# List of top-scoring protein chains for t06-100-30-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 1.36e-02 b.82.1.1 86385 2al1A 436 9.35e-01 2al2A 436 1.03e+00 1ww9A 392 1.05e+00 1llnA 262 1.12e+00 d.165.1.1 84625 1oneA 436 1.21e+00 4enl c.1.11.1,d.54.1.1 29200,38844 1f9zA 135 1.31e+00 1qipA d.32.1.1 38484 1tqzA 133 1.33e+00 2grrA 161 1.58e+00 1umzA 278 1.69e+00 b.29.1.2 99639 1u9aA 160 1.81e+00 1u9aA d.20.1.1 38333 1wwrA 171 2.01e+00 1q8bA 105 2.26e+00 d.58.4.6 96201 1acf 125 2.98e+00 3nul d.110.1.1 40882 1lfdA 87 2.99e+00 1lfdA d.15.1.5 37622 2as0A 396 3.15e+00 1o97C 264 3.16e+00 c.26.2.3 81232 1eo1A 124 3.26e+00 1eo1A c.55.5.1 33739 1pk6A 133 3.35e+00 b.22.1.1 94801 1qipA 183 3.45e+00 1qipA d.32.1.1 38470 1w8oA 601 3.79e+00 2a38A 194 3.88e+00 1xfsA 178 3.89e+00 d.129.3.5 109589 1svpA 161 4.10e+00 1svpA b.47.1.3 26384 1lkdA 297 4.66e+00 d.32.1.3,d.32.1.3 78059,78060 1nszA 347 5.01e+00 b.30.5.4 80724 1khdA 345 5.43e+00 a.46.2.1,c.27.1.1 77400,77401 1ug6A 431 5.47e+00 c.1.8.4 88490 1p5zB 263 5.50e+00 c.37.1.1 87815 1zboA 210 5.56e+00 1jmcA 246 5.63e+00 1jmcA b.40.4.3,b.40.4.3 25300,25301 1syxB 86 5.63e+00 1dkzA 219 5.96e+00 1dkzA a.8.4.1,b.130.1.1 90345,90346 1juhA 350 5.97e+00 b.82.1.5 71884 1jtdB 273 6.07e+00 b.69.5.2 67265 1yhfA 115 6.33e+00 1a2pA 110 6.43e+00 1b20A d.1.1.2 36140 1l8bA 190 6.70e+00 d.86.1.1 73683 2gaxA 135 6.76e+00 1o0xA 262 7.00e+00 d.127.1.1 80755 1q67A 231 7.02e+00 b.55.1.7 95960 1s5aA 150 7.10e+00 d.17.4.10 98525 1m98A 317 7.15e+00 a.175.1.1,d.17.4.6 78866,78867 1qz8A 113 7.30e+00 b.140.1.1 96619 2fymA 431 7.43e+00 1vquA 374 7.54e+00 2c4bA 143 7.62e+00 1gy7A 125 7.63e+00 d.17.4.2 70738 2fqpA 97 7.84e+00 1qv1A 195 8.04e+00 a.39.1.5 96347 2fa8A 105 8.17e+00 1q8fA 313 8.34e+00 c.70.1.1 96203 1vkdA 338 8.60e+00 b.67.2.4 108644 1zn6A 227 8.67e+00 1gbg 214 8.91e+00 1axkA b.29.1.2 24171 1ne8A 117 9.20e+00 b.34.6.2 80424 1zgoA 223 9.35e+00 1voqa 90 9.40e+00 2fhfA 1083 9.60e+00 1o5uA 101 9.83e+00 b.82.1.8 92518 1zn8A 180 9.92e+00 3nul 130 9.94e+00 3nul d.110.1.1 40891 2d93A 134 1.00e+01 2fp8A 322 1.00e+01 1jatA 155 1.02e+01 1u9aA d.20.1.1 62818 1vmjA 151 1.07e+01 1vqoQ 96 1.08e+01 1kdgA 546 1.08e+01 c.3.1.2,d.16.1.1 77337,77338 2ffsA 157 1.08e+01 1nnxA 109 1.11e+01 b.40.10.1 92013 2pia 321 1.14e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 2gupA 292 1.17e+01 2ayh 214 1.17e+01 1axkA b.29.1.2 24172 1urrA 102 1.17e+01 d.58.10.1 107998 1ts9A 102 1.21e+01 1zt3A 80 1.23e+01 1vplA 256 1.31e+01 1vavA 222 1.32e+01 b.29.1.18 108472 1o12A 376 1.32e+01 b.92.1.5,c.1.9.10 80758,80759 1ri6A 343 1.35e+01 b.69.11.1 97503 2ck3D 482 1.36e+01 1jv1A 505 1.36e+01 c.68.1.5 71892 2bepA 159 1.37e+01 2b6dA 345 1.42e+01 1fyeA 229 1.44e+01 1fyeA c.23.16.4 31477 1h8eD 482 1.47e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1e8gA 560 1.47e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1vr3A 191 1.50e+01 2ltnA 181 1.52e+01 1led b.29.1.1 24024 1fzvA 132 1.61e+01 1vpfA g.17.1.1 60159 1ym0A 238 1.67e+01 1n7zA 334 1.67e+01 b.127.1.1 85380 1rzhH 260 1.68e+01 b.41.1.1,f.23.10.1 98162,98163 1i3zA 103 1.76e+01 d.93.1.1 83667 1lcyA 325 1.81e+01 b.36.1.4,b.47.1.1 73834,73835 1gwmA 153 1.84e+01 b.18.1.19 83348 1azsA 220 1.87e+01 1azsA d.58.29.1 39416 2bwnA 401 1.90e+01 1dx5I 118 1.90e+01 1dx5I g.3.11.1,g.3.11.1,g.3.11.1 44302,44303,44304 1ukgA 252 1.97e+01 b.29.1.1 99489 2ge3A 170 1.97e+01 1tq5A 242 1.99e+01 2cz1A 206 1.99e+01 1xrtA 467 2.00e+01 1wz4A 23 2.03e+01 1m1fA 110 2.05e+01 b.34.6.2 78401 1twiA 434 2.05e+01 b.49.2.3,c.1.6.1 107399,107400 1j1qA 261 2.05e+01 d.165.1.1 90768 1qy6A 274 2.07e+01 b.47.1.1 96574 1u2cA 246 2.09e+01 b.1.6.2,d.272.1.1 107610,107611 2c7xA 436 2.13e+01 2cdcA 366 2.14e+01 2avtA 378 2.15e+01 2cr9A 139 2.18e+01 1ctt 294 2.19e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1j4aA 333 2.20e+01 c.2.1.4,c.23.12.1 71502,71503 1qfoA 119 2.23e+01 1qfoA b.1.1.1 19708 2biqA 219 2.24e+01 1d4tA 104 2.26e+01 1d4tA d.93.1.1 40537 1gtkA 313 2.26e+01 c.94.1.1,d.50.2.1 76346,76347 1u69A 163 2.37e+01 d.32.1.7 107699 1kxqE 120 2.41e+01 b.1.1.1 73171 1i4uA 181 2.46e+01 b.60.1.1 61732 1rypH 205 2.47e+01 d.153.1.4 41876 1iv8A 720 2.47e+01 b.71.1.1,c.1.8.1 76842,76843 1m4jA 142 2.48e+01 d.109.1.2 78602 1vpkA 378 2.50e+01 2cy2A 174 2.50e+01 1nqjA 119 2.50e+01 b.23.2.1 86031 1kw3B 292 2.53e+01 d.32.1.3,d.32.1.3 77549,77550 2ac0A 200 2.53e+01 1olzA 663 2.57e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1nezG 128 2.61e+01 b.1.1.1 85592 1vf8A 377 2.63e+01 1zgkA 308 2.67e+01 1xtoA 311 2.68e+01 1pcfA 66 2.68e+01 1pcfA d.18.1.1 38142 1lj5A 379 2.69e+01 e.1.1.1 73928 1s4iA 175 2.71e+01 1dxrH 258 2.73e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1h0hB 214 2.81e+01 d.58.1.5 76437 1wkqA 164 2.85e+01 c.97.1.2 109393 1mvfD 82 2.86e+01 b.129.1.1 85143 1yovA 537 2.87e+01 1w2lA 99 2.90e+01 1icfI 65 2.91e+01 1icfI g.28.1.1 44958 2biwA 490 2.97e+01 1m2tB 263 3.02e+01 b.42.2.1,b.42.2.1 84762,84763 2db1A 118 3.04e+01 1h6hA 143 3.05e+01 d.189.1.1 65681 1t0pB 86 3.09e+01 1s6lA 212 3.10e+01 2cn3A 737 3.12e+01 1pxvA 183 3.14e+01 d.3.1.1 95301 1zc1A 208 3.14e+01 1wriA 93 3.15e+01 1dgwX 79 3.15e+01 1caxB b.82.1.2 28091 1o13A 136 3.19e+01 c.55.5.1 80762 1c4rA 182 3.22e+01 1c4rA b.29.1.4 24229 1od3A 168 3.24e+01 b.18.1.10 86825 1um5H 217 3.25e+01 1y9wA 140 3.26e+01 1squA 155 3.26e+01 d.252.1.1 98971 1npsA 88 3.28e+01 1prs b.11.1.1 23622 1rreA 200 3.30e+01 d.14.1.10 97791 1lshA 1056 3.31e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1kexA 155 3.36e+01 b.18.1.2 77350 1zo2A 129 3.38e+01 1lvmA 229 3.40e+01 b.47.1.3 78243 1gw5S 142 3.42e+01 d.110.4.2 70633 1fvuB 125 3.44e+01 1ixxB d.169.1.1 42346 1z47A 355 3.44e+01 1gouA 116 3.48e+01 d.1.1.2 65429 1gpiA 431 3.48e+01 b.29.1.10 65450 2fcr 173 3.50e+01 1rcf c.23.5.1 31151 1s4bP 674 3.52e+01 d.92.1.5 105252 1hd2A 161 3.53e+01 c.47.1.10 60962 1df7A 159 3.58e+01 3dfr c.71.1.1 34885 1l3lA 234 3.66e+01 a.4.6.2,d.110.5.1 73541,73542 1rb9 53 3.66e+01 1rb9 g.41.5.1 45214 2cwpA 112 3.67e+01 1y1nA 291 3.75e+01 1i1qA 520 3.79e+01 1qdlA d.161.1.1 61543 1wba 175 3.82e+01 1wba b.42.4.1 25591 2carA 196 3.83e+01 1xeaA 323 3.83e+01 c.2.1.3,d.81.1.5 109572,109573 1wvqA 167 3.85e+01 1z2uA 150 3.86e+01 1z1zA 131 3.87e+01 1k82A 268 3.88e+01 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 1w9sA 142 3.90e+01 1gvhA 396 3.90e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1vmfA 145 3.91e+01 1ro5A 201 4.00e+01 d.108.1.3 105023 1r31A 428 4.01e+01 d.58.20.1,d.179.1.1 96897,96898 1u00A 227 4.04e+01 1lkkA 105 4.07e+01 1lckA d.93.1.1 40412 2bwvA 440 4.09e+01 1qyaA 307 4.10e+01 d.21.1.2,d.21.1.2 104653,104654 1ud9A 245 4.11e+01 d.131.1.2,d.131.1.2 107768,107769 1z3qA 200 4.17e+01 1xy7A 166 4.18e+01 1aky 221 4.20e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1uoyA 64 4.20e+01 g.3.19.1 99709 1upqA 123 4.22e+01 1q8iA 783 4.29e+01 c.55.3.5,e.8.1.1 96208,96209 1yqfA 203 4.30e+01 1lf6A 684 4.37e+01 a.102.1.5,b.30.5.5 77918,77919 1y4hA 188 4.38e+01 1o22A 170 4.38e+01 d.238.1.1 86557 1nu5A 370 4.41e+01 c.1.11.2,d.54.1.1 92183,92184 1c44A 123 4.43e+01 1qndA d.106.1.1 40795 1lvoA 302 4.45e+01 b.47.1.4 74284 1g7sA 594 4.45e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 2h28A 130 4.49e+01 1xtmA 175 4.51e+01 2gqrA 237 4.51e+01 1qwkA 317 4.52e+01 c.1.7.1 96482 2f5tX 233 4.53e+01 1n40A 396 4.55e+01 a.104.1.1 79977 1w7jA 795 4.57e+01 1ojjA 402 4.58e+01 b.29.1.10 93130 1idaA 99 4.63e+01 1fmb b.50.1.1 26715 1frrA 95 4.66e+01 1awd d.15.4.1 37674 2c7pA 327 4.72e+01 1ofdA 1520 4.74e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1svvA 359 4.75e+01 c.67.1.1 106054 1w2fA 276 4.76e+01 d.143.1.3 109125 1h6dA 433 4.76e+01 c.2.1.3,d.81.1.5 65656,65657 1wstA 417 4.78e+01 1v25A 541 4.80e+01 e.23.1.1 108275 2f0aA 98 4.80e+01 1vphA 149 4.80e+01 2cohA 202 4.80e+01 1vj2A 126 4.84e+01 b.82.1.10 100796 1x31C 206 4.87e+01 1e42A 258 4.88e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1cqxA 403 4.89e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 2c9wA 169 4.94e+01 1jmxB 349 4.95e+01 b.69.2.2 66906 1wflA 74 5.01e+01 1khiA 176 5.04e+01 b.34.5.2,b.40.4.5 77408,77409 1ee8A 266 5.15e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1xewY 172 5.19e+01 1wjxA 122 5.19e+01 1vqoU 66 5.23e+01 1ms9A 648 5.25e+01 b.29.1.15,b.68.1.1 85088,85089 2g30A 258 5.27e+01 1dq3A 454 5.28e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1ruwA 69 5.30e+01 1ccr 112 5.32e+01 1ycc a.3.1.1 15877 1zkkA 167 5.32e+01 2gwdA 449 5.33e+01 1j1tA 233 5.33e+01 b.29.1.18 90771 2c2aA 258 5.34e+01 1ecsA 126 5.37e+01 1ecsA d.32.1.2 59407 1l7mA 211 5.39e+01 c.108.1.4 73664 1a62 130 5.40e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1sdjA 310 5.42e+01 d.21.1.2,d.21.1.2 98807,98808 1wqwA 235 5.42e+01 1n1tA 641 5.45e+01 b.29.1.15,b.68.1.1 79821,79822 1k47A 337 5.46e+01 d.14.1.5,d.58.26.4 72040,72041 2f4nA 273 5.46e+01 1v2bA 177 5.48e+01 d.107.1.2 108279 1fgyA 127 5.50e+01 1faoA b.55.1.1 26976 1qfhA 212 5.52e+01 1qfhA b.1.18.10,b.1.18.10 21893,21894 2f4wA 187 5.54e+01 1mxgA 435 5.55e+01 b.71.1.1,c.1.8.1 85193,85194 1txkA 498 5.55e+01 b.1.18.2,b.30.5.9 107425,107426 1f60A 458 5.56e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1n9bA 265 5.59e+01 e.3.1.1 85463 1thqA 170 5.60e+01 f.4.1.2 106920 1j5wA 298 5.61e+01 d.104.1.1 71589 1dgfA 497 5.62e+01 1cf9A e.5.1.1 42782 1yn8A 59 5.63e+01 1f89A 291 5.65e+01 d.160.1.1 64988 1lshB 319 5.65e+01 f.7.1.1 74245 2gc9A 179 5.67e+01 1uq5A 263 5.73e+01 d.165.1.1 99778 1vmeA 410 5.74e+01 c.23.5.1,d.157.1.3 108893,108894 1wm1A 317 5.76e+01 c.69.1.7 109405 1wvfA 520 5.79e+01 1xqaA 113 5.79e+01 1k38A 254 5.81e+01 e.3.1.1 84303 1lf7A 182 5.89e+01 b.60.1.1 73878 1vmhA 144 5.89e+01 1lk2A 274 5.93e+01 b.1.1.2,d.19.1.1 91056,91057 1ekgA 127 5.95e+01 1dlxA d.82.2.1 40021 1cojA 212 5.95e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1kbvA 327 5.99e+01 b.6.1.3,b.6.1.3 68395,68396 1nytA 271 6.02e+01 c.2.1.7,c.58.1.5 86417,86418 2frgP 106 6.06e+01 1xdfA 157 6.07e+01 2bhuA 602 6.09e+01 1cs6A 382 6.12e+01 1cs6A b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21760,21761,21762,21763 1eaxA 241 6.12e+01 b.47.1.2 64889 1o7nA 449 6.21e+01 b.33.1.2,d.129.3.3 81162,81163 1ty0A 211 6.22e+01 b.40.2.2,d.15.6.1 107440,107441 1v37A 177 6.23e+01 1z4rA 168 6.25e+01 1ig3A 263 6.29e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1rgyA 360 6.29e+01 e.3.1.1 97456 1cewI 108 6.34e+01 1cewI d.17.1.2 37999 1ufkA 254 6.39e+01 c.66.1.39 99340 1io1A 398 6.40e+01 1io1A e.32.1.1 62611 1szqA 483 6.49e+01 e.44.1.1 99045 1gpeA 587 6.54e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1jofA 365 6.56e+01 b.69.10.1 71775 2biiA 424 6.57e+01 1g5aA 628 6.65e+01 b.71.1.1,c.1.8.1 65152,65153 1m5q1 130 6.65e+01 1vrtA 560 6.67e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1p3dA 475 6.77e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1tt8A 164 6.82e+01 1cruA 454 6.84e+01 1c9uA b.68.2.1 27617 1gh9A 71 6.91e+01 1gh9A g.41.6.1 45266 2ai4A 119 6.92e+01 2gfsA 372 6.92e+01 1p4kA 295 6.92e+01 d.153.1.5 87772 1p1mA 406 6.92e+01 b.92.1.4,c.1.9.9 87696,87697 2ftwA 521 6.93e+01 1nziA 159 6.98e+01 b.23.1.1,g.3.11.1 86449,86450 1ktbA 405 6.99e+01 b.71.1.1,c.1.8.1 72960,72961 2d7nA 93 7.00e+01 2gfaA 119 7.11e+01 1who 96 7.23e+01 1who b.7.3.1 23215 1srqA 341 7.24e+01 e.55.1.1 105967 1q8yA 373 7.28e+01 d.144.1.7 96234 1pbyB 337 7.32e+01 b.69.2.2 94422 1u9kA 114 7.35e+01 1xtzA 264 7.47e+01 1m93B 245 7.52e+01 1wfyA 104 7.52e+01 1yljA 263 7.53e+01 1m0wA 491 7.56e+01 c.30.1.4,d.142.1.6 78363,78364 2frnA 278 7.57e+01 1oboA 169 7.57e+01 c.23.5.1 86776 1bqk 124 7.62e+01 1bqk b.6.1.1 22889 1jmsA 381 7.64e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1khoA 370 7.68e+01 a.124.1.1,b.12.1.3 72489,72490 1rqpA 299 7.71e+01 b.141.1.1,c.132.1.1 97754,97755 2bdeA 470 7.72e+01 1m2dA 110 7.73e+01 c.47.1.11 78476 1dytA 133 7.80e+01 7rsa d.5.1.1 37288 3ezmA 101 7.95e+01 3ezmA b.89.1.1 28395 1fviA 297 7.96e+01 1fviA b.40.4.6,d.142.2.1 25364,41578 1ti6B 274 8.04e+01 b.3.5.1,d.58.1.5 106976,106977 1v0aA 178 8.07e+01 2a46A 238 8.14e+01 1xaoA 121 8.15e+01 1gl4B 98 8.16e+01 b.1.1.4 65288 1zkjA 359 8.21e+01 1ppfE 218 8.22e+01 1a7s b.47.1.2 26234 1gutA 68 8.31e+01 b.40.6.1 65576 1npeA 267 8.38e+01 b.68.5.1 92032 2gzqA 200 8.39e+01 1f1uA 323 8.43e+01 d.32.1.3,d.32.1.3 83200,83201 2plt 98 8.49e+01 1plc b.6.1.1 22862 1sv0C 82 8.61e+01 a.60.1.1 106037 1neu 124 8.66e+01 1neu b.1.1.1 19704 2bw0A 329 8.71e+01 1z7gA 217 8.72e+01 1oz2A 331 8.73e+01 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 1u2pA 163 8.75e+01 1z3xA 238 8.80e+01 1jb9A 316 8.97e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 2g6yA 217 8.99e+01