# List of top-scoring protein chains for t2k-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.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 1mk4A 157 7.02e-02 d.108.1.1 84979 1y1uA 585 2.62e-01 2fe7A 166 4.33e-01 1kuxA 207 4.45e-01 d.108.1.1 73021 1cjwA 166 6.62e-01 1cjwA d.108.1.1 40818 1tiqA 180 9.74e-01 d.108.1.1 107010 2fl4A 149 2.06e+00 1sg4A 260 2.13e+00 1tfuA 157 2.31e+00 c.26.1.3 106859 1s3zA 165 2.75e+00 d.108.1.1 105250 1vqzA 341 2.78e+00 2ge3A 170 3.48e+00 2d4pA 141 3.86e+00 2fsrA 195 3.87e+00 1ekfA 365 4.01e+00 1ekfA e.17.1.1 59445 1kt8A 365 4.34e+00 e.17.1.1 77531 1po5A 476 4.35e+00 a.104.1.1 94963 2a1hA 365 4.99e+00 2gh1A 301 5.40e+00 1gg3A 279 5.43e+00 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 1ktaA 365 5.43e+00 e.17.1.1 77533 1qg8A 255 6.73e+00 1qg8A c.68.1.1 34505 1nslA 184 6.93e+00 d.108.1.1 86137 2coiA 386 7.24e+00 1konA 249 8.16e+00 e.39.1.1 72823 1vs0A 310 8.56e+00 1yr0A 175 8.93e+00 1bxsA 501 9.03e+00 1bpwA c.82.1.1 35357 2c5kT 95 9.19e+00 1d7bA 186 9.96e+00 1d7bA b.1.9.1 22307 1d7cA 190 1.00e+01 1d7bA b.1.9.1 22309 1zo0A 126 1.00e+01 1px5A 349 1.03e+01 a.160.1.2,d.218.1.6 95277,95278 1mioA 534 1.06e+01 1qguA c.92.2.3 35601 1dc1A 323 1.07e+01 1dc1A c.52.1.11 33321 1y7pA 223 1.09e+01 1or0A 160 1.12e+01 d.153.1.2 93445 1fm2A 169 1.13e+01 1fm2A d.153.1.2 59877 2gwnA 452 1.17e+01 1xmxA 385 1.21e+01 1wmaA 276 1.25e+01 1vchA 175 1.25e+01 1gw5S 142 1.35e+01 d.110.4.2 70633 1v7rA 186 1.38e+01 c.51.4.1 100482 1d9eA 284 1.49e+01 1d9eA c.1.10.4 29195 1tuaA 191 1.50e+01 d.51.1.1,d.51.1.1 107321,107322 1z5nA 242 1.55e+01 1on2A 142 1.55e+01 a.4.5.24,a.76.1.1 87103,87104 1xtmA 175 1.62e+01 1xxqA 161 1.65e+01 1ddgA 374 1.69e+01 1amoA b.43.4.1,c.25.1.4 25671,31559 1crxA 322 1.75e+01 4crxA a.60.9.1,d.163.1.1 18097,42157 2fh1A 344 1.75e+01 1qhdA 398 1.80e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1p7gA 222 1.83e+01 a.2.11.1,d.44.1.1 94223,94224 1z5oA 242 1.85e+01 1p8xA 344 1.88e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1mhqA 148 1.89e+01 a.118.9.2 84973 1ulyA 192 1.90e+01 1jysA 242 1.91e+01 c.56.2.1 77216 1g4uS 383 1.97e+01 1g4uS a.24.11.1,c.45.1.2 16643,32691 1pnsC 206 1.97e+01 i.1.1.1 88170 2aj6A 159 2.01e+01 1xtlA 175 2.03e+01 1tkkA 366 2.05e+01 c.1.11.2,d.54.1.1 107089,107090 1mh3A 421 2.10e+01 a.4.1.1,c.94.1.1 79112,79113 1b6bA 174 2.12e+01 1cjwA d.108.1.1 40819 1g6zA 70 2.14e+01 1g6zA b.34.13.2 60321 3crxA 343 2.17e+01 4crxA a.60.9.1,d.163.1.1 18101,42161 1sqhA 312 2.18e+01 d.108.1.5 98966 1yqtA 538 2.19e+01 1g7vA 284 2.24e+01 1d9eA c.1.10.4 60335 1amoA 615 2.25e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 25669,31210,31557 1r0pA 312 2.28e+01 d.144.1.7 96734 1kbuA 349 2.28e+01 a.60.9.1,d.163.1.1 72284,72285 1yemA 179 2.32e+01 1xo0A 324 2.37e+01 1qo7A 394 2.40e+01 1qo7A c.69.1.11 34697 1i7nA 309 2.41e+01 c.30.1.5,d.142.1.3 83681,83682 1ezvA 430 2.45e+01 1be3A d.185.1.1,d.185.1.1 59541,59542 4crxA 322 2.51e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1ggvA 232 2.58e+01 1din c.69.1.9 34683 1af7 274 2.59e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1whxA 111 2.61e+01 1xt8A 292 2.72e+01 1nzaA 103 2.75e+01 d.58.5.2 86444 2faoA 309 2.77e+01 1jpmA 366 2.80e+01 c.1.11.2,d.54.1.1 67031,67032 1fjgC 239 2.84e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 1zmtA 254 2.90e+01 1a8s 273 2.98e+01 1brt c.69.1.12 34710 1j5eC 239 3.01e+01 d.52.3.1,d.53.1.1 71544,71545 1hu4A 288 3.01e+01 1hu4A 1n5dA 288 3.01e+01 c.2.1.2 80030 1i39A 225 3.01e+01 1ekeA c.55.3.1 61585 1yt3A 375 3.03e+01 1bc5A 269 3.04e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1twyA 290 3.07e+01 1din 236 3.07e+01 1din c.69.1.9 34682 1khyA 148 3.10e+01 a.174.1.1 77410 1s4iA 175 3.14e+01 1nv8A 284 3.18e+01 c.66.1.30 86224 1ne9A 335 3.19e+01 d.108.1.4,d.108.1.4 91839,91840 1eypA 222 3.27e+01 1eypA d.36.1.1 38536 1ytvA 366 3.31e+01 1ujkA 147 3.33e+01 a.118.9.2 99457 1jwgA 147 3.34e+01 a.118.9.2 71911 1maz 221 3.36e+01 1maz f.1.4.1 43393 1dmr 823 3.45e+01 1dmr b.52.2.2,c.81.1.1 26904,35312 1laxA 370 3.48e+01 c.94.1.1 84576 1zi8A 236 3.48e+01 1t6aA 126 3.50e+01 d.129.8.1 106555 1bpwA 503 3.53e+01 1bpwA c.82.1.1 35365 1e8gA 560 3.53e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1hm2A 700 3.61e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 61083,61084,61085 1e8oB 106 3.62e+01 1914 d.49.1.1 38775 1l5jA 865 3.65e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1pfxC 235 3.65e+01 5ptp b.47.1.2 26353 1ii7A 333 3.78e+01 1ii7A d.159.1.4 62415 1cnv 299 3.79e+01 1cnv c.1.8.5 28989 1j8yF 297 3.82e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 2cjpA 328 3.82e+01 2freA 200 3.85e+01 1a4sA 503 3.87e+01 1bpwA c.82.1.1 35361 1exqA 154 3.88e+01 1b9dA c.55.3.2 33646 2h3bA 494 3.94e+01 1o04A 500 3.96e+01 c.82.1.1 86508 1af3 196 3.97e+01 1maz f.1.4.1 43397 1kamA 194 3.99e+01 c.26.1.3 72254 1e2wA 251 4.09e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 2gyqA 175 4.13e+01 1a16 440 4.15e+01 1az9 c.55.2.1,d.127.1.1 33548,41165 1u35C 120 4.16e+01 1o0sA 605 4.18e+01 c.2.1.7,c.58.1.3 86540,86541 1b04A 318 4.19e+01 1b04A d.142.2.2 41579 2c71A 216 4.22e+01 2f9fA 177 4.23e+01 2bwvA 440 4.23e+01 1wl9A 440 4.23e+01 2arhA 203 4.23e+01 1wxcB 134 4.23e+01 1az9 457 4.48e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 2sfa 191 4.49e+01 1qq4A b.47.1.1 25815 1d3uB 201 4.50e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 1aod 289 4.54e+01 2plc c.1.18.2 29615 1mho 88 4.62e+01 1b4cA a.39.1.2 17171 1sfxA 109 4.62e+01 a.4.5.50 105505 1kyoA 430 4.63e+01 d.185.1.1,d.185.1.1 73249,73250 1jepA 222 4.70e+01 d.36.1.1 66612 1eyqA 222 4.78e+01 1eypA d.36.1.1 38534 1xmiA 291 4.82e+01 1li5B 461 5.00e+01 a.27.1.1,c.26.1.1 73914,73915 1kzhA 555 5.00e+01 c.89.1.1 73361 1j54A 186 5.07e+01 c.55.3.5 77077 1qq2A 199 5.07e+01 1qq2A c.47.1.10 33064 1kb9A 431 5.09e+01 d.185.1.1,d.185.1.1 77311,77312 1g4wR 383 5.10e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1qltA 560 5.12e+01 1qltA d.58.32.1,d.145.1.1 39457,41720 2gaeA 346 5.13e+01 1a6dA 545 5.16e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 1s6cA 183 5.25e+01 a.39.1.5 98594 1jl0A 334 5.30e+01 1jenA d.156.1.1 63155 2giyA 191 5.32e+01 1ocsA 162 5.42e+01 d.189.1.1 92776 1xmtA 103 5.51e+01 1zy9A 564 5.61e+01 1glv 303 5.65e+01 1gsa c.30.1.3,d.142.1.1 31721,41480 2plc 274 5.67e+01 2plc c.1.18.2 29614 1cqqA 180 5.72e+01 1cqqA b.47.1.4 26422 1zwwA 256 5.73e+01 1ris 101 5.75e+01 1ris d.58.14.1 39314 1pwxA 254 5.75e+01 c.2.1.2 95262 1li5A 461 5.76e+01 a.27.1.1,c.26.1.1 73912,73913 2ganA 190 5.79e+01 1e0tA 470 5.83e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1gsa 316 5.88e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1va4A 279 5.95e+01 c.69.1.12 108458 1aisB 200 5.96e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1tfr 305 6.02e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1pl3A 186 6.03e+01 b.1.9.1 88158 1ja1A 622 6.05e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1y7qA 98 6.11e+01 4mbp 370 6.11e+01 4mbp c.94.1.1 35777 1ytzT 107 6.12e+01 2vil 126 6.13e+01 2vil d.109.1.1 40830 1nu5A 370 6.14e+01 c.1.11.2,d.54.1.1 92183,92184 2gwhA 298 6.22e+01 1yz1A 174 6.30e+01 2f23A 156 6.35e+01 1z52A 470 6.42e+01 1f20A 435 6.48e+01 b.43.4.1,c.25.1.4 64932,64933 1omp 370 6.52e+01 4mbp c.94.1.1 35778 2eulA 156 6.60e+01 2b5gA 171 6.63e+01 2d1eA 248 6.70e+01 1vg8A 207 6.72e+01 c.37.1.8 108606 1f3aA 222 6.72e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1uxoA 192 6.75e+01 c.69.1.31 108121 1gegA 256 6.75e+01 1ybvA c.2.1.2 29888 1a3wA 500 6.77e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 2b1xA 470 6.78e+01 2arzA 247 6.78e+01 1cne 270 6.81e+01 1ndh b.43.4.2,c.25.1.1 25661,31551 1zosA 230 6.81e+01 2fg9A 178 6.82e+01 1gcoA 261 6.82e+01 1ybvA c.2.1.2 29884 1geeA 261 6.82e+01 c.2.1.2 90509 1jykA 254 7.03e+01 c.68.1.13 67458 1a8uA 277 7.04e+01 1brt c.69.1.12 34703 1okrA 123 7.05e+01 a.4.5.39 93269 1zu0A 529 7.07e+01 1auiA 521 7.11e+01 1auiA d.159.1.3 42085 1anf 370 7.16e+01 4mbp c.94.1.1 35776 1h8lA 380 7.16e+01 b.3.2.1,c.56.5.1 65737,65738 1bs9 207 7.19e+01 1bs9 c.69.1.30 31330 1g66A 207 7.19e+01 1bs9 c.69.1.30 31329 1broA 277 7.27e+01 1brt c.69.1.12 34700 1qmuA 380 7.27e+01 1qmuA b.3.2.1,c.56.5.1 22534,33827 1yksA 440 7.28e+01 1p3qQ 54 7.35e+01 a.5.2.4 87748 1wdnA 226 7.36e+01 1lst c.94.1.1 35816 1jljA 189 7.39e+01 c.57.1.1 63169 1ni9A 338 7.63e+01 e.7.1.2 85739 1y37A 304 7.74e+01 1h1lA 481 7.74e+01 c.92.2.3 70851 1a7lA 389 7.81e+01 4mbp c.94.1.1 35787 1nd7A 374 7.96e+01 d.148.1.1 91817 1ru8A 232 7.98e+01 c.26.2.1 97849 1cpzA 68 7.98e+01 1aw0 d.58.17.1 39351 1p0yA 444 8.02e+01 a.166.1.1,b.85.7.3 87654,87655 1nmtA 392 8.02e+01 1nmtA d.108.1.2,d.108.1.2 40823,40824 1qdlA 422 8.06e+01 1qdlA d.161.1.1 42088 1uwoA 92 8.06e+01 4icb a.39.1.2 17174 1ihcA 188 8.20e+01 1di6A c.57.1.1 62379 2be4A 272 8.24e+01 1gggB 226 8.25e+01 1lst c.94.1.1 35818 1yx0A 159 8.34e+01 1mpb 370 8.47e+01 4mbp c.94.1.1 35780 1amk 251 8.48e+01 1amk c.1.1.1 28503 1f44A 324 8.49e+01 a.60.9.1,d.163.1.1 64982,64983 1wwzA 159 8.50e+01 2bhuA 602 8.62e+01 1tiyA 164 8.64e+01 c.97.1.2 107012 1cb8A 678 8.69e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1skyE 473 8.71e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18314,26479,32359 1iufA 144 8.79e+01 a.4.1.7,a.4.1.7 71439,71440 1zgmA 248 8.80e+01 2fnoA 248 8.80e+01 2bbhA 269 8.80e+01 1j4wA 174 8.81e+01 d.51.1.1,d.51.1.1 71529,71530 1s7jA 262 8.84e+01 d.21.1.2 98647 1mjfA 281 8.91e+01 c.66.1.17 79198 1y9kA 157 8.94e+01 2ms2A 129 8.95e+01 1msc d.85.1.1 40049 1gqyA 475 8.96e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1u02A 239 8.97e+01 c.108.1.15 107538