# List of top-scoring protein chains for t04-100-30-o_notor2-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.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 1nxmA 197 1.88e-02 b.82.1.1 86385 2awaA 390 1.25e+00 2al1A 436 1.38e+00 2al2A 436 1.53e+00 1ww9A 392 1.55e+00 1llnA 262 1.66e+00 d.165.1.1 84625 1oneA 436 1.80e+00 4enl c.1.11.1,d.54.1.1 29200,38844 1fa8A 135 1.85e+00 1qipA d.32.1.1 38486 1f9zA 135 1.95e+00 1qipA d.32.1.1 38484 1tqzA 133 1.98e+00 2grrA 161 2.35e+00 1umzA 278 2.52e+00 b.29.1.2 99639 4enl 436 2.62e+00 4enl c.1.11.1,d.54.1.1 29202,38846 1u9aA 160 2.70e+00 1u9aA d.20.1.1 38333 1wwrA 171 3.00e+00 1gyfA 62 3.19e+00 1gyfA d.76.1.1 39749 1yh6A 179 3.30e+00 1eur 365 3.34e+00 1eut b.68.1.1 27607 1q8bA 105 3.37e+00 d.58.4.6 96201 1acf 125 4.47e+00 3nul d.110.1.1 40882 1lfdA 87 4.47e+00 1lfdA d.15.1.5 37622 2as0A 396 4.72e+00 1o97C 264 4.74e+00 c.26.2.3 81232 1eo1A 124 4.88e+00 1eo1A c.55.5.1 33739 1pk6A 133 5.02e+00 b.22.1.1 94801 1qipA 183 5.17e+00 1qipA d.32.1.1 38470 1ej1A 190 5.45e+00 1ejhA d.86.1.1 40144 1w8oA 601 5.69e+00 2a38A 194 5.83e+00 1xfsA 178 5.84e+00 d.129.3.5 109589 1han 297 6.00e+00 1han d.32.1.3,d.32.1.3 38506,38507 1svpA 161 6.14e+00 1svpA b.47.1.3 26384 1wcqA 601 6.32e+00 1lkdA 297 7.00e+00 d.32.1.3,d.32.1.3 78059,78060 1nszA 347 7.53e+00 b.30.5.4 80724 1xygD 359 7.69e+00 1khdA 345 8.16e+00 a.46.2.1,c.27.1.1 77400,77401 1ug6A 431 8.22e+00 c.1.8.4 88490 1p5zB 263 8.26e+00 c.37.1.1 87815 1zboA 210 8.36e+00 1jmcA 246 8.46e+00 1jmcA b.40.4.3,b.40.4.3 25300,25301 1syxB 86 8.47e+00 1dkzA 219 8.97e+00 1dkzA a.8.4.1,b.130.1.1 90345,90346 1juhA 350 8.98e+00 b.82.1.5 71884 1jtdB 273 9.14e+00 b.69.5.2 67265 1yhfA 115 9.52e+00 1uisA 231 9.60e+00 d.22.1.1 99431 1a2pA 110 9.68e+00 1b20A d.1.1.2 36140 2b7yA 182 1.00e+01 1l8bA 190 1.01e+01 d.86.1.1 73683 2gaxA 135 1.02e+01 1h8gA 95 1.03e+01 b.109.1.1 65735 1o0xA 262 1.05e+01 d.127.1.1 80755 1q67A 231 1.06e+01 b.55.1.7 95960 1s5aA 150 1.07e+01 d.17.4.10 98525 1m98A 317 1.08e+01 a.175.1.1,d.17.4.6 78866,78867 1qz8A 113 1.10e+01 b.140.1.1 96619 1d7yA 408 1.11e+01 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 2fymA 431 1.12e+01 1vquA 374 1.14e+01 2c4bA 143 1.15e+01 1gy7A 125 1.15e+01 d.17.4.2 70738 2fqpA 97 1.18e+01 1qv1A 195 1.21e+01 a.39.1.5 96347 2fa8A 105 1.23e+01 1y71A 130 1.23e+01 1ggxA 223 1.25e+01 1ggxA d.22.1.1 38367 1q8fA 313 1.26e+01 c.70.1.1 96203 1vkdA 338 1.30e+01 b.67.2.4 108644 1zn6A 227 1.31e+01 1gbg 214 1.34e+01 1axkA b.29.1.2 24171 1ne8A 117 1.39e+01 b.34.6.2 80424 1zgoA 223 1.41e+01 1voqa 90 1.42e+01 2fhfA 1083 1.45e+01 1el4A 195 1.46e+01 1ej3A a.39.1.5 59453 1o5uA 101 1.48e+01 b.82.1.8 92518 1zn8A 180 1.50e+01 3nul 130 1.50e+01 3nul d.110.1.1 40891 2d93A 134 1.51e+01 2fp8A 322 1.51e+01 1n3gA 113 1.52e+01 d.204.1.1 79962 1jatA 155 1.54e+01 1u9aA d.20.1.1 62818 1ewqA 765 1.58e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1u6dX 308 1.60e+01 1vmjA 151 1.62e+01 1vqoQ 96 1.62e+01 1kdgA 546 1.63e+01 c.3.1.2,d.16.1.1 77337,77338 2ffsA 157 1.63e+01 1nnxA 109 1.67e+01 b.40.10.1 92013 2pia 321 1.73e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 2gupA 292 1.76e+01 2ayh 214 1.76e+01 1axkA b.29.1.2 24172 1urrA 102 1.76e+01 d.58.10.1 107998 1jf2A 195 1.78e+01 1ej3A a.39.1.5 62930 1l6oA 95 1.82e+01 b.36.1.1 84534 1ts9A 102 1.83e+01 1zt3A 80 1.86e+01 1w1kA 560 1.92e+01 d.58.32.1,d.145.1.1 109059,109060 2aysA 348 1.95e+01 1vplA 256 1.97e+01 1vavA 222 1.99e+01 b.29.1.18 108472 1o12A 376 1.99e+01 b.92.1.5,c.1.9.10 80758,80759 1ri6A 343 2.04e+01 b.69.11.1 97503 2ck3D 482 2.05e+01 1jv1A 505 2.06e+01 c.68.1.5 71892 2bepA 159 2.07e+01 2b6dA 345 2.15e+01 1fyeA 229 2.17e+01 1fyeA c.23.16.4 31477 1h8eD 482 2.22e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1e8gA 560 2.22e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1zq4A 693 2.23e+01 1vr3A 191 2.27e+01 1jbbA 153 2.30e+01 1u9aA d.20.1.1 62842 2ltnA 181 2.30e+01 1led b.29.1.1 24024 1ue1A 164 2.37e+01 b.40.4.3 99243 1fzvA 132 2.43e+01 1vpfA g.17.1.1 60159 1r3cA 366 2.48e+01 d.144.1.7 96906 1nkxA 348 2.51e+01 c.94.1.2 91943 1ym0A 238 2.52e+01 1n7zA 334 2.53e+01 b.127.1.1 85380 1a7cA 379 2.54e+01 1sek e.1.1.1 42660 1rzhH 260 2.54e+01 b.41.1.1,f.23.10.1 98162,98163 2ahjA 206 2.66e+01 2ahjA d.149.1.1 41772 1i3zA 103 2.67e+01 d.93.1.1 83667 1okjA 251 2.68e+01 c.55.1.9,c.55.1.9 103998,103999 1lenA 181 2.73e+01 1led b.29.1.1 24032 1lcyA 325 2.74e+01 b.36.1.4,b.47.1.1 73834,73835 1gwmA 153 2.78e+01 b.18.1.19 83348 1e79D 482 2.78e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1azsA 220 2.83e+01 1azsA d.58.29.1 39416 2bwnA 401 2.88e+01 1dx5I 118 2.88e+01 1dx5I g.3.11.1,g.3.11.1,g.3.11.1 44302,44303,44304 1ukgA 252 2.98e+01 b.29.1.1 99489 2ge3A 170 2.98e+01 1tq5A 242 3.01e+01 2cz1A 206 3.01e+01 1jj2P 95 3.02e+01 1ffkN b.34.5.1 63101 1xrtA 467 3.03e+01 1ywrA 360 3.05e+01 1wz4A 23 3.07e+01 1s72Q 96 3.08e+01 b.34.5.1 105336 1m1fA 110 3.09e+01 b.34.6.2 78401 1twiA 434 3.10e+01 b.49.2.3,c.1.6.1 107399,107400 1j1qA 261 3.11e+01 d.165.1.1 90768 1vm8A 534 3.11e+01 1qy6A 274 3.13e+01 b.47.1.1 96574 1u2cA 246 3.16e+01 b.1.6.2,d.272.1.1 107610,107611 2c7xA 436 3.22e+01 1n3oA 252 3.24e+01 b.29.1.1 79967 2cdcA 366 3.24e+01 2avtA 378 3.25e+01 1xbfA 140 3.28e+01 d.273.1.1 109538 2cr9A 139 3.29e+01 1ctt 294 3.32e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1j4aA 333 3.33e+01 c.2.1.4,c.23.12.1 71502,71503 1qfoA 119 3.37e+01 1qfoA b.1.1.1 19708 2biqA 219 3.39e+01 1d4tA 104 3.42e+01 1d4tA d.93.1.1 40537 1gtkA 313 3.42e+01 c.94.1.1,d.50.2.1 76346,76347 1jmmA 377 3.53e+01 b.30.6.1 71749 1u69A 163 3.58e+01 d.32.1.7 107699 1uolA 219 3.63e+01 b.2.5.2 99695 1kxqE 120 3.64e+01 b.1.1.1 73171 1x23A 155 3.65e+01 1i4uA 181 3.73e+01 b.60.1.1 61732 1rypH 205 3.73e+01 d.153.1.4 41876 1iv8A 720 3.74e+01 b.71.1.1,c.1.8.1 76842,76843 1m4jA 142 3.75e+01 d.109.1.2 78602 1y1uA 585 3.75e+01 1vpkA 378 3.77e+01 2cy2A 174 3.77e+01 1nqjA 119 3.78e+01 b.23.2.1 86031 1sqjA 789 3.80e+01 b.69.13.1,b.69.13.1 105918,105919 1kw3B 292 3.82e+01 d.32.1.3,d.32.1.3 77549,77550 2ac0A 200 3.83e+01 1olzA 663 3.88e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1nezG 128 3.94e+01 b.1.1.1 85592 1vf8A 377 3.98e+01 1k2fA 190 4.03e+01 b.8.1.2 68054 1zgkA 308 4.04e+01 1xtoA 311 4.05e+01 1pcfA 66 4.05e+01 1pcfA d.18.1.1 38142 1lj5A 379 4.06e+01 e.1.1.1 73928 1s4iA 175 4.10e+01 1dxrH 258 4.13e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1h0hB 214 4.25e+01 d.58.1.5 76437 1wkqA 164 4.30e+01 c.97.1.2 109393 1mvfD 82 4.33e+01 b.129.1.1 85143 1yovA 537 4.34e+01 1w2lA 99 4.38e+01 1qovH 260 4.39e+01 6prcH b.41.1.1,f.23.10.1 25464,43457 1icfI 65 4.41e+01 1icfI g.28.1.1 44958 1phm 310 4.50e+01 1phm b.121.1.2,b.121.1.2 59015,59016 2biwA 490 4.50e+01 1m2tB 263 4.57e+01 b.42.2.1,b.42.2.1 84762,84763 1f6fB 210 4.58e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 2db1A 118 4.59e+01 1h6hA 143 4.61e+01 d.189.1.1 65681 1qtrA 317 4.64e+01 1qtrA c.69.1.7 34660 1az9 457 4.66e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 1t0pB 86 4.67e+01 1s6lA 212 4.69e+01 2cn3A 737 4.72e+01 1pxvA 183 4.75e+01 d.3.1.1 95301 1zc1A 208 4.75e+01 1wriA 93 4.76e+01 1dgwX 79 4.76e+01 1caxB b.82.1.2 28091 1q47A 495 4.76e+01 b.69.12.1 104532 1o13A 136 4.82e+01 c.55.5.1 80762 1c4rA 182 4.87e+01 1c4rA b.29.1.4 24229 1od3A 168 4.90e+01 b.18.1.10 86825 1um5H 217 4.92e+01 1y9wA 140 4.92e+01 1squA 155 4.92e+01 d.252.1.1 98971 1npsA 88 4.95e+01 1prs b.11.1.1 23622 1rreA 200 4.99e+01 d.14.1.10 97791 1lshA 1056 5.01e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1ift 263 5.01e+01 1mrj d.165.1.1 42211 1kexA 155 5.07e+01 b.18.1.2 77350 1zo2A 129 5.11e+01 1lvmA 229 5.14e+01 b.47.1.3 78243 1gw5S 142 5.17e+01 d.110.4.2 70633 1fvuB 125 5.20e+01 1ixxB d.169.1.1 42346 1z47A 355 5.21e+01 9gafA 295 5.24e+01 1apyA d.153.1.5 42008 1gouA 116 5.27e+01 d.1.1.2 65429 1gpiA 431 5.27e+01 b.29.1.10 65450 2fcr 173 5.29e+01 1rcf c.23.5.1 31151 1s4bP 674 5.33e+01 d.92.1.5 105252 1hd2A 161 5.34e+01 c.47.1.10 60962 1df7A 159 5.41e+01 3dfr c.71.1.1 34885 1yr0A 175 5.46e+01 1l3lA 234 5.53e+01 a.4.6.2,d.110.5.1 73541,73542 1rb9 53 5.54e+01 1rb9 g.41.5.1 45214 2cwpA 112 5.55e+01 1dymA 402 5.57e+01 1celA b.29.1.10 24304 1y1nA 291 5.66e+01 1jjiA 311 5.72e+01 c.69.1.2 66766 1i1qA 520 5.73e+01 1qdlA d.161.1.1 61543 1wba 175 5.77e+01 1wba b.42.4.1 25591 2carA 196 5.79e+01 1xeaA 323 5.79e+01 c.2.1.3,d.81.1.5 109572,109573 1wvqA 167 5.81e+01 1z2uA 150 5.84e+01 1z1zA 131 5.85e+01 1k82A 268 5.86e+01 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 1w9sA 142 5.90e+01 1gvhA 396 5.90e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1vmfA 145 5.92e+01 1ro5A 201 6.05e+01 d.108.1.3 105023 1r31A 428 6.07e+01 d.58.20.1,d.179.1.1 96897,96898 1u00A 227 6.10e+01 1wl9A 440 6.12e+01 1lkkA 105 6.15e+01 1lckA d.93.1.1 40412 2bwvA 440 6.19e+01 1qyaA 307 6.20e+01 d.21.1.2,d.21.1.2 104653,104654 1ud9A 245 6.21e+01 d.131.1.2,d.131.1.2 107768,107769 1tufA 434 6.22e+01 b.49.2.3,c.1.6.1 107335,107336 1z3qA 200 6.30e+01 1xy7A 166 6.32e+01 1aky 221 6.34e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1uoyA 64 6.36e+01 g.3.19.1 99709 1upqA 123 6.39e+01 1zz2A 360 6.41e+01 1a44 185 6.44e+01 1a44 b.17.1.1 23704 1q8iA 783 6.49e+01 c.55.3.5,e.8.1.1 96208,96209 1yqfA 203 6.50e+01 1lf6A 684 6.61e+01 a.102.1.5,b.30.5.5 77918,77919 1y4hA 188 6.62e+01 1o22A 170 6.62e+01 d.238.1.1 86557 1nu5A 370 6.66e+01 c.1.11.2,d.54.1.1 92183,92184 1c44A 123 6.69e+01 1qndA d.106.1.1 40795 1lvoA 302 6.72e+01 b.47.1.4 74284 1g7sA 594 6.73e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 2h28A 130 6.78e+01 1xtmA 175 6.82e+01 2gqrA 237 6.82e+01 1qwkA 317 6.84e+01 c.1.7.1 96482 2f5tX 233 6.84e+01 1n40A 396 6.87e+01 a.104.1.1 79977 1w7jA 795 6.91e+01 1ojjA 402 6.92e+01 b.29.1.10 93130 1qciA 262 6.96e+01 1qi7A d.165.1.1 42201 1idaA 99 7.00e+01 1fmb b.50.1.1 26715 1frrA 95 7.04e+01 1awd d.15.4.1 37674 1tiyA 164 7.12e+01 c.97.1.2 107012 2c7pA 327 7.13e+01 1ofdA 1520 7.17e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1svvA 359 7.17e+01 c.67.1.1 106054 1w2fA 276 7.19e+01 d.143.1.3 109125 1h6dA 433 7.20e+01 c.2.1.3,d.81.1.5 65656,65657 1wstA 417 7.22e+01 1v25A 541 7.25e+01 e.23.1.1 108275 2f0aA 98 7.25e+01 1vphA 149 7.25e+01 2cohA 202 7.25e+01 1wbsA 360 7.29e+01 1vj2A 126 7.31e+01 b.82.1.10 100796 1x31C 206 7.36e+01 1e42A 258 7.38e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1cqxA 403 7.40e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 2c9wA 169 7.47e+01 1jmxB 349 7.47e+01 b.69.2.2 66906 1wflA 74 7.57e+01 1khiA 176 7.62e+01 b.34.5.2,b.40.4.5 77408,77409 1jlnA 297 7.63e+01 1pty c.45.1.2 63172 6mhtA 327 7.72e+01 6mhtA c.66.1.26 34226 1ee8A 266 7.78e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1xewY 172 7.83e+01 1wjxA 122 7.84e+01 2fbeA 201 7.87e+01 1qvbA 481 7.87e+01 1qvbA c.1.8.4 28983 1vqoU 66 7.90e+01 1ms9A 648 7.94e+01 b.29.1.15,b.68.1.1 85088,85089 2g30A 258 7.97e+01 1dq3A 454 7.97e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1ruwA 69 8.01e+01 1ccr 112 8.03e+01 1ycc a.3.1.1 15877 1zkkA 167 8.04e+01 2gwdA 449 8.05e+01 1j1tA 233 8.06e+01 b.29.1.18 90771 2c2aA 258 8.07e+01 1ecsA 126 8.12e+01 1ecsA d.32.1.2 59407 1j97A 211 8.12e+01 1f5sA c.108.1.4 62753 1l7mA 211 8.15e+01 c.108.1.4 73664 1a62 130 8.16e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 3ebx 62 8.17e+01 3ebx g.7.1.1 44389 1sdjA 310 8.19e+01 d.21.1.2,d.21.1.2 98807,98808 1wqwA 235 8.19e+01 1n1tA 641 8.23e+01 b.29.1.15,b.68.1.1 79821,79822 1k47A 337 8.24e+01 d.14.1.5,d.58.26.4 72040,72041 2f4nA 273 8.24e+01 1v2bA 177 8.27e+01 d.107.1.2 108279 1fgyA 127 8.31e+01 1faoA b.55.1.1 26976 1qfhA 212 8.33e+01 1qfhA b.1.18.10,b.1.18.10 21893,21894 2f4wA 187 8.37e+01 1mxgA 435 8.39e+01 b.71.1.1,c.1.8.1 85193,85194 1txkA 498 8.39e+01 b.1.18.2,b.30.5.9 107425,107426 1f60A 458 8.40e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1n9bA 265 8.44e+01 e.3.1.1 85463 1thqA 170 8.46e+01 f.4.1.2 106920 1j5wA 298 8.48e+01 d.104.1.1 71589 1dgfA 497 8.49e+01 1cf9A e.5.1.1 42782 1yn8A 59 8.50e+01 1zzlA 351 8.52e+01 1f89A 291 8.53e+01 d.160.1.1 64988 1lshB 319 8.54e+01 f.7.1.1 74245 2bz8A 58 8.56e+01 2gc9A 179 8.56e+01 1uq5A 263 8.65e+01 d.165.1.1 99778 1vmeA 410 8.67e+01 c.23.5.1,d.157.1.3 108893,108894 1wm1A 317 8.70e+01 c.69.1.7 109405 1a8vA 121 8.70e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1wvfA 520 8.75e+01 1xqaA 113 8.75e+01 1k38A 254 8.78e+01 e.3.1.1 84303 2bcoA 350 8.79e+01 1s72U 66 8.85e+01 g.39.1.6 105340 1lf7A 182 8.89e+01 b.60.1.1 73878 1vmhA 144 8.90e+01 1eg9A 449 8.94e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1lk2A 274 8.96e+01 b.1.1.2,d.19.1.1 91056,91057 1ekgA 127 8.99e+01 1dlxA d.82.2.1 40021 1cojA 212 8.99e+01 1avmA a.2.11.1,d.44.1.1 15737,38734