# List of top-scoring protein chains for T0350.t2k-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 2fwuA 157 3.79e+00 b.1.27.1 134262 1v5xA 203 5.38e+00 c.1.2.4 100377 1muwA 386 7.41e+00 c.1.15.3 79495 1ww1A 280 8.47e+00 d.157.1.7 121348 1sw6A 327 1.13e+01 1sw6A d.211.1.1 19176 1wmvA 54 1.27e+01 1dxiA 388 1.42e+01 4xis c.1.15.3 29407 1mzjA 339 1.44e+01 c.95.1.2,c.95.1.2 79700,79701 1i27A 73 1.93e+01 1i27A a.4.5.30 61555 1o1hA 387 1.94e+01 c.1.15.3 81044 1oadA 388 1.94e+01 c.1.15.3 81253 2glkA 388 1.94e+01 c.1.15.3 135344 1gw9A 388 1.95e+01 c.1.15.3 70658 6xia 387 1.97e+01 4xis 1ud0A 113 2.00e+01 a.8.4.1 99198 1nhaA 82 2.06e+01 a.4.5.30 80509 1qdnA 204 2.07e+01 1qcsA b.52.2.3,d.31.1.1 26928,38462 1qcsA 211 2.11e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1j36A 607 2.44e+01 d.92.1.5 84054 1t6sA 162 3.04e+01 a.4.5.60,a.4.5.60 112271,112272 1jnyA 435 3.08e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1ysqA 193 3.36e+01 1a3qA 285 3.48e+01 1a3qA b.1.18.1,b.2.5.3 21932,22447 1usuA 260 3.54e+01 d.14.1.8 99885 1usvA 260 3.66e+01 d.14.1.8 99887 1jchA 551 3.85e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1hk7A 288 3.98e+01 d.14.1.8 90626 1w53A 84 4.27e+01 a.186.1.2 109175 2cnqA 306 4.29e+01 d.143.1.1 130646 1qazA 351 4.46e+01 1qazA a.102.3.1 18848 2ng1 293 4.50e+01 1ng1 1ffh 294 4.50e+01 1ng1 1ng1 294 4.51e+01 1ng1 1ls1A 295 4.52e+01 a.24.13.1,c.37.1.10 78170,78171 1jpnA 296 4.53e+01 a.24.13.1,c.37.1.10 67039,67040 1o87A 297 4.53e+01 a.24.13.1,c.37.1.10 92640,92641 1ceuA 51 4.54e+01 1ceuA j.11.1.1 46137 1rj9B 300 4.56e+01 a.24.13.1,c.37.1.10 97555,97556 1uujA 88 4.58e+01 a.221.1.1 108046 1dosA 358 4.62e+01 1dosA c.1.10.2 29175 1c1lA 136 4.71e+01 1c1lA b.29.1.3 24219 1gynA 358 4.88e+01 c.1.10.2 83385 2gyiA 386 5.04e+01 4xis c.1.15.3 29409 1o4uA 285 5.09e+01 c.1.17.1,d.41.2.1 86624,86625 2cgeA 405 5.45e+01 3proC 166 5.66e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1j6qA 136 5.68e+01 b.40.9.1 77091 1vorP 111 5.73e+01 i.1.1.1 113722 1nwyM 113 5.74e+01 i.1.1.2 86357 1nkwM 114 5.75e+01 i.1.1.2 80598 1ycjA 257 5.82e+01 c.94.1.1 122966 2f34A 258 5.84e+01 c.94.1.1 132852 1txfA 258 5.84e+01 c.94.1.1 119386 1u96A 69 5.93e+01 a.17.1.2 113232 1xylA 386 6.04e+01 4xis c.1.15.3 29413 1b7gO 340 6.06e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1u0sA 86 6.14e+01 d.58.24.1 107565 2carA 196 6.63e+01 c.51.4.1 130161 2gl5A 410 6.70e+01 c.1.11.2,d.54.1.1 135336,135337 1fpwA 190 6.75e+01 1rec a.39.1.5 17329 2cunA 410 6.78e+01 5xinA 393 6.86e+01 4xis c.1.15.3 29481 1esxA 96 7.19e+01 1esxA j.11.1.1 59501 2nr1 27 7.20e+01 2ctmA 95 7.40e+01 d.51.1.1 130799 2crhA 138 7.70e+01 3ximA 393 7.79e+01 4xis c.1.15.3 29477 1ximA 393 7.88e+01 4xis c.1.15.3 29473 1xinA 393 7.88e+01 4xis c.1.15.3 29513 2xinA 393 7.94e+01 4xis c.1.15.3 29493 2ximA 393 8.14e+01 4xis c.1.15.3 29497 1tyjA 170 8.18e+01 b.2.2.2 119390 1tcoA 375 8.26e+01 1auiA d.159.1.3 42084 1ztmA 490 8.26e+01 1pmr 80 8.41e+01 1ghj 1vkhA 273 8.41e+01 c.69.1.32 108662 1mf8A 373 8.53e+01 d.159.1.3 79040 1o5lA 213 8.86e+01 b.82.3.2 92506 2gnqA 336 8.93e+01