# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 1v7lA 163 5.49e-02 1v3fA 120 4.47e-01 a.4.5.31 100289 1qdlB 195 6.30e-01 1qdlB c.23.16.1 31437 1vddA 228 3.11e+00 e.49.1.1 108519 1cs1C 386 3.42e+00 1ibjA c.67.1.3 34401 1vbkA 307 3.55e+00 1cs1A 386 3.60e+00 1ibjA c.67.1.3 34399 2ganA 190 4.07e+00 1sheA 103 4.71e+00 d.274.1.1 105551 1a5z 319 5.93e+00 1ceqA c.2.1.5,d.162.1.1 30181,42148 2fhi 147 6.41e+00 1fit d.13.1.1 37505 1kzhA 555 6.72e+00 c.89.1.1 73361 1uhwA 109 7.58e+00 a.4.5.31 99410 1m1nB 522 7.70e+00 c.92.2.3 78418 1ldnA 316 7.90e+00 1hyhA c.2.1.5,d.162.1.1 30166,42133 1iygA 133 8.05e+00 a.118.8.1 76947 1qmeA 702 8.12e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1nnfA 309 8.70e+00 c.94.1.1 85903 1cliA 345 8.70e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1rpyA 114 8.74e+00 d.93.1.1 97718 1nznA 126 9.18e+00 a.118.8.1 92382 2minB 522 9.32e+00 1qguB c.92.2.3 35610 3minB 522 9.35e+00 1qguB c.92.2.3 35606 1mrp 309 9.43e+00 1mrp c.94.1.1 35796 1jyeA 349 9.65e+00 c.93.1.1 67455 1c1yB 77 9.65e+00 1c1yB d.15.1.5 37618 1dvfD 120 1.03e+01 1mfa b.1.1.1 20107 1i1hA 219 1.11e+01 1f2vA c.23.17.1 61530 1iy8A 267 1.12e+01 c.2.1.2 83774 1uarA 285 1.16e+01 c.46.1.2,c.46.1.2 107762,107763 2beiA 170 1.18e+01 1bg6 359 1.18e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1tlfA 301 1.18e+01 1tlfA c.93.1.1 35687 1zbmA 280 1.22e+01 1l1yA 678 1.28e+01 a.102.1.2 73486 1vhsA 175 1.28e+01 d.108.1.1 100698 1nbwB 117 1.29e+01 c.51.3.2 80396 1cjcA 460 1.31e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1zemA 262 1.33e+01 1r0wA 286 1.35e+01 c.37.1.12 96754 2coeA 120 1.38e+01 1jbkA 195 1.43e+01 c.37.1.20 71631 1lx7A 253 1.44e+01 c.56.2.1 74329 1efaA 333 1.44e+01 1tlfA a.35.1.5,c.93.1.1 17106,35691 1rxyA 253 1.44e+01 c.56.2.1 98065 1vprA 374 1.47e+01 1guaB 81 1.50e+01 1c1yB d.15.1.5 37619 1hw7A 255 1.50e+01 1i7fA d.193.1.1 61297 1a4sA 503 1.54e+01 1bpwA c.82.1.1 35361 2cy0A 263 1.56e+01 2d5cA 263 1.57e+01 1qs0B 338 1.58e+01 1qs0B c.36.1.7,c.48.1.2 31830,33103 1wxdA 263 1.58e+01 1jud 232 1.59e+01 1qq5A c.108.1.1 43325 1gp1A 198 1.67e+01 1gp1A c.47.1.10 33059 1ru3A 732 1.79e+01 e.26.1.3 97835 1k78A 149 1.81e+01 a.4.1.5,a.4.1.5 68255,68256 1w36D 608 1.84e+01 1ufaA 520 1.86e+01 a.8.3.3,c.6.2.4 99329,99330 1g6uA 48 1.87e+01 1g6uA k.9.1.1 46425 1ab3 88 1.93e+01 1a32 a.16.1.2 16395 1rliA 184 1.94e+01 c.23.5.6 97647 1nxiA 132 1.94e+01 d.58.47.1 86381 1yliA 153 1.95e+01 1aquA 297 1.96e+01 1aquA c.37.1.5 31942 1w2wB 191 1.99e+01 1gheA 177 1.99e+01 d.108.1.1 76222 1g0oA 283 1.99e+01 1ybvA c.2.1.2 60181 1sxgA 280 2.04e+01 1zrn 232 2.04e+01 1qq5A c.108.1.1 43323 1gz6A 319 2.11e+01 c.2.1.2 76410 1rhd 293 2.24e+01 1rhs c.46.1.2,c.46.1.2 32715,32716 1nbwA 607 2.24e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 9gafA 295 2.25e+01 1apyA d.153.1.5 42008 1or7C 90 2.27e+01 a.180.1.1 87336 1whzA 70 2.32e+01 1p4kA 295 2.34e+01 d.153.1.5 87772 1j5pA 253 2.37e+01 d.81.1.3,c.2.1.3 71577,83092 2arkA 188 2.39e+01 1rhs 296 2.43e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1g3qA 237 2.46e+01 1hyqA c.37.1.10 60237 1g8lA 411 2.47e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1pmd 675 2.47e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37491,37492,42562,42771 1ls6A 295 2.50e+01 c.37.1.5 91115 1q1gA 276 2.57e+01 c.56.2.1 95574 2aalA 131 2.58e+01 1mjgM 729 2.59e+01 e.26.1.3 79204 1fit 147 2.63e+01 1fit d.13.1.1 37499 1geeA 261 2.63e+01 c.2.1.2 90509 1gcoA 261 2.65e+01 1ybvA c.2.1.2 29884 1khdA 345 2.67e+01 a.46.2.1,c.27.1.1 77400,77401 1gggB 226 2.68e+01 1lst c.94.1.1 35818 1a3rH 218 2.71e+01 1igtB b.1.1.1,b.1.1.2 19781,20891 2gnxA 365 2.72e+01 1pme 380 2.76e+01 1hcl d.144.1.7 41653 1k3fA 253 2.82e+01 c.56.2.1 68105 1mx3A 347 2.85e+01 c.2.1.4,c.23.12.1 79638,79639 2fepA 289 2.87e+01 1uxtA 501 2.91e+01 c.82.1.1 108125 1ri5A 298 2.95e+01 c.66.1.34 97502 1d2dA 59 2.98e+01 1r1bA a.16.1.3 16397 1rypL 212 3.03e+01 d.153.1.4 41880 1g65K 211 3.03e+01 d.153.1.4 41907 3erk 364 3.04e+01 1hcl d.144.1.7 41654 1ufoA 238 3.05e+01 c.69.1.27 99344 2gdzA 267 3.07e+01 2aa4A 289 3.08e+01 1cjbA 231 3.11e+01 1qk3A c.61.1.1 34079 1g3kA 174 3.13e+01 1nedA d.153.1.4 41989 1npdA 288 3.15e+01 c.2.1.7,c.58.1.5 80681,80682 1sc6A 404 3.16e+01 2stv 195 3.20e+01 2stv b.121.7.1 23287 2bukA 196 3.21e+01 1zzgA 415 3.24e+01 1fjhB 257 3.25e+01 1fjhB c.2.1.2 29871 1vbiA 344 3.25e+01 1ad3A 452 3.27e+01 1ad3A c.82.1.1 35335 1ja9A 274 3.33e+01 c.2.1.2 62817 1xebA 150 3.33e+01 2evaA 307 3.38e+01 1fjhA 257 3.47e+01 1fjhB c.2.1.2 29870 1ml8A 134 3.52e+01 d.227.1.2 85013 1i9aA 182 3.54e+01 1i9aA d.113.1.2 62082 1f56A 91 3.56e+01 2cbp b.6.1.1 22896 1zzlA 351 3.67e+01 1duvG 333 3.70e+01 1othA c.78.1.1,c.78.1.1 35228,35229 2gwhA 298 3.74e+01 2f8aA 208 3.78e+01 1z1dA 103 3.90e+01 1gggA 226 3.92e+01 1lst c.94.1.1 35817 1xcbA 211 3.93e+01 a.4.5.38,c.2.1.12 109552,109553 1wwkA 307 3.93e+01 1i7fA 292 3.97e+01 1i7fA d.193.1.1 61888 1r1bA 59 3.99e+01 1r1bA a.16.1.3 16396 1dvkA 173 4.02e+01 1dvkA a.72.1.1 18319 1zb9A 143 4.04e+01 1z85A 234 4.04e+01 2d0oA 610 4.08e+01 1pk6A 133 4.12e+01 b.22.1.1 94801 1tvoA 368 4.12e+01 1yrvA 169 4.15e+01 1bpwA 503 4.20e+01 1bpwA c.82.1.1 35365 1r4wA 226 4.22e+01 c.47.1.13 97050 1pysB 785 4.24e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16299,16300,25311,39310,40779,41455 1neu 124 4.24e+01 1neu b.1.1.1 19704 1j1uA 306 4.24e+01 c.26.1.1 83980 1f6kA 293 4.26e+01 1nal3 c.1.10.1 29081 1m1eB 81 4.29e+01 a.161.1.1 78400 1f74A 293 4.36e+01 1nal3 c.1.10.1 29079 2gfsA 372 4.38e+01 1rwtA 232 4.38e+01 f.43.1.1 97992 1ybvA 283 4.46e+01 1ybvA c.2.1.2 29948 1ooeA 236 4.52e+01 c.2.1.2 87196 1e0cA 271 4.59e+01 1e0cA c.46.1.2,c.46.1.2 32717,32718 1i74A 309 4.65e+01 1i74A c.107.1.1 61867 2g76A 335 4.67e+01 1zzaA 90 4.67e+01 1fc6A 388 4.71e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1uf2A 1019 4.77e+01 e.28.1.2 99289 1qvjA 292 4.84e+01 d.113.1.1 96431 1rfa 79 4.84e+01 1c1yB d.15.1.5 37620 1d4fA 431 4.85e+01 1b3rA c.2.1.4,c.23.12.3 30110,31370 1d2pA 373 4.90e+01 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1rzrA 332 4.91e+01 1kdgA 546 4.94e+01 c.3.1.2,d.16.1.1 77337,77338 1ra6A 461 4.94e+01 e.8.1.4 104879 1x84A 189 4.95e+01 1nox 205 4.99e+01 1nox d.90.1.1 40242 1r3cA 366 5.04e+01 d.144.1.7 96906 1eiyB 785 5.04e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16305,16306,25314,39313,40782,41458 1xeuA 263 5.08e+01 1vi4A 174 5.09e+01 c.8.7.1 100731 1nytA 271 5.12e+01 c.2.1.7,c.58.1.5 86417,86418 1rypK 198 5.13e+01 d.153.1.4 41879 1f93E 32 5.14e+01 1f93E a.34.2.1 17013 1wbsA 360 5.16e+01 1a04A 215 5.17e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1g57A 217 5.30e+01 1g57A d.115.1.2 60253 1wviA 257 5.30e+01 1zh2A 121 5.37e+01 1s9pA 227 5.43e+01 a.123.1.1 105384 1z5vA 474 5.45e+01 1i1qB 192 5.54e+01 1qdlB c.23.16.1 61544 2atrA 138 5.60e+01 1li4A 432 5.61e+01 c.2.1.4,c.23.12.3 84616,84617 1q33A 292 5.66e+01 d.113.1.1 95657 1g2yA 32 5.74e+01 a.34.2.1 17003 1jc4A 148 5.81e+01 1jc4A d.32.1.4 62863 2b5gA 171 5.85e+01 1oaoC 729 5.88e+01 e.26.1.3 86746 1wdnA 226 5.90e+01 1lst c.94.1.1 35816 1ntvA 152 5.96e+01 b.55.1.2 86168 2cbp 96 5.99e+01 2cbp b.6.1.1 22895 1d2oA 187 6.11e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1y82A 157 6.11e+01 2ac5A 316 6.16e+01 1eyyA 510 6.17e+01 1eyyA c.82.1.1 35389 1jkeA 145 6.18e+01 c.110.1.1 66791 1l3yA 41 6.19e+01 g.3.11.6 73558 1p6pA 125 6.20e+01 b.60.1.2 87839 1oakA 196 6.21e+01 1auq c.62.1.1 34138 1gjwA 637 6.27e+01 b.71.1.1,c.1.8.1 60582,60583 2a6hD 1524 6.32e+01 1ez0A 510 6.36e+01 1eyyA c.82.1.1 35385 1kdxA 81 6.36e+01 1kdxA a.12.1.1 16375 1u09A 476 6.51e+01 e.8.1.4 107545 1fsgA 233 6.53e+01 1qk3A c.61.1.1 34029 3tmkA 216 6.56e+01 3tmkA c.37.1.1 31920 1b7yB 785 6.56e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1w6uA 302 6.60e+01 1dpuA 99 6.63e+01 1dpuA a.4.5.16 16150 1xs5A 241 6.65e+01 1c3gA 170 6.71e+01 1c3gA b.4.1.1,b.4.1.1 22831,22832 1ej6D 418 6.75e+01 i.7.1.1 45970 1a7aA 432 6.83e+01 1b3rA c.2.1.4,c.23.12.3 30104,31364 1ag8A 499 6.96e+01 1bpwA c.82.1.1 35341 1ignA 246 7.04e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1hztA 190 7.08e+01 1i9aA d.113.1.2 61459 1uz5A 402 7.08e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1fs7A 485 7.13e+01 1qdbA a.138.1.3 19691 1c3cA 429 7.14e+01 1c3cA a.127.1.1 19425 1ugpB 226 7.21e+01 b.34.4.4 107832 1m65A 245 7.22e+01 c.6.3.1 84847 1okgA 373 7.23e+01 c.46.1.2,c.46.1.2,d.26.1.3 93250,93251,93252 1u2pA 163 7.27e+01 1s3cA 141 7.28e+01 2gukA 120 7.33e+01 1gjuA 637 7.40e+01 b.71.1.1,c.1.8.1 60580,60581 1us5A 314 7.40e+01 c.94.1.1 99856 3cox 507 7.44e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1nmtA 392 7.47e+01 1nmtA d.108.1.2,d.108.1.2 40823,40824 1mp8A 281 7.52e+01 d.144.1.7 91384 1w99A 558 7.61e+01 1ireB 228 7.62e+01 b.34.4.4 76770 1coy 507 7.64e+01 1b8sA c.3.1.2,d.16.1.1 30333,37864 1sb0A 87 7.70e+01 a.12.1.1 98789 1j7gA 144 7.70e+01 c.110.1.1 84130 2ceyA 306 7.70e+01 1q40B 219 7.71e+01 d.17.4.2 95771 2a9kA 187 7.72e+01 1fnsA 196 7.76e+01 1auq c.62.1.1 34136 2tmkA 216 7.81e+01 3tmkA c.37.1.1 31928 2kfnA 605 7.81e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 1fmjA 351 7.88e+01 c.37.1.5 59879 2g7lA 243 7.88e+01 2bcgG 453 7.92e+01 1ik6A 369 7.94e+01 c.36.1.7,c.48.1.2 66174,66175 1ad9B 219 7.95e+01 1gc1H b.1.1.1,b.1.1.2 20215,21227 1h8eA 510 7.98e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1xdwA 331 8.09e+01 2fuqA 747 8.16e+01 1zz2A 360 8.17e+01 2bgkA 278 8.22e+01 1xmiA 291 8.25e+01 1i1nA 226 8.32e+01 c.66.1.7 71102 1ag4 103 8.39e+01 1ag4 b.11.1.1 23629 1nrfA 262 8.42e+01 e.3.1.1 92086 1lrwA 600 8.55e+01 b.70.1.1 91111 1d0dA 60 8.63e+01 1kigI g.8.1.2 44566 1ionA 243 8.64e+01 c.37.1.10 62633 1lfwA 470 8.65e+01 c.56.5.4,d.58.19.1 77942,77943 1ac0 108 8.67e+01 1kum b.3.1.1 22526 1kigI 60 8.70e+01 1kigI g.8.1.2 44567 2gwgA 350 8.70e+01 1amf 233 8.73e+01 1wod c.94.1.1 35833 1ydnA 295 8.73e+01 1wod 233 8.75e+01 1wod c.94.1.1 35832 1vhrA 184 8.84e+01 1vhrA c.45.1.1 32651 1wetA 340 8.92e+01 1qpzA a.35.1.5,c.93.1.1 17093,35670 1a6tB 217 8.94e+01 1igtB b.1.1.1,b.1.1.2 20249,21259 1vi1A 345 8.97e+01 c.77.1.4 100724