# 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 1sur 215 3.59e-21 1sur c.26.2.2 31620 1gpmA 525 1.09e-04 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1xngA 268 4.39e-04 1wy5A 317 1.15e-03 1q15A 503 1.03e-02 c.26.2.1,d.153.1.1 95538,95539 1ni5A 433 2.72e-02 c.26.2.5,d.229.1.1 80533,80534 1korA 400 5.51e-02 c.26.2.1,d.210.1.1 72824,72825 1jgtA 513 6.81e-02 c.26.2.1,d.153.1.1 66684,66685 1m1zA 513 6.92e-02 c.26.2.1,d.153.1.1 78457,78458 1k92A 455 8.18e-02 c.26.2.1,d.210.1.1 68325,68326 2d13A 227 2.72e-01 1ru8A 232 3.96e-01 c.26.2.1 97849 1vl2A 421 4.83e-01 c.26.2.1,d.210.1.1 108708,108709 1mioA 534 1.11e+00 1qguA c.92.2.3 35601 1wxiA 275 1.34e+00 1a2oA 349 2.39e+00 1chd c.23.1.1,c.40.1.1 31120,32479 1ct9A 553 2.88e+00 1ct9A c.26.2.1,d.153.1.1 31616,41834 1vp8A 201 2.97e+00 1pl8A 356 2.99e+00 b.35.1.2,c.2.1.1 94878,94879 1fsu 492 3.10e+00 1auk c.76.1.2 35032 1rcuA 195 3.16e+00 c.129.1.1 97295 1attB 411 3.87e+00 1ovaA e.1.1.1 42639 1fp4A 492 4.03e+00 c.92.2.3 76187 1kqpA 271 4.42e+00 c.26.2.1 72883 2aq4A 434 4.44e+00 1xm7A 195 4.54e+00 1nsyA 271 4.57e+00 2nsyA c.26.2.1 31614 1kmmA 424 4.63e+00 1adjA c.51.1.1,d.104.1.1 33174,40723 2bznA 351 4.72e+00 2c6qA 351 4.85e+00 2a3nA 355 5.22e+00 1qmyA 167 5.65e+00 1qmyA d.3.1.2 37094 1e5eA 404 5.68e+00 1ibjA c.67.1.3 59265 2nsyA 271 5.96e+00 2nsyA c.26.2.1 31612 1ih8A 271 6.11e+00 2nsyA c.26.2.1 62377 1cs1A 386 6.23e+00 1ibjA c.67.1.3 34399 1crzA 403 6.60e+00 1crzA b.68.4.1,c.51.2.1 27629,33211 3minC 491 6.84e+00 1qguA c.92.2.3 35607 1taq 832 7.22e+00 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 1kmnD 424 7.26e+00 1adjA c.51.1.1,d.104.1.1 33185,40734 1cs1C 386 7.36e+00 1ibjA c.67.1.3 34401 2minA 491 7.84e+00 1qguA c.92.2.3 35609 1yzqA 170 8.47e+00 1o1zA 234 8.70e+00 c.1.18.3 86555 1ufoA 238 8.87e+00 c.69.1.27 99344 1httA 423 9.44e+00 1adjA c.51.1.1,d.104.1.1 33178,40727 1u32A 293 1.03e+01 d.159.1.3 107631 1kw4A 89 1.06e+01 a.60.1.2 73077 1fcdA 401 1.10e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 2f1kA 279 1.13e+01 1vgvA 384 1.16e+01 c.87.1.3 100608 1yrgA 385 1.19e+01 1yrgA c.10.1.2 30854 1cf2O 337 1.22e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 2ca6A 386 1.24e+01 1tk9A 188 1.27e+01 c.80.1.3 107082 1nnjA 271 1.31e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1yrgB 385 1.32e+01 1yrgA c.10.1.2 30855 2acvA 463 1.33e+01 1pwhA 327 1.33e+01 c.79.1.1 95224 1d02A 202 1.39e+01 1d02A c.52.1.8 33313 1fjmA 330 1.39e+01 1auiA d.159.1.3 42082 1cdzA 96 1.41e+01 1cdzA c.15.1.1 30925 1d7qA 143 1.43e+01 1d7qA b.40.4.5 25331 1b6cB 342 1.44e+01 1b6cB d.144.1.7 41673 1nmoA 247 1.44e+01 c.135.1.1 91980 1tdzA 272 1.46e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1v7lA 163 1.51e+01 1c5kA 439 1.52e+01 1crzA b.68.4.1,c.51.2.1 27630,33212 1kk1A 410 1.53e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1jk7A 323 1.57e+01 1auiA d.159.1.3 63144 1f6dA 376 1.61e+01 1f6dA c.87.1.3 35467 1p5jA 372 1.64e+01 c.79.1.1 104067 1v8eA 224 1.64e+01 1vd6A 224 1.64e+01 1nf8A 207 1.65e+01 c.33.1.3 85630 1uouA 474 1.71e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1attA 421 1.72e+01 1ovaA e.1.1.1 42638 1vjyA 303 1.76e+01 d.144.1.7 108633 1py5A 326 1.81e+01 d.144.1.7 104389 1kicA 339 1.82e+01 c.70.1.1 72510 1g8pA 350 1.84e+01 1g8pA c.37.1.20 60376 1nbwB 117 1.84e+01 c.51.3.2 80396 1fts 295 1.89e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 1pk1B 89 1.89e+01 1j8yF 297 1.94e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1g7oA 215 1.96e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1cl1A 395 1.97e+01 1cl2A c.67.1.3 34395 1h05A 146 1.99e+01 c.23.13.1 76433 1u6eA 335 2.01e+01 1zh2A 121 2.01e+01 2bleA 367 2.01e+01 1a3h 300 2.02e+01 7a3hA c.1.8.3 28819 7a3hA 303 2.02e+01 7a3hA c.1.8.3 28817 1xwyA 264 2.02e+01 1v8fA 276 2.02e+01 c.26.1.4 100503 1w9iA 770 2.04e+01 1ly1A 181 2.05e+01 c.37.1.1 74334 1c9kB 180 2.08e+01 1c9kB c.37.1.11 32364 1vb5A 276 2.10e+01 1yoeA 322 2.16e+01 2b7kA 200 2.17e+01 1ppjA 446 2.25e+01 d.185.1.1,d.185.1.1 104252,104253 1ihoA 283 2.27e+01 1ihoA c.26.1.4 62390 2dhqA 146 2.33e+01 2dhqA c.23.13.1 31382 1al8 359 2.39e+01 1gox c.1.4.1 28608 1l0lA 446 2.40e+01 d.185.1.1,d.185.1.1 84482,84483 2ah5A 210 2.43e+01 1w9pA 433 2.44e+01 1u4nA 310 2.59e+01 1ltqA 301 2.63e+01 c.108.1.9,c.37.1.1 78208,78209 1mjfA 281 2.64e+01 c.66.1.17 79198 2b4zA 104 2.80e+01 1kgsA 225 2.81e+01 a.4.6.1,c.23.1.1 68596,68597 1y7lA 316 2.87e+01 1jr1A 514 2.88e+01 c.1.5.1,d.37.1.1,d.37.1.1 63241,63242,63243 1nf9A 207 2.90e+01 c.33.1.3 85631 1lplA 95 2.94e+01 b.34.10.1 74173 1lyqA 104 2.98e+01 b.1.18.17 78302 1e08A 371 3.00e+01 i.4.1.1 45914 1tovA 98 3.00e+01 b.34.10.1 107179 1jmsA 381 3.01e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1wstA 417 3.02e+01 1uqrA 154 3.03e+01 c.23.13.1 99779 1m1nA 491 3.04e+01 c.92.2.3 78417 1n1cA 217 3.07e+01 a.184.1.1 85254 1im5A 180 3.07e+01 c.33.1.3 66211 1wqaA 455 3.07e+01 1hm2A 700 3.09e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 61083,61084,61085 2trxA 108 3.10e+01 1thx c.47.1.1 32719 2c1cA 312 3.16e+01 1dg6A 191 3.19e+01 1d4vB b.22.1.1 23883 1cbuA 180 3.19e+01 1c9kB c.37.1.11 32360 2cvhA 220 3.25e+01 2masA 314 3.27e+01 2masA c.70.1.1 34810 2a9fA 398 3.31e+01 1gox 370 3.31e+01 1gox c.1.4.1 28607 2a5hA 416 3.41e+01 1kzhA 555 3.44e+01 c.89.1.1 73361 1hfeL 421 3.48e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 1cb8A 678 3.49e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 2gnpA 266 3.50e+01 1g71A 347 3.52e+01 1g71A d.264.1.1 43268 2ax3A 502 3.53e+01 1up7A 417 3.53e+01 1hp0A 339 3.54e+01 c.70.1.1 65900 1e3jA 352 3.55e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1q32A 544 3.55e+01 d.136.1.3,d.136.1.3 104507,104508 1n2zA 245 3.56e+01 c.92.2.2 79865 1jlnA 297 3.61e+01 1pty c.45.1.2 63172 1r0mA 375 3.67e+01 c.1.11.2,d.54.1.1 104747,104748 2er7E 330 3.69e+01 2er7E b.50.1.2 26779 1o54A 277 3.77e+01 c.66.1.13 92482 1be3A 446 3.89e+01 1be3A d.185.1.1,d.185.1.1 58950,58951 1iloA 77 3.92e+01 c.47.1.1 66205 1fgs 428 3.93e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 1ydxA 406 3.95e+01 1jflA 228 3.98e+01 c.78.2.1,c.78.2.1 71656,71657 1u9yA 284 3.98e+01 1mp1A 111 4.00e+01 a.188.1.1 91382 1pz1A 333 4.02e+01 c.1.7.1 95390 1k5dC 386 4.03e+01 c.10.1.2 68170 1h5vA 304 4.03e+01 c.1.8.3 70898 1hzpA 335 4.08e+01 1hn9A c.95.1.2,c.95.1.2 61455,61456 1aq6A 253 4.09e+01 1qq5A c.108.1.1 43331 1mh1 186 4.11e+01 1eesA c.37.1.8 32002 1v7wA 807 4.12e+01 a.102.1.4,b.30.5.3 108411,108412 1gvuA 329 4.17e+01 b.50.1.2 70619 1l2tA 235 4.18e+01 c.37.1.12 73514 1c9kA 180 4.20e+01 1c9kB c.37.1.11 32363 1bjwA 382 4.22e+01 1bjwA c.67.1.1 34349 1oewA 329 4.25e+01 b.50.1.2 86924 1epnE 330 4.27e+01 2er7E b.50.1.2 26780 5er2E 330 4.27e+01 2er7E b.50.1.2 26783 1d2qA 173 4.36e+01 1d4vB b.22.1.1 23894 2ddrA 306 4.37e+01 1hozA 339 4.47e+01 c.70.1.1 65898 1qq5A 253 4.48e+01 1qq5A c.108.1.1 43327 1ek6A 348 4.54e+01 1xel c.2.1.2 29800 1qq7A 253 4.62e+01 1qq5A c.108.1.1 43329 16pk 415 4.71e+01 16pk c.86.1.1 35454 1r13A 148 4.78e+01 d.169.1.1,h.1.1.1 96782,96783 1uarA 285 4.82e+01 c.46.1.2,c.46.1.2 107762,107763 1kxlA 199 4.84e+01 b.40.4.3 73155 1jalA 363 4.84e+01 c.37.1.8,d.15.10.2 84138,84139 1vlmA 219 4.92e+01 c.66.1.41 108836 1o69A 394 4.92e+01 c.67.1.4 92560 1eaxA 241 4.99e+01 b.47.1.2 64889 1xrtA 467 5.10e+01 1ql0A 241 5.16e+01 1qaeA d.4.1.2 37139 2tpt 440 5.19e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1wvfA 520 5.24e+01 2akaA 776 5.26e+01 1xr4A 509 5.27e+01 1vecA 206 5.29e+01 c.37.1.19 100575 1egzA 291 5.33e+01 7a3hA c.1.8.3 28828 1d3yA 301 5.40e+01 1d3yA e.12.1.1 43252 1up6A 416 5.41e+01 c.2.1.5,d.162.1.2 107976,107977 1mo0A 275 5.42e+01 c.1.1.1 79329 1o58A 303 5.47e+01 c.79.1.1 92491 1v74A 107 5.49e+01 d.243.1.1 100442 1xo5A 183 5.49e+01 1a5z 319 5.54e+01 1ceqA c.2.1.5,d.162.1.1 30181,42148 1g8tA 245 5.54e+01 1qaeA d.4.1.2 37137 1gy8A 397 5.57e+01 c.2.1.2 83376 1jbwA 428 5.57e+01 c.59.1.2,c.72.2.2 62860,62861 1ctqA 166 5.78e+01 1ctqA c.37.1.8 31965 1ionA 243 5.78e+01 c.37.1.10 62633 1mwmA 320 5.84e+01 c.55.1.1,c.55.1.1 79580,79581 1jwiA 131 5.87e+01 d.169.1.1 67383 1d06A 130 5.89e+01 1drmA d.110.3.2 40906 1i1qB 192 5.90e+01 1qdlB c.23.16.1 61544 2pia 321 5.91e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 2gcuA 245 5.94e+01 1vom 762 6.31e+01 1lvk b.34.3.1,c.37.1.9 24577,32174 1qysA 106 6.48e+01 k.41.1.1 96603 1cl2A 395 6.72e+01 1cl2A c.67.1.3 34397 1j8mF 297 6.72e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1urjA 1136 6.78e+01 1z7bA 358 6.80e+01 1t6nA 220 6.83e+01 c.37.1.19 106576 1sw5A 275 6.94e+01 c.94.1.1 106069 2fp4B 395 7.01e+01 1l3iA 192 7.02e+01 c.66.1.22 77676 2d0oA 610 7.04e+01 2c2hA 192 7.07e+01 1o7kA 131 7.17e+01 d.189.1.1 81144 1kq6A 141 7.27e+01 d.189.1.1 91020 1eyeA 280 7.31e+01 1aj2 c.1.21.1 29672 7odcA 424 7.31e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1dp4A 435 7.35e+01 1dp4A c.93.1.1 35710 1pjjA 271 7.36e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1ji2A 585 7.40e+01 b.1.18.2,b.71.1.1,c.1.8.1 71672,71673,71674 1wzlA 585 7.41e+01 1u0sY 118 7.42e+01 c.23.1.1 107566 1smnA 245 7.47e+01 1qaeA d.4.1.2 37143 1cqxA 403 7.48e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1j54A 186 7.49e+01 c.55.3.5 77077 2gsaA 432 7.49e+01 2gsaA c.67.1.4 34446 1pvmA 184 7.49e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1qaeA 245 7.50e+01 1qaeA d.4.1.2 37141 1xqiA 195 7.51e+01 1ew0A 130 7.51e+01 1drmA d.110.3.2 40905 1wznA 252 7.53e+01 1bvzA 585 7.61e+01 1bvzA b.1.18.2,b.71.1.1,c.1.8.1 21856,27783,28770 1v5tA 90 7.62e+01 d.15.1.1 108385 1bx4A 345 7.75e+01 1bx4A c.72.1.1 34935 1i4nA 251 7.83e+01 c.1.2.4 71114 1qnrA 344 7.84e+01 1qnoA c.1.8.3 28834 1i3kA 348 7.85e+01 1xel c.2.1.2 61595 1mp9A 198 7.90e+01 d.129.1.1,d.129.1.1 91385,91386 1jj2F 119 7.92e+01 1ffkE d.79.3.1 63091 1suwA 249 7.97e+01 e.52.1.1 106027 1y5mA 276 7.99e+01 1k0wA 231 7.99e+01 c.74.1.1 77220 1l8qA 324 8.03e+01 a.4.12.2,c.37.1.20 77809,77810 1ynpA 317 8.05e+01 1jdiA 231 8.09e+01 c.74.1.1 66551 2bibA 547 8.12e+01 1tmy 120 8.15e+01 1dbwA c.23.1.1 31083 1yeyA 444 8.20e+01 1qwgA 251 8.28e+01 c.1.27.1 96473 1s0uA 408 8.40e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1qnoA 344 8.48e+01 1qnoA c.1.8.3 28838 1lkyA 77 8.53e+01 a.60.1.1 73985 1xqwA 293 8.58e+01 1qcrA 446 8.65e+01 1be3A d.185.1.1,d.185.1.1 59025,59026 1qguA 478 8.76e+01 1qguA c.92.2.3 35625 1uf2C 421 8.77e+01 a.115.1.3,b.19.1.1 99291,99292 1qh8A 478 8.78e+01 1qguA c.92.2.3 35633 1jg1A 235 8.80e+01 c.66.1.7 66661 1e7rA 321 8.82e+01 1bsvA c.2.1.2 29808 1cl4A 60 8.83e+01 1cl4A g.40.1.1 45171 1sxgA 280 8.87e+01 2bykA 140 8.90e+01 1w7bA 339 8.90e+01 2faoA 309 8.92e+01 1bwsA 321 8.94e+01 1bsvA c.2.1.2 29812 1tpt 440 8.96e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17763,31627,38625 1dxeA 256 8.98e+01 1dxeA c.1.12.5 29310 1j7rA 86 9.00e+01 1j7rA a.39.1.5 62701