# List of top-scoring protein chains for t04-100-30-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 1nb8A 353 5.23e-52 d.3.1.9 80385 1ubi 76 1.33e-04 1ubi d.15.1.1 37584 1ogwA 76 1.42e-04 d.15.1.1 87001 1vcbA 118 2.57e-03 1vcbA d.15.1.1 37603 1bt0A 76 2.82e-03 1ubi d.15.1.1 37607 1lm8B 118 3.30e-03 d.15.1.1 74033 1nddA 76 5.67e-03 1ubi d.15.1.1 37599 1hleA 345 1.22e-01 1ovaA e.1.1.1 42618 1euvB 86 2.29e-01 1a5r d.15.1.1 37598 1uhgA 385 2.58e-01 e.1.1.1 88491 1dbhA 354 2.69e-01 1awe a.87.1.1 18514 b.55.1.1 26967 1ovaA 386 4.31e-01 1ovaA e.1.1.1 42619 1t0yA 122 4.64e-01 d.15.1.1 -9151 1rpa 342 5.23e-01 1cviA c.60.1.2 33983 1oglA 283 6.74e-01 unknown_sccs -1512 1i5pA 633 7.02e-01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1cqxA 403 1.29e+00 1cqxA a.1.1.2 15635 b.43.4.2 25667 c.25.1.5 31562 1k6kA 143 1.75e+00 a.174.1.1 77274 1hkfA 122 1.90e+00 b.1.1.1 83553 1q1aA 289 2.10e+00 c.31.1.5 -6781 1gg3A 279 2.62e+00 1ef1A a.11.2.1 16372 b.55.1.5 27007 d.15.1.4 37615 1qmyA 167 2.65e+00 1qmyA d.3.1.2 37094 1d0cA 444 2.66e+00 d.174.1.1 64769 2hpaA 342 2.86e+00 1cviA c.60.1.2 33985 1ed5A 444 2.87e+00 1nseA d.174.1.1 42530 1d1vA 444 3.02e+00 1nseA d.174.1.1 59101 1avsA 90 3.30e+00 1cll a.39.1.5 17226 1nw3A 416 3.36e+00 c.66.1.31 86288 1mtpA 323 4.04e+00 e.1.1.1 85107 1f83A 425 4.05e+00 1f82A d.92.1.7 40306 1a7cA 379 4.10e+00 1sek e.1.1.1 42660 1egaA 301 4.13e+00 1egaA c.37.1.8 32150 d.52.3.1 38836 1rwzA 245 4.36e+00 d.131.1.2 -11106 d.131.1.2 -11107 1s6cA 183 5.24e+00 a.39.1.5 -858 1ift 263 5.40e+00 1mrj d.165.1.1 42211 1nzjA 298 5.43e+00 c.26.1.1 -6600 1kk1A 410 5.52e+00 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1s8iA 121 5.96e+00 a.133.1.2 -1968 1lylA 504 6.04e+00 1lylA b.40.4.1 25261 d.104.1.1 40717 1jrrA 382 6.28e+00 e.1.1.1 63256 1ef1A 294 6.56e+00 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1ggzA 148 6.65e+00 a.39.1.5 70176 1lj5A 379 7.39e+00 e.1.1.1 73928 1nd6A 354 7.46e+00 c.60.1.2 80407 1ppa 121 7.55e+00 1poa a.133.1.2 19550 1alo 907 7.61e+00 1alo 1fiy 883 8.10e+00 1fiy c.1.12.3 29307 1exrA 148 8.64e+00 1cll a.39.1.5 17299 1alvA 173 8.70e+00 1alvA a.39.1.8 17370 1fnnA 389 8.90e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1spxA 278 8.91e+00 c.2.1.2 -5870 1v2yA 105 9.50e+00 d.15.1.1 -9148 1e1oA 504 9.53e+00 1lylA b.40.4.1 25258 d.104.1.1 40714 1rvgA 305 9.78e+00 c.1.10.2 -5500 1ltlA 279 1.11e+01 b.40.4.11 84701 1bl3A 160 1.22e+01 1b9dA c.55.3.2 33655 1psrA 100 1.24e+01 1psrA a.39.1.2 17180 1f2rI 100 1.28e+01 1c9fA d.15.2.1 37641 1n62A 166 1.29e+01 a.56.1.1 80090 d.15.4.2 80091 1mrj 247 1.32e+01 1mrj d.165.1.1 42177 1jqnA 883 1.33e+01 c.1.12.3 77159 1cjbA 231 1.36e+01 1qk3A c.61.1.1 34079 1jb0D 138 1.38e+01 1jb0D d.187.1.1 62823 1g5hA 454 1.39e+01 1g5hA c.51.1.1 60270 d.104.1.1 60271 1epwA 1290 1.42e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1qb2A 109 1.43e+01 1qb2A a.36.1.1 17125 1j55A 95 1.47e+01 a.39.1.2 77078 1ijxA 127 1.49e+01 1ijxA a.141.1.1 62511 1mijA 152 1.52e+01 a.4.1.1 79150 1uch 230 1.52e+01 1uch d.3.1.6 37129 1eg3A 261 1.55e+01 1eg3A a.39.1.7 17376 a.39.1.7 17377 b.72.1.1 27805 1e4fT 419 1.58e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1qwyA 291 1.62e+01 unknown_sccs -5023 2cblA 305 1.69e+01 2cblA a.39.1.7 17380 a.48.1.1 17774 d.93.1.1 40528 2cb5A 453 1.71e+01 3gcb d.3.1.1 37035 1id0A 152 1.72e+01 d.122.1.3 66111 1itg 166 1.81e+01 1b9dA c.55.3.2 33661 1scfA 273 1.83e+01 1exzA a.26.1.2 16873 1jmtA 104 1.83e+01 d.58.7.3 63180 1t82A 155 1.85e+01 1jmmA 377 2.01e+01 b.30.6.1 71749 1qxyA 252 2.19e+01 d.127.1.1 -10993 1op3H 225 2.20e+01 b.1.1.1 87208 b.1.1.2 87209 1f0cA 305 2.31e+01 1c8oA e.1.1.1 42676 1sczA 233 2.36e+01 c.43.1.1 -7326 1mu5A 471 2.41e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1j1vA 94 2.42e+01 a.4.12.2 83981 1kz7A 353 2.44e+01 a.87.1.1 73333 b.55.1.1 73334 1vjuA 309 2.50e+01 unknown_sccs -9594 1hq3C 136 2.67e+01 1aoiA a.22.1.1 16454 1se9A 126 2.78e+01 d.15.1.1 -9145 1fvuB 125 2.80e+01 1ixxB d.169.1.1 42346 1xvaA 292 2.87e+01 1xvaA c.66.1.5 34183 1uq5A 263 2.92e+01 d.165.1.1 -11555 1eg9B 194 3.02e+01 1ndoB d.17.4.4 38120 1k5nA 276 3.04e+01 b.1.1.2 77266 d.19.1.1 77267 1thtA 305 3.06e+01 1thtA c.69.1.13 34711 1g66A 207 3.06e+01 1bs9 unknown_sccs 31329 1mho 88 3.07e+01 1b4cA a.39.1.2 17171 1huuA 90 3.10e+01 1huuA a.55.1.1 17897 1c1yB 77 3.16e+01 1c1yB d.15.1.5 37618 1h5uA 842 3.22e+01 1a8i c.87.1.4 60655 1vapA 123 3.26e+01 1poa a.133.1.2 19548 1h7sA 365 3.28e+01 d.14.1.3 65705 d.122.1.2 65706 1uc2A 481 3.31e+01 unknown_sccs -11725 1r4wA 226 3.34e+01 unknown_sccs -7447 1nijA 318 3.36e+01 c.37.1.10 85741 d.237.1.1 85742 1t2aA 375 3.48e+01 c.2.1.2 -5764 1j8uA 325 3.49e+01 d.178.1.1 71611 2hgsA 474 3.50e+01 2hgsA c.30.1.4 31722 d.142.1.6 75997 1s5pA 235 3.54e+01 c.31.1.5 -6774 1sgvA 316 3.68e+01 b.122.1.1 -5120 unknown_sccs -10148 1sy6A 204 3.75e+01 1ihoA 283 3.78e+01 1ihoA c.26.1.4 62390 1a8i 842 3.79e+01 1a8i c.87.1.4 35490 1vjoA 393 3.88e+01 c.67.1.3 -8173 1ltsA 185 3.88e+01 1lt3A d.166.1.1 42229 1sqgA 429 3.90e+01 1ngnA 155 3.92e+01 a.96.1.2 85697 1auiB 169 3.97e+01 1auiB a.39.1.5 17325