# List of top-scoring protein chains for 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 1gdoB 240 2.16e-01 1gdoA d.153.1.1 41805 1gdoA 240 2.16e-01 1gdoA d.153.1.1 41804 1i1gA 141 6.63e-01 a.4.5.32 65982 d.58.37.1 65983 1iuaA 83 9.25e-01 1jxaA 608 1.79e+00 c.80.1.1 67407 d.153.1.1 67408 3ezmA 101 2.49e+00 3ezmA b.89.1.1 28395 1lomA 101 3.88e+00 1duxC 94 4.08e+00 1awcA a.4.5.21 16170 1f6gA 160 4.20e+00 1bl8A f.2.1.11 43656 1hm6A 346 4.47e+00 1avc a.65.1.1 18147 1b2wH 220 4.97e+00 1igtB b.1.1.1 20307 b.1.1.2 21299 1bl8A 97 5.03e+00 1bl8A f.2.1.11 43652 1k47A 337 5.87e+00 1k4cC 124 6.07e+00 f.2.1.11 68130 1j95A 125 6.11e+00 1bl8A f.2.1.11 62749 1jvmB 125 6.11e+00 f.2.1.11 67352 1ain 314 6.51e+00 1avc a.65.1.1 18145 1ngr 85 6.94e+00 1ngr a.77.1.1 18422 1im3D 95 8.10e+00 1im3D b.1.1.6 62568 1fxd 58 8.13e+00 1fxd d.58.1.1 38941 1b4jH 220 8.28e+00 1igtB b.1.1.1 20309 b.1.1.2 21301 1j7dB 152 8.53e+00 1u9aA d.20.1.1 62681 1pdnC 128 1.06e+01 6paxA a.4.1.5 16047 1ionA 243 1.30e+01 c.37.1.10 62633 1jvxA 372 1.33e+01 c.94.1.1 63307 1rhoA 145 1.49e+01 1rhoA b.1.1.5 21899 1rhoC 145 1.49e+01 1rhoA b.1.1.5 21901 1fdqA 131 1.53e+01 1hmt b.60.1.2 59776 1jvyA 372 1.71e+01 c.94.1.1 63308 1jb9A 316 1.77e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1ecrA 309 1.78e+01 1ecrA e.2.1.1 42678 1ir1S 123 1.93e+01 1h2rS 267 2.06e+01 2frvA e.19.1.1 43310 1js2A 89 2.09e+01 g.35.1.1 67211 1fsoA 139 2.20e+01 1rhoA b.1.1.5 60007 1wdcB 156 2.25e+01 1wdcB a.39.1.5 17302 1dg4A 115 2.30e+01 1dkzA e.20.1.1 43318 1qr7A 350 2.40e+01 1qr7A c.1.10.4 29191 1gg1A 350 2.40e+01 1qr7A c.1.10.4 29187 8rucI 123 2.43e+01 1rboC d.73.1.1 39629 1rboC 123 2.43e+01 1rboC d.73.1.1 39634 1mdq 371 2.45e+01 4mbp c.94.1.1 35783 1ft3B 139 2.48e+01 1rhoA b.1.1.5 60021 1knb 196 2.59e+01 1qhvA b.21.1.1 23841 1ajw 145 2.67e+01 1rhoA b.1.1.5 21905 1jplA 171 2.71e+01 a.118.9.2 67027 1cg2A 393 2.75e+01 1cg2A c.56.5.4 33844 d.58.19.1 39360 1korA 400 2.78e+01 1k5cA 335 2.82e+01 1ft0B 139 2.94e+01 1rhoA b.1.1.5 60019 1noe 86 2.95e+01 g.35.1.1 44987 1b3qA 379 3.07e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 3hipC 82 3.12e+01 g.35.1.1 44990 1if1A 113 3.15e+01 2irfG a.4.5.23 16183 1upfA 224 3.19e+01 1bd3A c.61.1.1 34102 1iufA 144 3.27e+01 1ghqB 134 3.32e+01 1ghqB g.18.1.1 60522 g.18.1.1 60523 1bd3A 243 3.33e+01 1bd3A c.61.1.1 34098 1lssA 140 3.41e+01 1doqA 69 3.47e+01 1coo a.60.3.1 17968 1ckuA 85 3.55e+01 1ckuA g.35.1.1 44981 1hrq 85 3.55e+01 g.35.1.1 44984 1iam 185 3.69e+01 1zxq b.1.1.3 21653 b.1.1.4 21689 1csh 435 3.71e+01 1csh a.103.1.1 18880 1rypB 250 3.73e+01 1rypB d.153.1.4 41933 6cscA 437 3.75e+01 1csh a.103.1.1 18892 1bxbA 387 3.79e+01 4xis c.1.15.3 29543 1aim 215 3.85e+01 1cs8A d.3.1.1 37044 1hms 132 3.85e+01 1hmt b.60.1.2 27168 1hmt 132 3.85e+01 1hmt b.60.1.2 27169 1f2aA 215 3.89e+01 1cs8A d.3.1.1 37040 1f6vA 91 3.97e+01 1f6vA a.49.1.1 17791