# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1n99A 166 7.24e-02 b.36.1.1 85459 b.36.1.1 85460 1vjzA 341 8.58e-02 1rypC 244 2.68e-01 1rypC d.153.1.4 41934 1emsA 440 3.28e-01 1emsA d.13.1.1 37520 d.160.1.1 42086 1q5qA 259 3.67e-01 1pmaP 211 3.80e-01 1pmaP d.153.1.4 41863 1e19A 314 3.96e-01 1b7bA c.73.1.1 34967 1rypG 244 4.00e-01 d.153.1.4 41938 1fhvA 323 5.71e-01 1fhuA c.1.11.2 29235 d.54.1.1 38879 1iakA 199 8.78e-01 1iakA b.1.1.2 21625 d.19.1.1 38199 1r6wA 322 1.05e+00 3pmgA 561 1.06e+00 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1ub0A 258 1.18e+00 c.72.1.2 88394 2scuB 388 1.51e+00 2scuB c.23.4.1 31141 d.142.1.4 41562 1h4pA 408 1.51e+00 1at3A 247 1.73e+00 1at3A b.57.1.1 27021 1bdo 80 2.88e+00 1bdo b.84.1.1 28214 1j9yA 385 3.26e+00 1j9yA c.1.8.3 62791 1ii6A 368 3.53e+00 1bg2 c.37.1.9 62413 1k1gA 131 3.61e+00 d.51.1.1 68015 1odzA 386 3.68e+00 c.1.8.3 86889 1jj2P 95 4.13e+00 1ffkN b.34.5.1 63101 1nm8A 616 4.15e+00 c.43.1.3 85872 c.43.1.3 85873 1gw1A 376 4.49e+00 c.1.8.3 76361 1914 232 4.61e+00 1914 d.49.1.1 83028 d.49.1.1 83029 1hlrA 907 4.65e+00 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1q0bA 367 4.78e+00 1eqcA 394 5.08e+00 1cz1A c.1.8.3 28811 1q6hA 224 5.14e+00 1nvmB 312 5.31e+00 c.2.1.3 86251 d.81.1.1 86252 1cz1A 394 5.35e+00 1cz1A c.1.8.3 28839 1ndbA 596 5.37e+00 c.43.1.3 80411 c.43.1.3 80412 1lxtA 561 5.41e+00 3pmgA c.84.1.1 35432 c.84.1.1 35433 c.84.1.1 35434 d.129.2.1 41309 1g65K 211 5.69e+00 d.153.1.4 41907 1cnv 299 5.72e+00 1cnv c.1.8.5 28989 1rypL 212 6.73e+00 d.153.1.4 41880 1q8iA 783 6.81e+00 1qc9A 276 7.51e+00 1ckqA c.52.1.1 33235 1p9rA 418 7.83e+00 1kn0A 212 7.88e+00 d.50.1.3 77444 1wab 232 8.30e+00 1wab c.23.10.3 31341 1fmk 452 8.44e+00 1fmk b.34.2.1 24511 d.93.1.1 40436 d.144.1.7 41690 1s6yA 450 8.78e+00 1guzA 310 8.80e+00 c.2.1.5 65586 d.162.1.1 65587 1rr9A 200 9.02e+00 1rdzA 337 9.42e+00 1frpA e.7.1.1 42882 1gvoA 364 9.75e+00 c.1.4.1 76357 1ffkN 95 1.03e+01 1ffkN b.34.5.1 24606 1bdg 451 1.06e+01 1qhaA c.55.1.3 33461 c.55.1.3 33462 1inp 400 1.08e+01 1inp e.7.1.1 42972 1nu5A 370 1.10e+01 1rvkA 382 1.12e+01 1nbaA 264 1.19e+01 1nbaA c.33.1.1 31753 1mo7A 213 1.20e+01 d.220.1.1 85028 1ot5A 477 1.21e+01 b.18.1.20 87409 c.41.1.1 87410 1jdfA 447 1.22e+01 c.1.11.2 62897 d.54.1.1 62898 1h61A 364 1.26e+01 1oyc c.1.4.1 60657 1gzgA 337 1.28e+01 c.1.10.3 70805 1nmeA 146 1.30e+01 c.17.1.1 85874 1jihA 531 1.36e+01 e.8.1.5 66740 1rypB 250 1.37e+01 1rypB d.153.1.4 41933 1kliH 254 1.43e+01 b.47.1.2 77435 1s3iA 310 1.43e+01 1es9A 232 1.45e+01 1wab c.23.10.3 31340 1qu6A 179 1.47e+01 1qu6A d.50.1.1 38784 d.50.1.1 38785 1spuB 727 1.49e+01 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 1jcjA 260 1.52e+01 c.1.10.1 66499 1jclA 260 1.53e+01 c.1.10.1 66501 1p1xA 260 1.53e+01 1o12A 376 1.54e+01 b.92.1.5 80758 c.1.9.10 80759 1aj6 219 1.55e+01 1aj6 d.122.1.2 41106 1eceA 358 1.60e+01 1eceA c.1.8.3 28813 1te5A 257 1.60e+01 1vypX 364 1.60e+01 1kxrA 339 1.62e+01 d.3.1.3 73175 1nfkA 325 1.62e+01 1a3qA b.1.18.1 21929 b.2.5.3 22444 1m6kA 251 1.62e+01 e.3.1.1 78695 1kwgA 645 1.63e+01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1pysA 350 1.64e+01 1pysA d.104.1.1 40775 1b7yA 350 1.65e+01 1pysA d.104.1.1 40776 1fhuA 320 1.66e+01 1fhuA c.1.11.2 29234 d.54.1.1 38878 1kijA 390 1.67e+01 d.14.1.3 72514 d.122.1.2 72515 1b4kA 337 1.69e+01 1b4kA c.1.10.3 29184 1pauA 147 1.70e+01 1pauA c.17.1.1 30994 1danH 254 1.72e+01 5ptp b.47.1.2 26292 1oltA 457 1.77e+01 1qd6C 240 1.79e+01 1qd5A 1pmaA 233 1.83e+01 1pmaA d.153.1.4 41918 1f4tA 368 1.91e+01 1f4tA a.104.1.1 18973 1jssA 224 1.95e+01 d.129.3.2 71844 3fruA 269 1.97e+01 1agdA b.1.1.2 20657 d.19.1.1 38150 1dkzA 219 2.03e+01 1dkzA e.20.1.1 43314 1cp3A 277 2.05e+01 1pauA c.17.1.1 30992 1dthA 203 2.06e+01 1atlA d.92.1.9 40324 1qd5A 275 2.13e+01 1qd5A f.4.2.1 43748 1pcxA 810 2.17e+01 1a7tA 232 2.22e+01 1a7tA d.157.1.1 42041 1bqg 451 2.22e+01 1bqg c.1.11.2 29217 d.54.1.1 38861 1ush 550 2.25e+01 1ush d.114.1.1 40923 d.159.1.2 42079 1l7mA 211 2.30e+01 c.108.1.4 73664 1gal 583 2.31e+01 1gpeA c.3.1.2 30386 d.16.1.1 37950 1dupA 152 2.32e+01 1dupA b.85.4.1 28351 1euwA 152 2.32e+01 1dupA b.85.4.1 28349 1r64A 481 2.35e+01 1nteA 82 2.35e+01 b.36.1.1 86163 1r6jA 82 2.35e+01 1iwgA 1053 2.36e+01 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1se9A 126 2.37e+01 1c5kA 439 2.38e+01 1crzA b.68.4.1 27630 c.51.2.1 33212 1kwkA 645 2.39e+01 b.71.1.1 77565 c.1.8.1 77566 c.23.16.5 77567 1dkxA 219 2.42e+01 1dkzA e.20.1.1 43315 1j1iA 296 2.43e+01 c.69.1.10 83977 1rreA 200 2.46e+01 1p1lA 102 2.46e+01 d.58.5.2 87695 1io7A 368 2.48e+01 1f4tA a.104.1.1 18971 1dar 691 2.51e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1oyeA 1049 2.54e+01 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1v7nV 163 2.55e+01 1c0dA 358 2.66e+01 1eceA c.1.8.3 28815 1ev7B 317 2.66e+01 1ev7B c.52.1.9 33316 1d6zA 727 2.69e+01 1oacA b.30.2.1 24394 d.17.2.1 38015 d.17.2.1 38016 d.82.1.1 40007 1ilyA 90 2.73e+01 c.55.4.1 71245 1fgp 70 2.73e+01 1g3p b.37.1.1 24795 1e8oB 106 2.83e+01 1914 d.49.1.1 38775 1cjcA 460 2.85e+01 1cjcA c.3.1.1 30319 c.4.1.1 30604 1sva1 361 2.86e+01 1vpsA 1rtqA 299 2.89e+01 3rubS 123 2.89e+01 1rboC d.73.1.1 39616 1fpkA 335 2.90e+01 1frpA e.7.1.1 42930 5fbpA 335 2.91e+01 1frpA e.7.1.1 42873 1ozhA 566 2.92e+01 1df9A 191 2.93e+01 1befA b.47.1.3 26420 1mrj 247 2.94e+01 1mrj d.165.1.1 42177 1gmyA 261 2.94e+01 d.3.1.1 76236 1dmuA 299 2.94e+01 1dmuA c.52.1.4 33294 1itkA 731 3.11e+01 a.93.1.3 71417 a.93.1.3 71418 1crzA 403 3.13e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1btkB 169 3.15e+01 1btkA b.55.1.1 26960 1m6eX 359 3.19e+01 1iawA 317 3.21e+01 c.52.1.9 62126 1shdA 107 3.23e+01 1fmk d.93.1.1 40440 1a05A 358 3.29e+01 1cnzA c.77.1.1 35059 1b8dA 164 3.35e+01 1cpcA a.1.1.3 15665 1ow1A 195 3.40e+01 1p7tA 731 3.41e+01 1lj2A 110 3.51e+01 h.1.13.2 73926 1oacA 727 3.53e+01 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1n62B 809 3.53e+01 d.41.1.1 80092 d.133.1.1 80093 1c3pA 375 3.63e+01 1c3pA c.42.1.2 32606 1c0pA 363 3.64e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1ktaA 365 3.70e+01 e.17.1.1 77533 1pcfA 66 3.72e+01 1pcfA d.18.1.1 38142 1i1qA 520 3.84e+01 1qdlA d.161.1.1 61543 1im8A 244 3.85e+01 c.66.1.14 66212 1mkmA 249 3.87e+01 a.4.5.33 79242 d.110.2.2 79243 1ly1A 181 3.88e+01 c.37.1.1 74334 1qamA 244 3.91e+01 2ercA c.66.1.24 34220 1ajsA 412 3.92e+01 1ajsA c.67.1.1 34276 1rypK 198 3.93e+01 d.153.1.4 41879 1befA 181 3.96e+01 1befA b.47.1.3 26419 1theB 260 3.97e+01 1theB d.3.1.1 37057 1oo2A 119 3.98e+01