110 3.10e-01 a.4.5.41 95580 1ri7A 171 3.10e-01 a.4.5.32,d.58.4.2 97504,97505 1gvjA 146 3.57e-01 a.4.5.21 90525 2fu4A 83 3.58e-01 1wj5A 120 3.88e-01 a.4.5.59 114692 1mkmA 249 4.62e-01 a.4.5.33,d.110.2.2 79242,79243 2ek5A 129 5.05e-01 1b9mA 265 5.07e-01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 2fa5A 162 5.63e-01 1oyiA 82 5.88e-01 a.4.5.19 93729 2qz8A 149 6.07e-01 3bjaA 139 6.31e-01 1zybA 232 6.38e-01 a.4.5.4,b.82.3.2 125815,125816 1lvaA 258 6.45e-01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1zarA 282 6.69e-01 a.4.5.56,d.144.1.9 124843,124844 1tqmA 282 6.72e-01 a.4.5.56,d.144.1.9 107236,107237 1sfuA 75 7.36e-01 a.4.5.19 105503 2ivmA 150 7.44e-01 1yg2A 179 7.74e-01 a.4.5.61 116681 1in6A 334 8.10e-01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1dpuA 99 8.44e-01 1dpuA a.4.5.16 16150 1z1dA 103 8.81e-01 a.4.5.16 124351 2jt1A 77 1.06e+00 1wsuA 124 1.07e+00 a.4.5.35,a.4.5.35 121245,121246 1bia 321 1.09e+00 1bia 1biaA 321 1.09e+00 a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1xmkA 79 1.09e+00 a.4.5.19 122165 1sd4A 126 1.12e+00 a.4.5.39 105428 2fe3A 145 1.13e+00 2pjpA 121 1.15e+00 1xn7A 78 1.21e+00 a.4.5.62 115576 1in4A 334 1.23e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 1okrA 123 1.26e+00 a.4.5.39 93269 1p4xA 250 1.28e+00 a.4.5.28,a.4.5.28 87784,87785 1eejA 216 1.34e+00 1eejA c.47.1.9,d.17.3.1 33057,38071 2fnaA 357 1.49e+00 a.4.5.11,c.37.1.20 133809,133810 2gqqA 163 1.49e+00 1c4zA 358 1.84e+00 1c4zA d.148.1.1 41766 2dk5A 91 1.86e+00 1x19A 359 2.15e+00 1ixcA 294 2.17e+00 a.4.5.37,c.94.1.1 83764,83765 1t98A 287 2.64e+00 a.4.5.65,a.47.6.1 119196,119197 1bc8C 93 2.87e+00 1awcA a.4.5.21 16168 3bwgA 239 2.99e+00 2jtvA 65 3.01e+00 3by6A 126 3.19e+00 2fokA 579 3.22e+00 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 2gmgA 105 3.55e+00 1ulyA 192 3.64e+00 a.4.5.58 113297 2pbqA 178 3.65e+00 1xd7A 145 3.79e+00 a.4.5.55 109566 1jhfA 202 4.42e+00 a.4.5.2,b.87.1.1 63057,63058 1qzzA 374 5.01e+00 a.4.5.29,c.66.1.12 96719,96720 2givA 295 5.69e+00 d.108.1.1 135253 2ia2A 265 6.05e+00 1bm9A 122 6.13e+00 1bm9A a.4.5.7 16116 1i6xA 209 6.53e+00 a.4.5.4,b.82.3.2 83673,83674 1qbjA 81 6.71e+00 1qbjA a.4.5.19 16155 1k78A 149 6.84e+00 a.4.1.5,a.4.1.5 68255,68256 1xnfA 275 7.36e+00 a.118.8.1 115580 2qc0A 373 7.52e+00 1s5jA 847 7.52e+00 c.55.3.5,e.8.1.1 112040,112041 1fp1D 372 7.54e+00 1fpqA a.4.5.29,c.66.1.12 59939,59940 2i5iA 263 7.76e+00 1stzA 338 8.00e+00 a.4.5.51,d.110.2.3 106009,106010 2pq8A 278 8.03e+00 2cq2A 114 8.75e+00 d.58.7.1 130713 2dk8A 81 8.82e+00 2di3A 239 9.22e+00 1a79A 171 9.38e+00 1a79A c.52.2.1,d.75.1.1 33340,39739 2gbbA 156 9.40e+00 2nr3A 183 9.56e+00 3bz6A 183 9.75e+00 1ka2A 499 1.00e+01 d.92.1.5 77305 6paxA 133 1.09e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 2hoeA 380 1.10e+01 a.4.5.63,c.55.1.10,c.55.1.10 136639,136640,136641 1yo5C 97 1.27e+01 a.4.5.21 123768 1z6rA 406 1.29e+01 a.4.5.63,c.55.1.10,c.55.1.10 124557,124558,124559 1fi4A 416 1.31e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 1mb4A 370 1.31e+01 c.2.1.3,d.81.1.1 78908,78909 1zgdA 312 1.32e+01 2ffjA 300 1.34e+01 e.50.1.1 133387 1u5kA 244 1.36e+01 b.40.4.13,g.45.1.2 113038,113039 1hlvA 131 1.38e+01 a.4.1.7,a.4.1.7 65854,65855 1g8iA 190 1.39e+01 1rec a.39.1.5 60363 2dobA 83 1.48e+01 1oyzA 280 1.49e+01 a.118.1.16 93775 2nxqA 134 1.49e+01 2clqA 295 1.57e+01 1tz9A 367 1.57e+01 c.1.15.6 107466 1j5yA 187 1.57e+01 a.4.5.1,d.94.2.1 71592,71593 2dqrA 122 1.63e+01 2ip2A 334 1.64e+01 1qhfA 240 1.67e+01 1qhfA c.60.1.1 33960 1qz9A 416 1.68e+01 c.67.1.3 96621 1s2wA 295 1.69e+01 c.1.12.7 98407 1fnnA 389 1.70e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1v4eA 299 1.70e+01 a.128.1.1 100296 2fmyA 220 1.76e+01 1faoA 126 1.76e+01 1faoA b.55.1.1 26974 1zx4A 192 1.79e+01 2g7uA 257 1.80e+01 2h41A 95 1.83e+01 1m40A 263 1.84e+01 e.3.1.1 74437 1m1eB 81 1.84e+01 a.161.1.1 78400 1hq0A 295 1.87e+01 1hzgA d.194.1.1 61122 1yyaA 250 1.99e+01 1tjoA 182 2.00e+01 a.25.1.1 112461 1rztA 331 2.01e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 2dg5A 366 2.02e+01 d.153.1.6 131500 2nyuA 196 2.02e+01 1g2hA 61 2.12e+01 1g2hA a.4.1.12 60224 1e58A 249 2.14e+01 1qhfA c.60.1.1 59262 3bptA 363 2.17e+01 2o09A 189 2.21e+01 2akaA 776 2.25e+01 1dofA 403 2.25e+01 1c3cA a.127.1.1 19429 2oa4A 101 2.25e+01 1hw5A 210 2.39e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1j5uA 136 2.42e+01 d.208.1.1 71584 2esnA 310 2.42e+01 a.4.5.37,c.94.1.1 132333,132334 2v75A 104 2.42e+01 1txgA 335 2.45e+01 a.100.1.6,c.2.1.6 112775,112776 3c2bA 221 2.52e+01 2zc3C 125 2.54e+01 2z2mC 125 2.56e+01 1t6t1 118 2.59e+01 2p5tB 253 2.63e+01 3c37A 253 2.67e+01 2bcqA 335 2.67e+01 a.60.6.1,a.60.12.1,d.218.1.2 128304,128305,128306 2h6bA 250 2.69e+01 1rr7A 129 2.69e+01 a.4.1.14 105075 3rubS 123 2.73e+01 1rboC d.73.1.1 39616 1oywA 523 2.75e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 2hiqA 113 2.78e+01 d.58.4.12 136529 1wd6A 123 2.85e+01 d.58.4.12 114525 1i7dA 659 2.86e+01 1d6mA e.10.1.1 61886 1jhgA 101 2.90e+01 1jhgA a.4.12.1 19009 1w9iA 770 2.96e+01 1oltA 457 2.97e+01 c.1.28.2 93334 1vsrA 136 3.01e+01 1vsrA c.52.1.15 33332 1m32A 366 3.07e+01 c.67.1.3 78508 2g17A 337 3.10e+01 c.2.1.3,d.81.1.1 134512,134513 2pfyA 301 3.16e+01 2qhsA 237 3.17e+01 1g7oA 215 3.21e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 2oulA 241 3.22e+01 1rkbA 173 3.25e+01 c.37.1.1 111854 1brmA 367 3.30e+01 1brmA c.2.1.3,d.81.1.1 30030,39945 2qdjA 304 3.35e+01 2qrvA 295 3.37e+01 1p3y1 194 3.42e+01 1t4bA 367 3.45e+01 c.2.1.3,d.81.1.1 106406,106407 2nq5A 755 3.50e+01 2yxeA 215 3.56e+01 1whzA 70 3.59e+01 d.50.3.2 114656 1o7dA 298 3.63e+01 c.6.2.1 86641 1korA 400 3.70e+01 c.26.2.1,d.210.1.1 72824,72825 1d0yA 761 3.81e+01 1lvk b.34.3.1,c.37.1.9 24581,32178 2j66A 428 3.87e+01 1z63A 500 3.95e+01 c.37.1.19,c.37.1.19 124502,124503 1azsA 220 4.05e+01 1azsA d.58.29.1 39416 1j0aA 325 4.14e+01 c.79.1.1 83871 2ob0A 170 4.15e+01 2dr1A 386 4.20e+01 1bqbA 301 4.21e+01 1hyt d.92.1.2 58962 2o5cA 659 4.23e+01 8rucI 123 4.25e+01 1rboC d.73.1.1 39629 1t0aA 159 4.30e+01 d.79.5.1 112192 1ia6A 441 4.30e+01 a.102.1.2 76738 2rkhA 180 4.31e+01 1nf3A 195 4.34e+01 c.37.1.8 85594 1fp2A 352 4.37e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 3brjA 175 4.52e+01 2iy2A 72 4.52e+01 1zynA 202 4.54e+01 c.47.1.2,c.47.1.2 125838,125839 1pymA 295 4.59e+01 1pymA c.1.12.7 29308 1ixkA 315 4.60e+01 c.66.1.38 90716 1dcjA 81 4.63e+01 1dcjA d.68.3.3 59115 2g9wA 138 4.63e+01 1ywwA 85 4.69e+01 3cymA 440 4.71e+01 1ua4A 455 4.73e+01 c.72.1.3 99128 3bboO 135 4.78e+01 1oyjA 231 4.80e+01 a.45.1.1,c.47.1.5 87597,87598 2g80A 253 4.84e+01 c.108.1.22 134741 1ermA 263 4.96e+01 1btl e.3.1.1 42690 2e18A 257 4.96e+01 1o8rA 94 5.01e+01 d.234.1.1 86677 2qgyA 391 5.19e+01 1j1dB 106 5.27e+01 h.1.25.1 83964 1zwwA 256 5.28e+01 a.238.1.1 125750 3cnhA 200 5.39e+01 2r3sA 335 5.40e+01 1mkfA 382 5.50e+01 b.116.1.1 79232 1y6iA 233 5.62e+01 a.118.1.22,a.261.1.1 122660,122661 1pz4A 116 5.65e+01 d.106.1.1 95400 2g9zA 348 5.65e+01 2v7bA 529 5.91e+01 2j5pA 76 5.99e+01 a.4.5.67 138050 2g8lA 299 6.06e+01 e.50.1.1 134775 2qsfA 533 6.08e+01 2b18A 164 6.16e+01 1iae 200 6.30e+01 1iae 2yv9A 291 6.30e+01 1iab 200 6.39e+01 1iae 1iabA 200 6.39e+01 d.92.1.8 40312 1rblI 109 6.46e+01 d.73.1.1 118599 1hyuA 521 6.50e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1eexA 554 6.68e+01 1dioA c.1.19.3 29650 1me4A 215 6.76e+01 d.3.1.1 79023 1sgoA 139 6.88e+01 d.82.3.1 98857 2o71A 115 6.91e+01 2gx5A 170 6.92e+01 1vk9A 151 6.93e+01 c.97.1.3 108640 1rscI 111 6.93e+01 d.73.1.1 118620 1cpcA 162 6.95e+01 1cpcA a.1.1.3 15643 1ic8A 194 7.01e+01 a.4.1.1,a.35.1.1 76740,76741 1zeeA 403 7.03e+01 a.266.1.2 124981 2hhjA 267 7.07e+01 c.60.1.1 136497 1ig0A 319 7.11e+01 1ig0A b.82.6.1,c.100.1.1 62354,62355 1a8h 500 7.19e+01 1a8h 3bk2A 562 7.22e+01 2zb9A 214 7.24e+01 1lvk 762 7.25e+01 1lvk 3bzcA 785 7.31e+01 1lbu 213 7.31e+01 1lbu 1lbuA 213 7.31e+01 a.20.1.1,d.65.1.1 16416,39549 1y2qA 143 7.34e+01 2fgeA 995 7.35e+01 d.185.1.1,d.185.1.1,d.185.1.1,d.185.1.1 133430,133431,133432,133433 1xgsA 295 7.43e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1na6A 404 7.44e+01 b.142.1.1,c.52.1.22 91748,91749 1woyA 500 7.46e+01 a.27.1.1,c.26.1.1 121130,121131 1ir21 140 7.47e+01 2p5kA 64 7.54e+01 2hl0A 143 7.54e+01 2a01A 243 7.57e+01 2d5bA 500 7.60e+01 a.27.1.1,c.26.1.1 131268,131269 1xx7A 184 7.65e+01 a.211.1.1 116143 1vi0A 206 7.69e+01 a.4.1.9,a.121.1.1 100720,100721 2vhjA 331 7.70e+01 1qf5A 431 7.74e+01 1adeA c.37.1.10 32212 1kafA 108 7.78e+01 d.199.1.1 68372 1t15A 214 7.80e+01 c.15.1.3,c.15.1.3 99067,99068 2ixsA 323 7.81e+01 1tfzA 424 7.83e+01 d.32.1.3,d.32.1.3 106886,106887 1ve2A 235 7.85e+01 c.90.1.1 120008 1dlwA 116 7.90e+01 1dlyA a.1.1.1 14982 2ijlA 135 7.93e+01 1xa0A 328 7.99e+01 b.35.1.2,c.2.1.1 115021,115022