# List of top-scoring protein chains for t2k-100-30-alpha 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 1u32A 293 2.39e-01 d.159.1.3 107631 1jk7A 323 2.51e-01 1auiA d.159.1.3 63144 1fjmA 330 4.37e-01 1auiA d.159.1.3 42082 1zckA 154 6.74e-01 1d0nA 729 8.51e-01 1d0nA d.109.1.1 40834 d.109.1.1 40835 d.109.1.1 40836 d.109.1.1 40837 d.109.1.1 40838 d.109.1.1 40839 2bzlA 325 1.00e+00 1rxdA 159 1.02e+00 1g9uA 454 1.23e+00 c.10.2.6 65172 1jl5A 454 1.37e+00 c.10.2.6 66830 1x24A 180 1.73e+00 1bqhG 129 1.75e+00 1cd8 b.1.1.1 19715 1wkrA 340 1.75e+00 b.50.1.2 109395 1t5hX 504 2.10e+00 e.23.1.1 106449 1q40B 219 2.17e+00 d.17.4.2 95771 1xm7A 195 2.21e+00 1pujA 282 2.39e+00 c.37.1.8 88294 1zq1A 438 2.50e+00 1e1hA 287 2.84e+00 d.92.1.7 83167 1adqL 213 3.11e+00 8fabA b.1.1.1 20272 b.1.1.2 21272 1f28A 297 3.14e+00 1bkpA d.117.1.1 59608 1xubA 298 3.44e+00 1lcyA 325 3.48e+00 b.36.1.4 73834 b.47.1.1 73835 1try 224 3.74e+00 5ptp b.47.1.2 26017 1c0aA 585 4.16e+00 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1v54B 227 4.39e+00 b.6.1.2 100322 f.17.2.1 100323 1k5cA 335 4.45e+00 b.80.1.3 72076 1nezG 128 4.71e+00 b.1.1.1 85592 2fcr 173 4.73e+00 1rcf c.23.5.1 31151 1t6kA 278 5.03e+00 2a5dA 175 5.11e+00 1e5uI 187 5.69e+00 1f00I b.1.14.1 22372 d.169.1.3 42441 2et1A 201 5.94e+00 1n67A 359 6.27e+00 b.2.3.4 85354 b.2.3.4 85355 1cxlA 686 6.31e+00 1cxlA b.1.18.2 21829 b.3.1.1 22498 b.71.1.1 27736 c.1.8.1 28723 1fi2A 201 6.31e+00 1fi2A b.82.1.2 59845 1lrzA 426 6.34e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1u1wA 298 6.70e+00 1aszB 490 6.89e+00 1b8aA b.40.4.1 25241 d.104.1.1 40762 1pq7A 224 6.93e+00 b.47.1.2 95002 8fabA 212 6.99e+00 8fabA b.1.1.1 19772 b.1.1.2 20882 1fn8A 224 7.06e+00 5ptp b.47.1.2 26012 2d0oB 125 7.43e+00 1o88A 353 7.60e+00 b.80.1.1 81178 1asyA 490 7.70e+00 1b8aA b.40.4.1 25242 d.104.1.1 40763 1d3cA 686 7.73e+00 1cxlA b.1.18.2 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1z41A 338 8.23e+00 1ciy 590 8.83e+00 1ciy b.18.1.3 23720 b.77.2.1 27977 f.1.3.1 43392 1dr9A 201 8.94e+00 1dr9A b.1.1.1 19762 b.1.1.3 21684 1jmxA 494 9.13e+00 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 2occB 227 9.40e+00 2occB b.6.1.2 23027 f.17.2.1 43519 1ehkB 168 9.47e+00 2cuaA b.6.1.2 23041 f.17.2.1 43625 1ot1A 686 9.52e+00 b.1.18.2 87392 b.3.1.1 87393 b.71.1.1 87394 c.1.8.1 87395 2pec 353 9.95e+00 1air b.80.1.1 28019 1erjA 393 9.97e+00 1erjA b.69.4.1 27660 6prcL 273 9.99e+00 6prcL f.26.1.1 43434 1kepA 348 1.04e+01 c.2.1.2 68536 1air 353 1.05e+01 1air b.80.1.1 28018 1tjgH 237 1.09e+01 1itkA 731 1.09e+01 a.93.1.3 71417 a.93.1.3 71418 1dxrL 273 1.09e+01 6prcL f.26.1.1 43431 1p8xA 344 1.10e+01 d.109.1.1 94365 d.109.1.1 94366 d.109.1.1 94367 1ollA 188 1.13e+01 b.1.1.4 93313 b.1.1.4 93314 1oc2A 348 1.13e+01 c.2.1.2 92765 1dqnA 230 1.14e+01 1dqnA c.61.1.1 34067 1ah0 316 1.14e+01 1frb c.1.7.1 28685 2asi 360 1.16e+01 2rmpA b.50.1.2 26824 1ux6A 350 1.17e+01 b.29.1.16 100145 g.75.1.1 100146 1snyA 267 1.22e+01 c.2.1.2 105833 2cxxA 190 1.24e+01 1i2kA 269 1.26e+01 e.17.1.1 90661 1w3uA 362 1.29e+01 1bjnA 360 1.29e+01 1bjnA c.67.1.4 34469 1g40A 244 1.34e+01 1e5gA g.18.1.1 44823 g.18.1.1 44824 g.18.1.1 44825 g.18.1.1 44826 1gskA 513 1.34e+01 b.6.1.3 83314 b.6.1.3 83315 b.6.1.3 83316 1ai1H 221 1.40e+01 1igtB b.1.1.1 19883 b.1.1.2 20979 1bt4A 362 1.41e+01 1bjnA c.67.1.4 34468 1et0A 269 1.43e+01 1et0A e.17.1.1 43289 2dhqA 146 1.46e+01 2dhqA c.23.13.1 31382 1k42A 168 1.51e+01 b.18.1.14 72032 1f00I 282 1.55e+01 1f00I b.1.14.1 22368 b.1.14.1 22369 d.169.1.3 42439 1q47A 495 1.56e+01 b.69.12.1 104532 1n99A 166 1.57e+01 b.36.1.1 85459 b.36.1.1 85460 1uf5A 303 1.57e+01 d.160.1.2 107808 1mkfA 382 1.58e+01 b.116.1.1 79232 1h05A 146 1.62e+01 c.23.13.1 76433 1erzA 303 1.64e+01 1erzA d.160.1.2 59498 1dqpA 230 1.64e+01 1dqnA c.61.1.1 34069 1lycA 343 1.65e+01 a.93.1.1 74344 1tdtA 259 1.69e+01 3tdt b.81.1.2 28055 1z90A 469 1.69e+01 1wrjA 156 1.72e+01 1je0A 236 1.72e+01 c.56.2.1 66581 1f15B 218 1.73e+01 1f15B b.121.4.5 23321 1bjoA 360 1.73e+01 1bjnA c.67.1.4 34471 1igtB 444 1.73e+01 1igtB b.1.1.1 19765 b.1.1.2 20867 b.1.1.2 20868 b.1.1.2 20869 2rmpA 361 1.77e+01 2rmpA b.50.1.2 26825 1v8bA 479 1.78e+01 1gmiA 136 1.82e+01 b.7.1.1 65309 2polA 366 1.84e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1kawA 135 1.86e+01 3ullA b.40.4.3 25288 2a6hA 315 1.86e+01 1jniA 123 1.87e+01 a.138.1.3 71761 1b43A 340 1.89e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 1rmg 422 1.91e+01 1rmg b.80.1.3 28029 1xkyA 301 1.91e+01 1f1sA 814 1.99e+01 a.102.3.2 64928 b.1.18.2 64929 b.24.1.1 64930 b.30.5.2 64931 2b8nA 429 2.00e+01 1uz8B 212 2.04e+01 b.1.1.1 108168 b.1.1.2 108169 1xksA 450 2.06e+01 1npeA 267 2.07e+01 b.68.5.1 92032 1odfA 290 2.11e+01 c.37.1.6 92782 1upiA 225 2.15e+01 b.82.1.1 99757 1q7fA 286 2.19e+01 b.68.9.1 96036 1o0uA 429 2.22e+01 c.118.1.1 80743 1h6uA 308 2.22e+01 b.1.18.15 65688 c.10.2.1 65689 1s5lA 344 2.24e+01 1khbA 625 2.24e+01 c.91.1.1 68606 c.109.1.1 68607 2madH 373 2.24e+01 2bbkH b.69.2.1 27639 1l6rA 227 2.28e+01 c.108.1.10 77768 1rt8A 513 2.28e+01 a.40.1.1 105095 2affA 120 2.31e+01 1pmi 440 2.33e+01 1pmi b.82.1.3 28114 1s48A 609 2.34e+01 e.8.1.4 98475 1ej6A 1289 2.35e+01 i.7.1.1 45967 3tdt 274 2.36e+01 3tdt b.81.1.2 28053 1sz7A 200 2.36e+01 1f76A 336 2.37e+01 c.1.4.1 76160 1lvmA 229 2.43e+01 b.47.1.3 78243 1kgqA 274 2.43e+01 b.81.1.2 72447 1prcH 259 2.45e+01 6prcH b.41.1.1 25460 f.23.10.1 43445 1e1hB 174 2.47e+01 1e2tA 284 2.47e+01 1e2tA d.3.1.5 37121 1sqc 631 2.49e+01 2sqcA a.102.4.2 18858 a.102.4.2 18859 1arv 344 2.51e+01 1arv a.93.1.1 18590 1xuqA 212 2.53e+01 1aru 344 2.55e+01 1arv a.93.1.1 18589 1b3qA 379 2.56e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1xszA 356 2.57e+01 1k6dA 220 2.59e+01 c.124.1.2 72082 1u0mA 382 2.61e+01 c.95.1.2 107557 c.95.1.2 107558 1f0lA 535 2.61e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1j0fA 100 2.65e+01 c.47.1.14 90739 1sva1 361 2.67e+01 1vpsA 1wrmA 165 2.67e+01 2tdt 274 2.69e+01 3tdt b.81.1.2 28054 1ijqA 316 2.73e+01 1ijqA b.68.5.1 62506 g.3.11.1 62507 1ospO 257 2.74e+01 1ospO b.76.1.1 27971 6prcH 258 2.75e+01 6prcH b.41.1.1 25457 f.23.10.1 43436 1d8hA 311 2.77e+01 1d8iA d.63.1.1 39544 1hsr 344 2.77e+01 1arv a.93.1.1 18592 2sqcA 631 2.78e+01 2sqcA a.102.4.2 18854 a.102.4.2 18855 1wlnA 120 2.80e+01 1iatA 557 2.80e+01 1dqrA c.80.1.2 62123 1jfkA 134 2.81e+01 a.39.1.5 66639 1ah4 315 2.87e+01 1frb c.1.7.1 28684 1bqyA 234 2.88e+01 5ptp b.47.1.2 26332 1fnf 368 2.88e+01 1fnf b.1.2.1 21972 b.1.2.1 21973 b.1.2.1 21974 b.1.2.1 21975 1aomA 567 2.93e+01 1qksA b.70.2.1 27694 2f5bH 235 2.94e+01 b.1.1.1 88506 b.1.1.2 88507 2alaA 391 2.98e+01 1plq 258 3.01e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1v3eA 431 3.03e+01 b.68.1.1 100287 1xkgA 312 3.04e+01 1jovA 270 3.04e+01 b.30.5.7 84192 1kcvL 214 3.16e+01 b.1.1.1 72317 b.1.1.2 72318 1wnhA 225 3.16e+01 2etvA 346 3.18e+01 1h3gA 601 3.20e+01 b.1.18.2 90594 b.71.1.1 90595 c.1.8.1 90596 1pvxA 194 3.20e+01 1axkA b.29.1.11 24341 1igtD 444 3.21e+01 1igtB b.1.1.1 19767 b.1.1.2 20871 b.1.1.2 20872 b.1.1.2 20873 1rerA 391 3.25e+01 b.1.18.4 97327 f.10.1.1 97328 1zj8A 566 3.33e+01 1jmuB 666 3.47e+01 1pcl 355 3.51e+01 1pcl b.80.1.1 28021 1yx1A 264 3.52e+01 1ee6A 197 3.54e+01 1ee6A b.80.1.1 28024 1nnvA 110 3.65e+01 d.17.7.1 92012 1ddt 535 3.73e+01 1ddt b.2.1.1 22379 d.166.1.1 42241 f.1.2.1 43384 2cxcA 144 3.78e+01 1tueB 218 3.78e+01 b.91.1.1 107324 1nkgA 508 3.83e+01 b.3.1.2 103859 b.18.1.25 103860 b.30.5.10 103861 1svb 395 3.85e+01 1svb b.1.18.4 21814 f.10.1.1 43827 1gtkA 313 3.86e+01 c.94.1.1 76346 d.50.2.1 76347 1tikA 213 3.88e+01 c.23.5.3 107003 1mmiA 366 3.91e+01 d.131.1.1 91309 d.131.1.1 91310 d.131.1.1 91311 1bdfA 235 3.98e+01 1bdfA d.74.3.1 39727 d.181.1.1 42602 1c3yA 108 3.99e+01 1c3yA a.39.2.1 17387