# 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 1jyrA 96 1.71e-01 1qg1E 104 1.88e-01 1griA d.93.1.1 40489 1ghu 107 1.93e-01 1griA d.93.1.1 40475 1fhs 112 1.97e-01 1griA d.93.1.1 40488 1fyrB 114 2.00e-01 1griA d.93.1.1 40470 1bm2A 117 2.02e-01 1griA d.93.1.1 40467 1bmbA 123 2.06e-01 1griA d.93.1.1 40466 1zfpE 98 2.07e-01 1griA d.93.1.1 40465 1cj1A 96 2.18e-01 1griA d.93.1.1 40476 1tzeE 98 2.22e-01 1griA d.93.1.1 40468 1outA 143 8.35e-01 1abwA a.1.1.2 15400 1griA 217 1.00e+00 1griA b.34.2.1 24531 b.34.2.1 24532 d.93.1.1 40473 4cms 323 1.39e+00 1smrA b.50.1.2 26866 3cms 323 1.46e+00 1smrA b.50.1.2 26865 1ql0A 241 1.72e+00 1qaeA d.4.1.2 37139 1g8tA 245 2.14e+00 1qaeA d.4.1.2 37137 1smnA 245 2.14e+00 1qaeA d.4.1.2 37143 1qaeA 245 2.14e+00 1qaeA d.4.1.2 37141 1poiA 317 2.30e+00 1poiA c.63.1.1 34153 1k7sN 265 2.43e+00 1eszA 266 2.43e+00 1efdN 266 2.43e+00 1efdN c.92.2.1 35597 1a87 321 3.38e+00 1a87 f.1.1.1 43380 1am1 213 3.46e+00 1yer d.122.1.1 41095 1amw 214 3.46e+00 1yer d.122.1.1 41093 1ah6 220 3.54e+00 1yer d.122.1.1 41094 1bgq 225 3.66e+00 1yer d.122.1.1 41098 1a4h 230 3.68e+00 1yer d.122.1.1 41099 1by2 119 4.28e+00 1by2 d.170.1.1 42452 1iisC 176 4.43e+00 2fcbA b.1.1.4 62458 b.1.1.4 62459 1fnlA 175 4.49e+00 2fcbA b.1.1.4 21783 b.1.1.4 21784 1e4kC 176 4.49e+00 2fcbA b.1.1.4 21787 b.1.1.4 21788 1kr7A 110 5.14e+00 1rdr 461 8.07e+00 1rdr e.8.1.4 43116 2hfh 109 8.40e+00 2hfh a.4.5.14 16145 1f75A 249 9.88e+00 1f75A c.101.1.1 59662 1b06A 210 1.02e+01 1avmA a.2.11.1 15740 d.44.1.1 38737 1hbhA 143 1.10e+01 1abwA a.1.1.2 15404 1fe5A 118 1.19e+01 1poa a.133.1.2 19563 1b4tA 153 1.33e+01 1mfmA b.1.8.1 22283 1colA 204 1.56e+01 1a87 f.1.1.1 43378 1fs7A 485 1.57e+01 1qdbA a.138.1.3 19691 1fs9A 507 1.61e+01 1qdbA a.138.1.3 19693 1wtuA 99 1.66e+01 1huuA a.55.1.1 17904 1iknD 236 1.67e+01 1iknD a.118.2.1 19171 1nfiE 213 1.68e+01 1iknD a.118.2.1 19172 1qh2B 28 1.69e+01 g.15.1.2 44729 1exeA 99 1.69e+01 1huuA a.55.1.1 17906 1rl2A 137 1.76e+01 1rl2A b.34.5.3 24610 b.40.4.5 25342 1jcv 153 1.81e+01 1mfmA b.1.8.1 22279 1ha9A 34 1.84e+01 1ha9A g.3.2.1 60876 487dI 135 1.99e+01 1rl2A i.1.1.2 45836 1jk9A 153 1.99e+01 b.1.8.1 63149 1dpyA 118 2.00e+01 1poa a.133.1.2 19562 2hdcA 97 2.07e+01 2hfh a.4.5.14 16146 1vig 71 2.37e+01 1vih d.51.1.1 38806 1vih 71 2.37e+01 1vih d.51.1.1 38807 1rhd 293 2.37e+01 1rhs c.46.1.2 32715 c.46.1.2 32716 1pta 318 2.38e+01 1pscA c.1.9.3 29064 1dp2A 293 2.46e+01 1rhs c.46.1.2 32705 c.46.1.2 32706 1fotA 318 2.50e+01 1cdkA d.144.1.1 59938 1hyqA 263 2.74e+01 1hyqA c.37.1.10 61412 1orb 296 2.79e+01 1rhs c.46.1.2 32711 c.46.1.2 32712 2ora 296 2.81e+01 1rhs c.46.1.2 32707 c.46.1.2 32708 1rhs 296 2.81e+01 1rhs c.46.1.2 32703 c.46.1.2 32704 1emzA 21 2.83e+01 j.35.1.1 46282 1qamA 244 2.91e+01 2ercA c.66.1.9 34220 2ercA 244 2.91e+01 2ercA c.66.1.9 34224 1azwA 313 2.92e+01 1qtrA c.69.1.7 34658 1ae7 119 3.01e+01 1poa a.133.1.2 19553 1dq7A 64 3.09e+01 1aho g.3.7.1 44137 1sssA 205 3.10e+01 1avmA a.2.11.1 15738 d.44.1.1 38735 1a75A 108 3.19e+01 1a75A a.39.1.4 17216 1a75B 109 3.22e+01 1a75A a.39.1.4 17217 1gpc 218 3.28e+01 1gpc b.40.4.7 25393 1r1a2 263 3.29e+01 1aym2 1gv9A 260 3.39e+01 1poiB 260 3.44e+01 1poiB c.63.1.1 34155 2vitC 282 3.55e+01 1hgeA b.19.1.2 23808 1ayaA 101 3.56e+01 1qadA d.93.1.1 40460 1b0aA 288 3.57e+01 1a4iA c.2.1.7 30286 c.58.1.2 33934 1j6yA 139 3.62e+01 2hrvA 142 3.63e+01 2hrvA b.47.1.4 26429 2notA 119 3.77e+01 1poa a.133.1.2 19554 1fas 61 3.90e+01 3ebx g.7.1.1 44403 1c07A 95 3.99e+01 1eh2 a.39.1.6 17337