# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1nf2A 268 6.39e-01 c.108.1.10 -6842 1lfpA 249 1.47e+00 e.39.1.1 73885 1iyxA 432 2.01e+00 c.1.11.1 83815 d.54.1.1 83816 1se0A 116 2.02e+00 g.52.1.1 -12841 1qpsA 261 2.18e+00 1ckqA c.52.1.1 33234 1okrA 123 3.03e+00 unknown_sccs -235 1i8xA 30 3.14e+00 g.3.16.1 71132 1ica 40 3.26e+00 1ica g.3.7.4 44173 1qgmA 30 3.80e+00 g.3.16.1 44380 1ihkA 174 5.07e+00 1bfg b.42.1.1 62384 1fm9D 272 6.18e+00 2prgA a.123.1.1 19313 1cl8A 276 6.44e+00 1ckqA c.52.1.1 33230 1ckqA 276 6.49e+00 1ckqA c.52.1.1 33229 1geqA 248 6.74e+00 2tysA c.1.2.4 28589 1gmxA 108 6.80e+00 c.46.1.3 65355 1bncA 449 7.17e+00 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1om4A 422 8.26e+00 d.174.1.1 87067 1mgrA 99 8.31e+00 d.1.1.2 79106 3nodB 423 9.34e+00 1nseA d.174.1.1 42513 1ov3A 138 9.39e+00 b.34.2.1 87451 b.34.2.1 87452 1gn0A 108 9.87e+00 c.46.1.3 65358 2prgA 271 1.05e+01 2prgA a.123.1.1 19311 1qumA 285 1.06e+01 1qumA c.1.15.1 29393 1ko7A 314 1.08e+01 c.98.2.1 72797 c.91.1.2 72798 1d0cA 444 1.09e+01 d.174.1.1 64769 1g73C 121 1.10e+01 1g3fA g.52.1.1 45375 1gm5A 780 1.11e+01 unknown_sccs 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1nseA 444 1.11e+01 1nseA d.174.1.1 42534 1ed5A 444 1.11e+01 1nseA d.174.1.1 42530 5nseA 444 1.14e+01 d.174.1.1 74644 1d1vA 444 1.18e+01 1nseA d.174.1.1 59101 1bf8 205 1.23e+01 1qpxA b.1.11.1 22332 b.7.2.1 23214 1lg7A 182 1.28e+01 d.213.1.1 73888 1oi7A 288 1.40e+01 c.2.1.8 87049 c.23.4.1 87050 2frvB 536 1.45e+01 1h2rL e.18.1.1 43291 1eriA 276 1.45e+01 1ckqA c.52.1.1 33231 1i60A 278 1.45e+01 c.1.15.4 71118 1qniA 581 1.51e+01 1qniA b.6.1.4 23042 b.69.3.1 27642 7reqB 637 1.51e+01 1reqB c.1.19.1 29617 c.23.6.1 31244 1k7jA 206 1.54e+01 d.115.1.1 72103 1fu1A 203 1.55e+01 1fu1B b.59.1.1 27076 h.1.11.1 45630 1qopA 268 1.61e+01 2tysA c.1.2.4 28570 1ju5A 109 1.62e+01 d.93.1.1 77173 1rvgA 305 1.65e+01 c.1.10.2 -5500 1rypL 212 1.67e+01 d.153.1.4 41880 1bksA 268 1.75e+01 2tysA c.1.2.4 28585 1dv1A 449 1.79e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1elvA 333 1.79e+01 5ptp b.47.1.2 59454 g.18.1.1 59455 1ng2A 193 1.79e+01 b.34.2.1 85660 b.34.2.1 85661 1qamA 244 1.81e+01 2ercA c.66.1.24 34220 1ejdA 419 1.81e+01 1uae d.68.2.2 39576 1vizA 240 1.85e+01 c.1.4.1 -5212 1e8yA 966 1.92e+01 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1b47A 304 2.04e+01 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 1qavA 90 2.06e+01 1qauA b.36.1.1 24777 1e4cP 215 2.06e+01 2fua c.74.1.1 34969 2tysA 268 2.06e+01 2tysA c.1.2.4 28572 1qapA 296 2.10e+01 1qpoA c.1.17.1 29559 d.41.2.1 38595 1awo 62 2.10e+01 1bbzA b.34.2.1 24482 1ik9A 213 2.11e+01 b.59.1.1 66176 h.1.11.1 66177 1qpbA 563 2.13e+01 1zpdA c.31.1.3 31739 c.36.1.5 31781 c.36.1.9 31782 1prgA 270 2.16e+01 2prgA a.123.1.1 19314 1bi0 226 2.23e+01 1bi0 a.4.5.24 16202 a.76.1.1 18408 b.34.1.2 24453 1dbtA 239 2.27e+01 1dbtA c.1.2.3 28539 5croA 66 2.32e+01 1orc a.35.1.2 17044 1copD 66 2.35e+01 1orc a.35.1.2 17058 1dv2A 452 2.35e+01 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1pvdA 537 2.40e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1b43A 340 2.42e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 1dgsA 667 2.57e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1mrzA 293 2.60e+01 b.43.5.1 -4048 c.26.1.3 -6616 1li5A 461 2.63e+01 a.27.1.1 73912 c.26.1.1 73913 1rxwA 336 2.63e+01 a.60.7.1 -1041 c.120.1.2 -6680 1jj2Y 73 2.73e+01 1ffkW g.41.8.1 63110 1akeA 214 2.76e+01 1zin c.37.1.1 31905 g.41.2.1 45185 1gh2A 107 2.78e+01 1erv c.47.1.1 60515 1t9kA 347 2.79e+01 2fua 215 2.79e+01 2fua c.74.1.1 34977 1fua 215 2.81e+01 2fua c.74.1.1 34973 1cc8A 73 2.83e+01 1cc8A d.58.17.1 39343 1o0pA 104 2.86e+01 d.58.7.1 86535 1g3fA 117 2.87e+01 1g3fA g.52.1.1 45378 1npiA 61 2.88e+01 g.3.7.1 80685 1pydA 556 2.89e+01 1zpdA c.31.1.3 31735 c.36.1.5 31773 c.36.1.9 31774 1b7dA 61 2.91e+01 1aho g.3.7.1 44139 1lam 484 2.99e+01 1lam c.56.5.3 33829 c.50.1.1 33166 1tqnA 486 3.05e+01 1omhA 293 3.10e+01 unknown_sccs -10527 1bllE 488 3.11e+01 1lam c.56.5.3 33833 c.50.1.1 33170 1f3uB 171 3.11e+01 1f3uB b.65.1.1 27525 1fd8A 73 3.20e+01 1cc8A d.58.17.1 59770 1t5hX 504 3.20e+01 1p32A 209 3.23e+01 1p32A d.25.1.1 38379 1gg6C 97 3.29e+01 5ptp 1ab9C 97 3.29e+01 5ptp 1b6rA 355 3.30e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1mtnC 97 3.35e+01 5ptp 1kq3A 376 3.36e+01 e.22.1.2 68790 1uae 419 3.38e+01 1uae d.68.2.2 39574 1giqA 413 3.40e+01 d.166.1.1 76224 d.166.1.1 76225 1g6sA 427 3.41e+01 1eps d.68.2.2 39584 1oj5A 132 3.50e+01 unknown_sccs -10848 1iv8A 720 3.52e+01 b.71.1.1 76842 c.1.8.1 76843 1ddnA 226 3.57e+01 1bi0 a.4.5.24 16207 a.76.1.1 18413 1m2aA 110 3.58e+01 c.47.1.11 78472 1ipwA 175 3.58e+01 2prd b.40.5.1 25427 1fzrA 138 3.62e+01 1fzrA c.52.1.17 33336 1ro2A 216 3.66e+01 unknown_sccs -11391 1m0dA 138 3.66e+01 c.52.1.17 74354 2cblA 305 3.67e+01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 1qv9A 283 3.68e+01 unknown_sccs -6888 1mo2A 294 3.69e+01 c.69.1.22 79331 1m2dA 110 3.72e+01 c.47.1.11 78476 1ro0A 216 3.76e+01 unknown_sccs -11390 1m2bA 110 3.76e+01 c.47.1.11 78474 1jscA 630 3.80e+01 c.31.1.3 67224 c.36.1.5 67225 c.36.1.9 67226 1bbzA 58 3.82e+01 1bbzA b.34.2.1 24477 1bcpA 235 3.84e+01 1bcpA d.166.1.1 42255 1reqB 637 3.85e+01 1reqB c.1.19.1 29621 c.23.6.1 31248 2scuB 388 3.85e+01 2scuB c.23.4.1 31141 d.142.1.4 41562 1k6wA 426 3.87e+01 b.92.1.2 68236 c.1.9.5 68237 1qsvA 101 3.88e+01 1fltX b.1.1.4 21771 1lap 488 3.89e+01 1lam c.56.5.3 33834 c.50.1.1 33171 2wsyA 268 3.90e+01 2tysA c.1.2.4 28588 1ygs 234 3.92e+01 1ygs b.26.1.1 23907 1o6aA 96 3.95e+01 unknown_sccs -4101 1fsu 492 3.96e+01 1auk c.76.1.2 35032 1g65K 211 3.97e+01 d.153.1.4 41907 1ll7A 392 3.98e+01 c.1.8.5 78085 d.26.3.1 78086