# List of top-scoring protein chains for T0350.t04-w0.5 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 1v5xA 203 8.12e+00 c.1.2.4 100377 1wmvA 54 9.38e+00 1mzjA 339 1.14e+01 c.95.1.2,c.95.1.2 79700,79701 2fwuA 157 1.36e+01 b.1.27.1 134262 1qdnA 204 1.63e+01 1qcsA b.52.2.3,d.31.1.1 26928,38462 1qcsA 211 1.65e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1sw6A 327 1.69e+01 1sw6A d.211.1.1 19176 1muwA 386 2.25e+01 c.1.15.3 79495 1j36A 607 2.26e+01 d.92.1.5 84054 1dxiA 388 2.31e+01 4xis c.1.15.3 29407 1i27A 73 2.73e+01 1i27A a.4.5.30 61555 1nhaA 82 2.82e+01 a.4.5.30 80509 1b8dA 164 2.94e+01 1cpcA a.1.1.3 15665 1ww1A 280 2.99e+01 d.157.1.7 121348 1o5lA 213 3.06e+01 b.82.3.2 92506 1tcoA 375 3.11e+01 1auiA d.159.1.3 42084 1mf8A 373 3.34e+01 d.159.1.3 79040 1ng6A 148 3.68e+01 a.182.1.1 85670 1ud0A 113 3.83e+01 a.8.4.1 99198 1auiA 521 3.85e+01 1auiA d.159.1.3 42085 1h72C 296 4.07e+01 d.14.1.5,d.58.26.1 60712,60713 2carA 196 4.09e+01 c.51.4.1 130161 1fpwA 190 4.16e+01 1rec a.39.1.5 17329 1t6sA 162 4.16e+01 a.4.5.60,a.4.5.60 112271,112272 1o4uA 285 4.28e+01 c.1.17.1,d.41.2.1 86624,86625 1qazA 351 4.59e+01 1qazA a.102.3.1 18848 1eyxA 164 4.69e+01 1cpcA a.1.1.3 15669 1pex 207 4.81e+01 1gen 1oxsC 353 4.87e+01 b.40.6.3,c.37.1.12 87519,87520 1oadA 388 4.90e+01 c.1.15.3 81253 2glkA 388 4.90e+01 c.1.15.3 135344 1o1hA 387 4.90e+01 c.1.15.3 81044 1gw9A 388 4.91e+01 c.1.15.3 70658 1oxxK 353 4.94e+01 b.40.6.3,c.37.1.12 93715,93716 1ceuA 51 4.94e+01 1ceuA j.11.1.1 46137 6xia 387 5.19e+01 4xis 1j6qA 136 5.23e+01 b.40.9.1 77091 2cnqA 306 5.26e+01 d.143.1.1 130646 1liaA 164 5.66e+01 1cpcA a.1.1.3 15661 1zxzA 197 5.69e+01 2gnqA 336 6.01e+01 1gd7A 109 6.23e+01 b.40.4.4 60441 1siqA 392 6.27e+01 a.29.3.1,e.6.1.1 105585,105586 1sirA 394 6.28e+01 a.29.3.1,e.6.1.1 105587,105588 1jnyA 435 6.29e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1jchA 551 6.57e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1w53A 84 6.64e+01 a.186.1.2 109175 1ghj 79 6.66e+01 1ghj 3proC 166 6.89e+01 3proC d.52.1.1,d.52.1.1 38812,38813 2axnA 520 6.94e+01 1gkuB 1054 6.99e+01 c.37.1.16,c.37.1.16,e.10.1.1 65257,65258,65259 1ohtA 215 7.03e+01 d.118.1.1 87036 1gl9B 1054 7.17e+01 c.37.1.16,c.37.1.16,e.10.1.1 65291,65292,65293 1c1lA 136 7.23e+01 1c1lA b.29.1.3 24219 1b7gO 340 7.24e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1tyjA 170 7.38e+01 b.2.2.2 119390 2gtqA 867 7.41e+01 2ctmA 95 7.43e+01 d.51.1.1 130799 1im8A 244 7.50e+01 c.66.1.14 66212 1esxA 96 7.62e+01 1esxA j.11.1.1 59501 1mfqB 108 7.67e+01 d.201.1.1 79045 2agyA 361 7.74e+01 1uujA 88 7.90e+01 a.221.1.1 108046 1jidA 128 8.15e+01 d.201.1.1 66735 2ng1 293 8.28e+01 1ng1 1ffh 294 8.31e+01 1ng1 1ng1 294 8.38e+01 1ng1 1ls1A 295 8.39e+01 a.24.13.1,c.37.1.10 78170,78171 2fflA 756 8.39e+01 1jpnA 296 8.40e+01 a.24.13.1,c.37.1.10 67039,67040 1o87A 297 8.43e+01 a.24.13.1,c.37.1.10 92640,92641 1rj9B 300 8.44e+01 a.24.13.1,c.37.1.10 97555,97556 1q9cA 191 8.49e+01 a.22.1.3 96258 1a3qA 285 8.51e+01 1a3qA b.1.18.1,b.2.5.3 21932,22447 1wr2A 238 8.59e+01 1pmr 80 8.86e+01 1ghj