# 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 2bcoA 350 6.30e-25 1yw4A 341 2.79e-23 1h8lA 380 3.74e-05 b.3.2.1,c.56.5.1 65737,65738 1qmuA 380 4.49e-05 1qmuA b.3.2.1,c.56.5.1 22534,33827 2bo9A 308 1.92e-03 2c1cA 312 7.02e-03 1jqgA 433 7.77e-03 c.56.5.1,d.58.3.1 71791,71792 1aye 401 3.04e-02 1aye c.56.5.1,d.58.3.1 33824,39065 1dtdA 303 3.54e-02 1aye c.56.5.1 33823 1yme 309 2.84e-01 1aye c.56.5.1 33804 1m4lA 307 3.01e-01 c.56.5.1 78604 2ctb 307 3.10e-01 1aye c.56.5.1 33803 2ctc 307 3.36e-01 1aye c.56.5.1 33802 1bavA 309 4.60e-01 1aye c.56.5.1 33806 1kwmA 402 6.20e-01 c.56.5.1,d.58.3.1 73079,73080 6cpa 307 7.16e-01 1aye c.56.5.1 33816 1f47B 144 7.98e-01 1f46A d.129.4.1 59645 1f7wA 144 8.53e-01 1f46A d.129.4.1 59679 1jvbA 347 1.32e+00 b.35.1.2,c.2.1.1 77181,77182 1o0wA 252 2.04e+00 a.149.1.1,d.50.1.1 80751,80752 1bl3A 160 2.12e+00 1b9dA c.55.3.2 33655 1f46A 140 2.28e+00 1f46A d.129.4.1 59643 1z5rA 306 2.67e+00 1jbeA 128 2.91e+00 3chy c.23.1.1 62845 1e6mA 128 3.44e+00 3chy c.23.1.1 31039 1d8yA 605 4.19e+00 1xwl c.55.3.5,e.8.1.1 33684,42977 2kfnA 605 4.20e+00 1xwl c.55.3.5,e.8.1.1 33682,42975 1hyvA 166 4.20e+00 1b9dA c.55.3.2 61424 1ab5A 125 4.57e+00 3chy c.23.1.1 31056 3chy 128 4.92e+00 3chy c.23.1.1 31038 2axpA 173 5.17e+00 1mk4A 157 5.37e+00 d.108.1.1 84979 1kfd 605 5.40e+00 1xwl c.55.3.5,e.8.1.1 33694,42987 1b9dA 163 6.93e+00 1b9dA c.55.3.2 33649 1d4xG 126 7.39e+00 1d0nA d.109.1.1 59109 2aqjA 538 8.32e+00 1cye 129 8.34e+00 3chy c.23.1.1 31077 1yagG 125 8.88e+00 1d0nA d.109.1.1 40846 1nm1G 125 8.92e+00 d.109.1.1 80653 1yj7A 171 8.92e+00 1ne2A 200 9.14e+00 c.66.1.32 85586 1eqcA 394 9.29e+00 1cz1A c.1.8.3 28811 2b81A 323 9.44e+00 1lpuA 332 9.54e+00 d.144.1.7 74177 1m2rA 327 9.54e+00 d.144.1.7 84760 1cz1A 394 9.77e+00 1cz1A c.1.8.3 28839 1ab6A 125 9.77e+00 3chy c.23.1.1 31054 1xx1A 285 1.00e+01 1ki9A 192 1.03e+01 c.37.1.1 84404 1obr 326 1.03e+01 1aye c.56.5.2 33828 1cy9A 264 1.05e+01 1ecl e.10.1.1 43236 1w61A 414 1.05e+01 1om1A 332 1.07e+01 d.144.1.7 93347 1lp4A 332 1.07e+01 d.144.1.7 74170 1ye8A 178 1.08e+01 1klnA 605 1.10e+01 1xwl c.55.3.5,e.8.1.1 33693,42986 1a6o 332 1.33e+01 1a6o 1p2fA 220 1.42e+01 a.4.6.1,c.23.1.1 87720,87721 2gl5A 410 1.46e+01 1vhoA 346 1.58e+01 b.49.3.1,c.56.5.4 100694,100695 1e2uA 553 1.62e+01 1e1dA e.26.1.1 43362 1gntA 553 1.62e+01 e.26.1.1 70290 1xovA 326 1.63e+01 1qatB 622 1.65e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17355,23172,29600 1pv1A 299 1.71e+01 1e1dA 553 1.71e+01 1e1dA e.26.1.1 43363 1xwyA 264 1.74e+01 1vp4A 425 1.88e+01 1ydhA 216 1.90e+01 1f1sA 814 2.00e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 2freA 200 2.00e+01 1gnxA 479 2.01e+01 c.1.8.4 76241 1mjc 69 2.01e+01 1mjc b.40.4.5 25319 1wzcA 249 2.10e+01 1tlfA 301 2.11e+01 1tlfA c.93.1.1 35687 1g01A 364 2.15e+01 7a3hA c.1.8.3 60161 1d0nA 729 2.17e+01 1d0nA d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1 40834,40835,40836,40837,40838,40839 1jwqA 179 2.24e+01 c.56.5.6 90921 3pgk 416 2.26e+01 16pk c.86.1.1 35451 2vil 126 2.34e+01 2vil d.109.1.1 40830 1f8xA 157 2.42e+01 1f8xA c.23.14.1 31397 2bklA 695 2.49e+01 1zm7A 230 2.50e+01 1qasA 622 2.51e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17340,23157,29585 1i7dA 659 2.55e+01 1d6mA e.10.1.1 61886 1d6mA 653 2.55e+01 1d6mA e.10.1.1 43248 1g0cA 364 2.58e+01 7a3hA c.1.8.3 60165 1po5A 476 2.64e+01 a.104.1.1 94963 1itg 166 2.73e+01 1b9dA c.55.3.2 33661 1xfjA 261 2.73e+01 d.194.1.2 109585 1nt4A 391 2.74e+01 c.60.1.2 92102 1h1nA 305 2.76e+01 c.1.8.3 70855 1oe0A 230 2.81e+01 c.37.1.1 92788 1eu3A 210 2.97e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1c0dA 358 2.98e+01 1eceA c.1.8.3 28815 1fp3A 402 3.04e+01 1fp3A a.102.1.3 18842 1rkiA 102 3.09e+01 1h6kZ 98 3.10e+01 d.58.7.1 60686 1rliA 184 3.19e+01 c.23.5.6 97647 1eceA 358 3.38e+01 1eceA c.1.8.3 28813 1j90A 230 3.44e+01 c.37.1.1 66448 1lcyA 325 3.50e+01 b.36.1.4,b.47.1.1 73834,73835 2cybA 323 3.68e+01 1fobA 334 3.79e+01 c.1.8.3 83255 1qazA 351 3.81e+01 1qazA a.102.3.1 18848 1djxB 624 3.87e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1i24A 404 4.06e+01 c.2.1.2 83663 2hsdA 253 4.09e+01 1e6wA c.2.1.2 29866 1h2vZ 156 4.16e+01 d.58.7.1 76595 1pa2A 306 4.18e+01 1bgp a.93.1.1 18693 1vih 71 4.37e+01 1vih d.51.1.1 38807 1a0rP 245 4.41e+01 1b9yC c.47.1.6 33054 1vig 71 4.42e+01 1vih d.51.1.1 38806 1ihnA 113 4.47e+01 1ihnA c.103.1.1 62388 2itg 163 4.50e+01 1b9dA c.55.3.2 33669 2vik 126 4.51e+01 2vil d.109.1.1 40829 1hdcA 253 4.64e+01 1e6wA c.2.1.2 29862 1qd1A 325 4.64e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1xwiA 322 4.68e+01 1lw6E 281 4.68e+01 c.41.1.1 74293 1to2E 281 4.90e+01 1dusA 194 4.95e+01 1dusA c.66.1.4 34182 1a80 277 5.03e+01 1frb c.1.7.1 28700 1gq6A 313 5.10e+01 c.42.1.1 70341 1xjeA 644 5.13e+01 1n7hA 381 5.20e+01 c.2.1.2 80250 1jhnA 424 5.24e+01 b.104.1.1,b.29.1.12 66722,70060 1bjt 793 5.26e+01 1bjt e.11.1.1 43249 1ex2A 189 5.32e+01 1ex2A c.51.4.2 33225 1f0nA 285 5.33e+01 1dqyA c.69.1.3 34636 1y8oA 419 5.42e+01 1vpbA 451 5.51e+01 1f8yA 157 5.57e+01 1f8xA c.23.14.1 31395 1su4A 994 5.61e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1gehA 444 5.67e+01 c.1.14.1,d.58.9.1 65181,65182 1j8yF 297 6.09e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1c3oE 1073 6.14e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18564,31493,31685,31686,41530,41531 1w9hA 427 6.20e+01 1ii2A 524 6.27e+01 c.91.1.1,c.109.1.1 66146,66147 1qgdA 662 6.28e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1keeE 1073 6.30e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68508,68509,68510,68511,68512,68513 1gqeA 365 6.31e+01 e.38.1.1 70351 1hl6A 165 6.47e+01 d.58.7.1 83609 1ecl 597 6.49e+01 1ecl e.10.1.1 43238 1c3oG 1073 6.58e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18565,31494,31687,31688,41532,41533 1lokA 291 6.64e+01 c.56.5.4 78122 1pqzA 238 6.64e+01 b.1.1.2,d.19.1.1 104297,104298 1hw6A 278 6.67e+01 1frb c.1.7.1 61296 1dp4A 435 6.68e+01 1dp4A c.93.1.1 35710 1gdhA 320 6.72e+01 1gdhA c.2.1.4,c.23.12.1 30095,31355 1rk8A 165 6.73e+01 d.58.7.1 97603 1cs0A 1073 6.80e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1c3oC 1073 6.81e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18563,31492,31683,31684,41528,41529 1cs0C 1073 6.81e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18559,31488,31675,31676,41520,41521 1kl7A 514 6.88e+01 c.79.1.1 72678 1yvoA 172 7.06e+01 1r62A 160 7.33e+01 d.122.1.3 104816 1jdbB 1073 7.33e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18574,31503,31705,31706,41550,41551 1uch 230 7.37e+01 1uch d.3.1.6 37129 1j8mF 297 7.42e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1pm6A 72 7.42e+01 a.6.1.7 94894 1ou0A 207 7.44e+01 c.23.17.1 93536 1keeG 1073 7.51e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68516,68517,68518,68519,68520,68521 1kczA 413 7.61e+01 c.1.11.2,d.54.1.1 68451,68452 1gu7A 364 7.68e+01 b.35.1.2,c.2.1.1 83321,83322 1hw8A 467 7.72e+01 1dqaA d.58.20.1,d.179.1.1 61298,61299 3mefA 69 7.72e+01 1mjc b.40.4.5 25320 1n99A 166 7.72e+01 b.36.1.1,b.36.1.1 85459,85460 2anpA 291 7.82e+01 1kbpA 432 7.84e+01 4kbpA b.1.12.1,d.159.1.1 22349,42068 16pk 415 7.92e+01 16pk c.86.1.1 35454 1keeC 1073 7.98e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68500,68501,68502,68503,68504,68505 1xfsA 178 8.00e+01 d.129.3.5 109589 2cq2A 114 8.00e+01 1a8y 367 8.08e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1aqm 453 8.12e+01 1smd b.71.1.1,c.1.8.1 27717,28704 1xznA 179 8.16e+01 1ii7A 333 8.18e+01 1ii7A d.159.1.4 62415 1rtqA 299 8.43e+01 c.56.5.4 97819 1l7vC 249 8.44e+01 c.37.1.12 73674 1hjsA 332 8.50e+01 c.1.8.3 83492 1kyqA 274 8.51e+01 c.2.1.11,e.37.1.1 73281,73282 1amp 291 8.52e+01 1amp c.56.5.4 33837 1fxqA 267 8.57e+01 1d9eA c.1.10.4 60108 1e29A 135 8.61e+01 1e29A a.3.1.1 59161 4kbpA 432 8.65e+01 4kbpA b.1.12.1,d.159.1.1 22345,42064 1gnlA 544 8.97e+01 e.26.1.1 70287