# List of top-scoring protein chains for t04-100-30-alpha 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 1lj5A 379 1.23e-01 e.1.1.1 73928 1a7cA 379 1.30e-01 1sek e.1.1.1 42660 1k6dA 220 1.30e-01 unknown_sccs 72082 1jsdA 319 2.46e-01 b.19.1.2 63258 2arcA 164 6.91e-01 2arcA b.82.4.1 28148 1mai 131 7.82e-01 1mai b.55.1.1 26951 1tqyA 424 8.51e-01 1fus 106 1.37e+00 9rnt d.1.1.4 36050 1fr2B 134 1.80e+00 d.4.1.1 83257 1g6gA 127 1.81e+00 1g6gA b.26.1.2 23916 3tgl 269 2.12e+00 3tgl c.69.1.17 34733 1emvB 134 2.15e+00 1bxiB d.4.1.1 37135 1ncwL 219 2.41e+00 b.1.1.1 85557 b.1.1.2 85558 1cr5A 189 2.50e+00 1cr5A b.52.2.3 26931 d.31.1.1 38465 2bpa1 426 2.53e+00 2bpa1 2bc2A 227 2.70e+00 1a7tA d.157.1.1 42031 1cl8A 276 2.88e+00 1ckqA c.52.1.1 33230 1mqoA 227 2.94e+00 1im5A 180 3.08e+00 unknown_sccs 66211 1usuA 260 3.22e+00 unknown_sccs -9045 1mjuL 219 3.26e+00 b.1.1.1 -2083 b.1.1.2 -2360 1qj2B 809 3.32e+00 1qj2B 1r1dA 247 3.91e+00 unknown_sccs -8335 1ermA 263 4.09e+00 1btl e.3.1.1 42690 1b5eA 246 4.10e+00 1b5eA d.117.1.1 41056 1fjsL 52 4.18e+00 1hcgB g.3.11.1 44226 1kyqA 274 5.17e+00 c.2.1.11 73281 e.37.1.1 73282 1btl 263 5.27e+00 1btl e.3.1.1 42691 1fjgL 135 5.45e+00 1fjfL b.40.4.5 25346 1vj2A 126 5.79e+00 unknown_sccs -4850 1n62B 809 5.93e+00 d.41.1.1 80092 d.133.1.1 80093 1gen 218 5.95e+00 1gen b.66.1.1 27536 1nj4A 363 6.28e+00 b.105.1.1 80545 e.3.1.1 80546 1isiA 265 6.59e+00 e.4.1.1 71394 1n3jA 119 6.88e+00 b.85.7.2 79963 1fiuA 286 7.08e+00 1fiuA c.52.1.10 33317 1jf8A 131 7.41e+00 c.44.1.1 66621 1o5uA 101 7.49e+00 b.82.1.8 -4845 1o0xA 262 7.70e+00 d.127.1.1 80755 1hg8A 349 8.18e+00 b.80.1.3 65830 1ofcX 304 8.89e+00 a.4.1.3 -195 unknown_sccs -199 unknown_sccs -978 1ri6A 343 8.98e+00 unknown_sccs -4621 1fl2A 310 9.44e+00 1hyuA c.3.1.5 59869 c.3.1.5 59870 1m40A 263 9.96e+00 e.3.1.1 74437 1d4tA 104 1.02e+01 1d4tA d.93.1.1 40537 1cd0A 111 1.04e+01 8fabA b.1.1.1 20559 2trxA 108 1.09e+01 1thx c.47.1.1 32719 1dekA 241 1.13e+01 1dekA c.37.1.1 31842 1smrA 335 1.15e+01 1smrA b.50.1.2 26878 1o6vA 466 1.19e+01 b.1.18.15 81099 c.10.2.1 81100 1s5lB 510 1.20e+01 1o4wA 147 1.22e+01 c.120.1.1 86629 1j71A 334 1.22e+01 1eagA b.50.1.2 62669 1nzoA 363 1.28e+01 b.105.1.1 -2933 e.3.1.1 -11784 1owcA 427 1.28e+01 1kg0C 136 1.36e+01 d.169.1.1 72445 1l7aA 318 1.37e+01 c.69.1.25 77772 1nx8A 273 1.38e+01 b.82.2.8 86374 1mpp 361 1.42e+01 2rmpA b.50.1.2 26856 1od5A 492 1.43e+01 b.82.1.2 86832 b.82.1.2 86833 1vjeA 166 1.53e+01 d.185.1.2 -10261 1ocxA 182 1.54e+01 b.81.1.3 86814 2hpaA 342 1.57e+01 1cviA c.60.1.2 33985 1efvB 255 1.61e+01 1efvB c.26.2.3 31634 4gcr 174 1.67e+01 1amm b.11.1.1 23589 b.11.1.1 23590 1ftrA 296 1.68e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1pbe 394 1.72e+01 1pbe c.3.1.2 30338 d.16.1.2 37869 1gnyA 153 1.74e+01 b.18.1.11 65404 1rzfL 213 1.78e+01 b.1.1.1 -2147 b.1.1.2 -2438 1i8kA 107 1.78e+01 b.1.1.1 71130 2ng1 293 1.79e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1alo 907 1.80e+01 1alo 1c4kA 730 1.88e+01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1k0iA 394 1.90e+01 c.3.1.2 67942 d.16.1.2 67943 2btfA 375 1.91e+01 1yagA c.55.1.1 33429 c.55.1.1 33430 1heiA 451 1.93e+01 1heiA c.37.1.14 32463 c.37.1.14 32464 1p8kZ 254 1.94e+01 d.95.2.1 -10648 d.95.2.1 -10649 1sgzA 389 2.01e+01 b.50.1.2 -4301 1lcl 142 2.03e+01 1lcl b.29.1.3 24216 1elkA 157 2.05e+01 1dvpA a.118.9.2 19217 1vf7A 369 2.06e+01 1ko7A 314 2.07e+01 c.98.2.1 72797 c.91.1.2 72798 1f3uB 171 2.09e+01 1f3uB b.65.1.1 27525 1q0rA 298 2.10e+01 unknown_sccs -8330 1lpbA 95 2.18e+01 1lpbA g.3.10.1 44189 g.3.10.1 44190 1k3pA 426 2.21e+01 a.103.1.1 77237 1ntyA 311 2.23e+01 1hilB 220 2.23e+01 1igtB b.1.1.1 19787 b.1.1.2 20897 1r94A 118 2.24e+01 b.124.1.1 -4402 1fknA 391 2.28e+01 1fknA b.50.1.2 26879 1ha3A 405 2.38e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1f2aA 215 2.42e+01 1cs8A d.3.1.1 37040 1iuaA 83 2.43e+01 g.35.1.1 71438 1innA 166 2.44e+01 1j98A d.185.1.2 62608 1mexL 213 2.46e+01 b.1.1.1 -2124 b.1.1.2 -2352 1gu9A 177 2.47e+01 a.152.1.1 65540 1d4xA 375 2.47e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1acc 735 2.53e+01 1acc f.11.1.1 43828 1nykA 165 2.55e+01 b.33.1.1 86408 1v4aA 440 2.56e+01 1hdkA 141 2.57e+01 b.29.1.3 65807 1vdkA 466 2.77e+01 a.127.1.1 -1752 1rdo1 113 2.77e+01 1rtm1 1fepA 724 2.77e+01 1fepA f.4.3.3 43808 1bg6 359 2.77e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1qfmA 710 2.77e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1ogdA 131 2.81e+01 unknown_sccs -8007 1h2wA 710 2.82e+01 b.69.7.1 76596 c.69.1.4 76597 1rurL 217 2.84e+01 b.1.1.1 -2094 b.1.1.2 -2389 1mdwA 328 2.85e+01 d.3.1.3 84934 1rl2A 137 2.86e+01 1rl2A b.34.5.3 24610 b.40.4.5 25342 1kliL 69 2.88e+01 g.3.11.1 77436 1lw1A 177 2.92e+01 a.152.1.1 74290 1dgaA 375 2.93e+01 1yagA 1avyA 74 2.93e+01 1avyB h.1.17.1 45656 1bowA 159 2.96e+01 1bowA d.60.1.1 39528 1r6wA 322 3.08e+01 c.1.11.2 -5563 d.54.1.1 -9821 1dfoA 417 3.13e+01 1bj4A c.67.1.4 34480 3aprE 325 3.22e+01 2er7E b.50.1.2 26820 1d2eA 397 3.25e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1me4A 215 3.27e+01 d.3.1.1 79023 1v9fA 325 3.28e+01 1h80A 464 3.38e+01 b.80.1.8 65714 1amm 174 3.40e+01 1amm b.11.1.1 23587 b.11.1.1 23588 2mcm 112 3.42e+01 2mcm b.1.7.1 22207 1chmA 401 3.50e+01 1chmA c.55.2.1 33545 d.127.1.1 41142 2apr 325 3.51e+01 2er7E b.50.1.2 26819 1qzgA 187 3.60e+01 b.40.4.3 -3920 1whi 122 3.63e+01 1whi b.39.1.1 24810 1nhcA 336 3.64e+01 b.80.1.3 -4768 1m1zA 513 3.65e+01 c.26.2.1 78457 d.153.1.1 78458 1exmA 405 3.72e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1t0bA 252 3.74e+01 1auvA 311 3.75e+01 1auvA c.30.1.5 31723 d.142.1.3 41558 1h03P 125 3.76e+01 g.18.1.1 83411 g.18.1.1 83412 1vlbA 907 3.78e+01 1hlrA 907 3.79e+01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1dy9A 187 3.88e+01 1jxpA b.47.1.3 26400 1g87A 614 3.93e+01 a.102.1.2 83275 b.2.2.2 83276 1rdj1 113 3.99e+01 1rtm1