# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 2f8aA 208 3.32e-32 1gp1A 198 3.70e-32 1gp1A c.47.1.10 33059 1st9A 143 1.53e-16 c.47.1.10 98987 2f9sA 151 2.87e-16 1jfuA 186 2.16e-14 c.47.1.10 62940 1z5yE 149 1.30e-10 1kngA 156 1.46e-10 c.47.1.10 72777 1xzoA 174 1.61e-10 2cvbA 188 2.46e-08 1lu4A 136 8.09e-08 c.47.1.10 91124 2fy6A 143 1.07e-07 1xvwA 160 1.74e-07 1qk8A 146 4.94e-07 1ewxA c.47.1.10 33061 1ewxA 146 5.69e-07 1ewxA c.47.1.10 33062 1o6jA 150 7.10e-07 c.47.1.10 81089 1zzoA 136 1.31e-06 1o8xA 146 1.79e-06 c.47.1.10 86681 1i5gA 144 3.34e-06 1ewxA c.47.1.10 61784 1thx 115 1.20e-05 1thx c.47.1.1 32732 1qmvA 197 1.39e-05 1qq2A c.47.1.10 33066 1t00A 112 1.46e-05 1wmjA 130 3.00e-05 2b7kA 200 3.53e-05 1nswA 105 5.51e-05 c.47.1.1 92097 1aiu 105 6.04e-05 1erv c.47.1.1 32746 1fb6A 105 7.21e-05 1thx c.47.1.1 32739 1nw2A 105 7.48e-05 c.47.1.1 92215 2trxA 108 8.42e-05 1thx c.47.1.1 32719 1dbyA 107 8.63e-05 1thx c.47.1.1 32734 1erv 105 9.89e-05 1erv c.47.1.1 32743 1tof 112 2.58e-04 1erv c.47.1.1 32733 1kebA 108 2.79e-04 c.47.1.1 77341 1w4vA 119 3.11e-04 1uvzA 119 3.55e-04 1qq2A 199 3.86e-04 1qq2A c.47.1.10 33064 1zyeA 220 4.48e-04 2f51A 118 6.58e-04 1mdiA 105 9.14e-04 1erv c.47.1.1 32755 1v98A 140 4.26e-03 1erw 105 4.46e-03 1erv c.47.1.1 32745 1r26A 125 5.60e-03 c.47.1.1 96847 1faaA 124 5.60e-03 1erv c.47.1.1 32738 1f9mA 112 6.91e-03 1erv c.47.1.1 32736 2a4vA 159 7.48e-03 1xvqA 175 1.37e-02 1x0rA 249 2.47e-02 1psqA 163 5.61e-02 c.47.1.10 88283 1erzA 303 5.83e-02 1erzA d.160.1.2 59498 1qxhA 167 6.04e-02 c.47.1.10 96528 1mek 120 6.11e-02 1erv c.47.1.2 32775 1uc7A 125 6.43e-02 c.47.1.1 99163 1uf5A 303 6.45e-02 d.160.1.2 107808 1bzyA 217 1.05e-01 1qk3A c.61.1.1 34071 2b5eA 504 1.43e-01 1xhfA 123 2.39e-01 1ufoA 238 2.49e-01 c.69.1.27 99344 1z7gA 217 2.95e-01 1eejA 216 7.14e-01 1eejA c.47.1.9,d.17.3.1 33057,38071 1hmpA 217 7.84e-01 1qk3A c.61.1.1 34075 1qfmA 710 8.54e-01 1qfmA b.69.7.1,c.69.1.4 27673,34641 1n8jA 186 1.06e+00 c.47.1.10 85401 1nfkA 325 1.21e+00 1a3qA b.1.18.1,b.2.5.3 21929,22444 1a8l 226 1.21e+00 1a8l c.47.1.2,c.47.1.2 32777,32778 1h2wA 710 1.25e+00 b.69.7.1,c.69.1.4 76596,76597 1j08A 226 1.30e+00 c.47.1.2,c.47.1.2 83855,83856 1svcP 365 1.35e+00 1a3qA b.1.18.1,b.2.5.3 21924,22443 1h2xA 710 1.37e+00 b.69.7.1,c.69.1.4 76598,76599 1v6cA 441 1.53e+00 1senA 164 1.56e+00 c.47.1.1 105465 1jbaA 204 1.60e+00 1rec a.39.1.5 17330 1sxrA 183 1.60e+00 d.118.1.1 106101 1xm7A 195 1.60e+00 1y9zA 441 1.96e+00 1e8nA 710 2.09e+00 1qfmA b.69.7.1,c.69.1.4 27675,34643 1xccA 220 2.48e+00 1cjbA 231 2.85e+00 1qk3A c.61.1.1 34079 5ukdA 194 3.27e+00 1zin c.37.1.1 31851 1dbrA 231 3.37e+00 1qk3A c.61.1.1 34041 1h4lD 147 3.65e+00 a.74.1.1 70873 2akrA 285 3.88e+00 1b9mA 265 4.15e+00 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1c53 79 4.50e+00 1c53 a.3.1.1 15801 2plc 274 4.65e+00 2plc c.1.18.2 29614 1ur1A 378 4.70e+00 c.1.8.3 99804 1dk8A 147 4.72e+00 1agrE a.91.1.1 18548 1aod 289 5.41e+00 2plc c.1.18.2 29615 1qk3A 233 5.56e+00 1qk3A c.61.1.1 34031 1zcoA 262 5.71e+00 1fsgA 233 5.80e+00 1qk3A c.61.1.1 34029 1zhhB 242 6.01e+00 1rie 129 6.43e+00 1rie b.33.1.1 24427 1h9sA 140 6.47e+00 1b9mA b.40.6.2,b.40.6.2 60843,60844 1jkw 323 6.51e+00 1jkw a.74.1.1,a.74.1.1 18356,18357 2f2lX 167 6.64e+00 1gh2A 107 6.67e+00 1erv c.47.1.1 60515 1u3aA 189 6.72e+00 1a23 189 6.73e+00 1fvkA c.47.1.13 90319 1bccE 196 6.84e+00 1rie b.33.1.1,f.23.12.1 24431,43699 1j31A 262 7.60e+00 d.160.1.2 90808 1ju2A 536 7.65e+00 c.3.1.2,d.16.1.1 77169,77170 1z3eA 132 7.79e+00 1ac1A 189 7.96e+00 1fvkA c.47.1.13 90326 1zx5A 300 7.96e+00 2aa4A 289 8.29e+00 1ppjE 196 8.46e+00 b.33.1.1,f.23.12.1 104260,104261 1jmeA 455 8.49e+00 a.104.1.1 66885 1sv0C 82 8.63e+00 a.60.1.1 106037 2his 312 8.72e+00 1taxA c.1.8.3 28918 2bmhA 455 8.84e+00 1bu7A a.104.1.1 18941 1kxu 333 8.91e+00 1jkw a.74.1.1,a.74.1.1 18358,18359 2dvh 79 8.98e+00 1c53 a.3.1.1 15803 2cokA 113 9.21e+00 1qycA 308 9.27e+00 c.2.1.2 96581 1yckA 175 9.42e+00 1pk1B 89 9.47e+00 1nal1 297 1.01e+01 1nal3 1qf9A 194 1.04e+01 1zin c.37.1.1 31848 1emsA 440 1.07e+01 1emsA d.13.1.1,d.160.1.1 37520,42086 1bvoA 175 1.09e+01 1a3qA b.2.5.3 22457 1dvh 79 1.10e+01 1c53 a.3.1.1 15802 1hl2A 297 1.17e+01 c.1.10.1 83581 1b5qA 472 1.18e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1bu7A 455 1.19e+01 1bu7A a.104.1.1 18937 1qk4A 233 1.22e+01 1qk3A c.61.1.1 34037 1unlD 208 1.25e+01 1ve3A 227 1.26e+01 1b37A 472 1.27e+01 1b37B c.3.1.2,d.16.1.5 30389,37953 1sflA 238 1.30e+01 1sfjA 238 1.30e+01 1n82A 331 1.32e+01 c.1.8.3 91703 2basA 431 1.39e+01 1gm6A 175 1.39e+01 b.60.1.1 70272 1f74A 293 1.44e+01 1nal3 c.1.10.1 29079 1jae 471 1.45e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1r85A 379 1.48e+01 c.1.8.3 104839 1a76 326 1.50e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1xdnA 277 1.59e+01 1acvA 189 1.63e+01 1fvkA c.47.1.13 90328 1y0zA 330 1.65e+01 1lh0A 213 1.67e+01 c.61.1.1 73896 1vjrA 271 1.68e+01 c.108.1.14 100832 1ionA 243 1.70e+01 c.37.1.10 62633 1mnaA 298 1.75e+01 c.69.1.22 79322 1o5kA 306 1.76e+01 c.1.10.1 92504 1hizA 379 1.77e+01 c.1.8.3 65841 1aroL 151 1.78e+01 1lba d.118.1.1 41063 1ltqA 301 1.80e+01 c.108.1.9,c.37.1.1 78208,78209 1qwgA 251 1.82e+01 c.1.27.1 96473 1aba 87 1.86e+01 1aba c.47.1.1 32760 1f6kA 293 1.87e+01 1nal3 c.1.10.1 29081 1fdyA 297 1.89e+01 1nal3 c.1.10.1 29071 1d4aA 273 1.92e+01 1d4aA c.23.5.3 31219 1lba 146 1.92e+01 1lba d.118.1.1 41062 1befA 181 1.93e+01 1befA b.47.1.3 26419 1fvkA 189 1.94e+01 1fvkA c.47.1.13 90351 1qnrA 344 1.94e+01 1qnoA c.1.8.3 28834 1hxhA 253 1.96e+01 c.2.1.2 76725 1xewX 182 1.98e+01 1nal3 297 1.99e+01 1nal3 1s0uA 408 2.01e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1df9A 191 2.02e+01 1befA b.47.1.3 26420 2ptd 298 2.03e+01 2plc c.1.18.2 29605 1tv8A 340 2.03e+01 c.1.28.3 107352 1qnoA 344 2.05e+01 1qnoA c.1.8.3 28838 1hj9A 226 2.06e+01 b.47.1.2 65845 1wmbA 260 2.07e+01 1xi7A 61 2.09e+01 1vdmA 153 2.10e+01 1b37B 472 2.15e+01 1b37B c.3.1.2,d.16.1.5 30390,37954 1cd1A 315 2.19e+01 1cd1A b.1.1.2,d.19.1.1 21579,38155 1dsbA 189 2.27e+01 1fvkA c.47.1.13 90347 1up7A 417 2.31e+01 1xjvA 294 2.35e+01 1itg 166 2.38e+01 1b9dA c.55.3.2 33661 1q98A 165 2.55e+01 c.47.1.10 96253 1gym 298 2.62e+01 2plc c.1.18.2 29606 1vpqA 273 2.65e+01 1g3qA 237 2.74e+01 1hyqA c.37.1.10 60237 1b9dA 163 2.79e+01 1b9dA c.55.3.2 33649 1dpgA 485 2.86e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 2b18A 164 2.86e+01 2fq4A 192 2.89e+01 1jgcA 161 2.91e+01 a.25.1.1 66673 1kxoA 184 2.95e+01 b.60.1.1 84475 2c5rA 67 3.01e+01 1zemA 262 3.07e+01 1bl3A 160 3.09e+01 1b9dA c.55.3.2 33655 1vl8A 267 3.11e+01 c.2.1.2 108733 2cybA 323 3.14e+01 1oihA 301 3.17e+01 b.82.2.5 93051 1y81A 138 3.17e+01 1sk4A 163 3.17e+01 d.118.1.1 105664 1aa6 715 3.23e+01 2napA b.52.2.2,c.81.1.1 26916,35324 3timA 250 3.27e+01 1amk c.1.1.1 28483 1hyvA 166 3.28e+01 1b9dA c.55.3.2 61424 1wzcA 249 3.30e+01 2ahqA 76 3.32e+01 2g8lA 299 3.38e+01 2fomB 185 3.39e+01 1vd2A 89 3.45e+01 d.15.2.2 108517 1jj2R 84 3.46e+01 1ffkP d.12.1.1 63103 1xsjA 778 3.46e+01 1s72S 85 3.54e+01 d.12.1.1 105338 1x42A 232 3.55e+01 1r3eA 309 3.58e+01 b.122.1.1,d.265.1.2 96907,96908 2itg 163 3.78e+01 1b9dA c.55.3.2 33669 1bw0A 416 3.78e+01 1bw0A c.67.1.1 34385 1l9wA 252 3.78e+01 c.1.10.1 84570 1tlqA 189 3.80e+01 a.195.1.1 107134 2c6qA 351 3.89e+01 1xk4C 113 3.93e+01 1fh9A 312 4.03e+01 1taxA c.1.8.3 28913 1c75A 71 4.04e+01 451c a.3.1.1 15796 1h4pA 408 4.08e+01 c.1.8.3 90617 1rypJ 204 4.10e+01 d.153.1.4 41878 1iuhA 198 4.14e+01 d.61.1.2 83711 2cvzA 289 4.17e+01 1g0uI 205 4.18e+01 d.153.1.4 41891 1oroA 213 4.19e+01 1opr c.61.1.1 34093 1z5lA 285 4.24e+01 1vjhA 122 4.27e+01 d.129.3.1 100811 1deuA 277 4.30e+01 1theB d.3.1.1 37085 1tp9A 162 4.31e+01 1yzfA 195 4.32e+01 8rucI 123 4.33e+01 1rboC d.73.1.1 39629 1yeyA 444 4.33e+01 2f2hA 773 4.34e+01 1o6dA 163 4.35e+01 c.116.1.3 92567 1wddS 128 4.45e+01 1cw0A 155 4.47e+01 1vsrA c.52.1.15 33333 1smd 496 4.56e+01 1smd b.71.1.1,c.1.8.1 27768,28755 2bznA 351 4.61e+01 1fmcA 255 4.64e+01 1cydA c.2.1.2 29856 1va4A 279 4.65e+01 c.69.1.12 108458 1vs0A 310 4.67e+01 1vqoS 85 4.69e+01 1kbqA 273 4.70e+01 c.23.5.3 68391 1fhdA 312 4.72e+01 1taxA c.1.8.3 28915 2ae2A 260 4.79e+01 1bdb c.2.1.2 29945 1rlmB 271 4.80e+01 1tpfA 250 4.83e+01 1amk c.1.1.1 28467 1srrA 124 4.85e+01 1dz3A c.23.1.1 31110 1vih 71 4.88e+01 1vih d.51.1.1 38807 2f5tX 233 4.92e+01 1lm4A 194 5.00e+01 d.167.1.1 84626 1kv5A 250 5.00e+01 c.1.1.1 73052 1vig 71 5.06e+01 1vih d.51.1.1 38806 1gcoA 261 5.07e+01 1ybvA c.2.1.2 29884 1jflA 228 5.10e+01 c.78.2.1,c.78.2.1 71656,71657 1qsgA 265 5.13e+01 1eny c.2.1.2 29935 1r0vA 305 5.17e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1jpmA 366 5.19e+01 c.1.11.2,d.54.1.1 67031,67032 1ae1A 273 5.25e+01 1bdb c.2.1.2 29943 1geeA 261 5.29e+01 c.2.1.2 90509 1edg 380 5.30e+01 1edg c.1.8.3 28807 1a8y 367 5.35e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1y8cA 246 5.41e+01 1cr6B 554 5.46e+01 1cr6B c.69.1.11,c.108.1.2 34688,43338 1t3bA 211 5.52e+01 c.47.1.9,d.17.3.1 106341,106342 1w4rA 195 5.56e+01 2fqxA 318 5.57e+01 1exqA 154 5.57e+01 1b9dA c.55.3.2 33646 1afp 51 5.63e+01 1afp g.26.1.1 44947 1fdo 715 5.63e+01 2napA b.52.2.2,c.81.1.1 26917,35325 1vetA 124 5.67e+01 d.110.7.1 108553 2cfuA 658 5.76e+01 1cqzA 554 5.77e+01 1cr6B c.69.1.11,c.108.1.2 34689,43339 1mwpA 96 5.78e+01 1mwpA d.170.2.1 42453 1oqcA 125 5.80e+01 a.24.15.1 87264 1qfeA 252 5.80e+01 1qfeA c.1.10.1 29167 1rlmA 271 5.81e+01 1px5A 349 5.83e+01 a.160.1.2,d.218.1.6 95277,95278 1uayA 242 5.83e+01 c.2.1.2 88390 1fdi 715 5.84e+01 2napA b.52.2.2,c.81.1.1 26918,35326 1rz3A 201 5.84e+01 c.37.1.6 98132 1y60A 169 5.88e+01 1ccwA 137 5.89e+01 1be1 c.23.6.1 31238 1ag9A 175 5.93e+01 1rcf c.23.5.1 31178 1ic7H 114 5.96e+01 1f3rB b.1.1.1 62258 1vpdA 299 6.03e+01 2bw3A 534 6.05e+01 1qbgA 272 6.10e+01 1d4aA c.23.5.3 31227 1gqnA 252 6.14e+01 c.1.10.1 90514 1c14A 262 6.25e+01 1eny c.2.1.2 29927 1iqrA 420 6.30e+01 a.99.1.1,c.28.1.1 66275,66276 1mnmA 100 6.40e+01 1mnmA d.88.1.1 40232 1vsrA 136 6.43e+01 1vsrA c.52.1.15 33332 1k1gA 131 6.49e+01 d.51.1.1 68015 1tc5A 194 6.51e+01 c.110.1.1 106752 2f9lA 199 6.52e+01 2g40A 224 6.52e+01 1tjyA 316 6.67e+01 c.93.1.1 107062 1egr 85 6.71e+01 1kte c.47.1.1 32765 1elkA 157 6.72e+01 1dvpA a.118.9.2 19217 1yc7A 124 6.74e+01 1mb3A 124 6.75e+01 c.23.1.1 78907 1sep 261 6.75e+01 1oaa c.2.1.2 29830 1qrdA 273 6.84e+01 1d4aA c.23.5.3 31217 1x82A 190 6.89e+01 1nu7D 282 6.91e+01 a.8.6.1,a.8.6.1 92191,92192 1oaa 259 6.97e+01 1oaa c.2.1.2 29829 2gp4A 628 7.00e+01 1w6uA 302 7.07e+01 1v77A 212 7.14e+01 c.6.3.2 108402 1rboC 123 7.14e+01 1rboC d.73.1.1 39634 1lqxA 82 7.26e+01 d.120.1.1 78153 2bnkA 67 7.30e+01 1w27A 714 7.35e+01 1mil 104 7.39e+01 1d4tA d.93.1.1 40496 1xf1A 926 7.46e+01 1ovqA 138 7.46e+01 c.55.3.8 93607 1qg6A 261 7.56e+01 1eny c.2.1.2 29919 2f3yA 148 7.58e+01 1up6A 416 7.58e+01 c.2.1.5,d.162.1.2 107976,107977 1f1uA 323 7.63e+01 d.32.1.3,d.32.1.3 83200,83201 1wouA 123 7.63e+01 c.47.1.16 109471 1vj0A 380 7.63e+01 b.35.1.2,c.2.1.1 100786,100787 1qkkA 155 7.67e+01 1dbwA c.23.1.1 31104 1l3yA 41 7.73e+01 g.3.11.6 73558 1fjxA 327 7.74e+01 6mhtA c.66.1.26 34228 1ku1A 230 7.83e+01 a.118.3.1 72996 1bjx 110 7.84e+01 1bjx c.47.1.2 32774 1jmmA 377 7.85e+01 b.30.6.1 71749 1t5bA 201 7.85e+01 c.23.5.3 106433 2bjxA 110 7.85e+01 1bjx c.47.1.2 32776 1wwtA 88 8.01e+01 1bdb 277 8.04e+01 1bdb c.2.1.2 29874 2eryA 172 8.08e+01 1yksA 440 8.15e+01 1ecsA 126 8.27e+01 1ecsA d.32.1.2 59407 2fazA 78 8.27e+01 1l5zA 155 8.31e+01 c.23.1.1 77722 1skoA 143 8.34e+01 d.110.7.1 105676 1xbtA 193 8.39e+01 2f2lA 167 8.41e+01 2a1dD 329 8.42e+01 1euu 605 8.43e+01 1eut b.1.18.2,b.18.1.1,b.68.1.1 21892,23713,27610 1tx2A 297 8.46e+01 c.1.21.1 107420 1uacH 114 8.47e+01 b.1.1.1 99132 1tm9A 137 8.51e+01 a.225.1.1 107150 1fliA 98 8.52e+01 1awcA a.4.5.21 16160 1a79A 171 8.61e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1enfA 212 8.63e+01 3seb b.40.2.2,d.15.6.1 25198,37787 1opr 213 8.67e+01 1opr c.61.1.1 34091 1x1tA 260 8.70e+01 1sf8A 126 8.71e+01 d.271.1.1 105472 3ygsP 97 8.74e+01 3ygsP a.77.1.3 18435 1j97A 211 8.86e+01 1f5sA c.108.1.4 62753 1jtdB 273 8.89e+01 b.69.5.2 67265 2a4aA 281 8.94e+01