# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1a6q 382 3.43e-01 1a6q d.158.1.1 42063 1yacA 208 4.62e-01 1yacA c.33.1.2 31757 1ehyA 294 4.68e-01 1ehyA c.69.1.11 34693 1g4yR 148 5.14e-01 1cll a.39.1.5 60252 1sfe 180 6.34e-01 1sfe a.4.2.1 16073 c.55.7.1 33748 1e4cP 215 6.58e-01 2fua c.74.1.1 34969 2fua 215 6.64e-01 2fua c.74.1.1 34977 1fua 215 6.74e-01 2fua c.74.1.1 34973 1uok 558 7.11e-01 1uok b.71.1.1 27801 c.1.8.1 28788 1ezwA 349 1.21e+00 1ezwA c.1.16.3 29558 1bmqB 88 1.21e+00 1pauB 1exrA 148 1.30e+00 1cll a.39.1.5 17299 1f37A 110 1.36e+00 1f37A c.47.1.11 33088 3cln 148 1.40e+00 1cll a.39.1.5 17286 1osa 148 1.44e+00 1cll a.39.1.5 17300 1bno 87 1.50e+00 1bpyA a.60.6.1 18079 1cpt 412 1.56e+00 1cpt a.104.1.1 18968 1ibcB 88 1.58e+00 1pauB 1cus 200 1.82e+00 1cex c.23.9.1 31287 1cex 214 2.12e+00 1cex c.23.9.1 31285 1qhoA 686 2.45e+00 1cxlA b.1.1.5 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1gkkA 297 2.68e+00 c.69.1.2 65248 1gklA 297 2.74e+00 c.69.1.2 65250 1cll 148 2.83e+00 1cll a.39.1.5 17263 1eziA 228 2.90e+00 1eyrA c.68.1.3 34512 1hw1A 239 2.95e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1hruA 188 3.09e+00 1hruA d.115.1.1 40926 1e2xA 243 3.26e+00 1e2xA a.4.5.6 16113 a.78.1.1 18443 1ldjA 760 3.47e+00 1eyrA 228 3.56e+00 1eyrA c.68.1.3 34514 1e6pA 499 4.08e+00 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1trb 320 4.23e+00 1trb c.3.1.5 30529 c.3.1.5 30530 1tns 76 4.28e+00 1qpmA a.4.5.26 16228 1fmtB 314 5.24e+00 1fmtA b.46.1.1 25759 c.65.1.1 34175 1fjgC 239 5.52e+00 1fjfC d.52.3.1 38831 d.53.1.1 38839 1e9mA 106 5.59e+00 1ayfA d.15.4.1 59397 1fjgI 128 5.89e+00 1fjfI d.14.1.1 37559 1nbaA 264 5.98e+00 1nbaA c.33.1.1 31753 1fmtA 314 6.20e+00 1fmtA b.46.1.1 25758 c.65.1.1 34174 1ggzA 148 6.55e+00 1g25A 65 6.81e+00 1g25A g.44.1.1 45325 1hqsA 423 7.02e+00 1iso c.77.1.1 61154 1floA 422 7.43e+00 1floA a.60.9.1 18106 d.163.1.1 42166 1dtdB 61 7.80e+00 1dtvA g.30.1.1 44962 1g5aA 628 7.86e+00 b.71.1.1 65152 c.1.8.1 65153 1g61A 228 8.13e+00 1g61A d.126.1.1 41126 1qjgA 125 8.36e+00 1opy d.17.4.3 38102 1j5eC 239 8.44e+00 1goiA 499 8.70e+00 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1mai 131 9.25e+00 1mai b.55.1.1 26951 1e15A 499 9.33e+00 1e15A b.72.2.1 27810 c.1.8.5 29006 d.26.3.1 38440 8cho 125 9.46e+00 1opy d.17.4.3 38108 1cydA 244 1.01e+01 1cydA c.2.1.2 29825 1c4xA 285 1.06e+01 1c4xA c.69.1.10 34684 2prgC 88 1.07e+01 2prgC a.137.6.1 19644 2act 220 1.07e+01 1cs8A d.3.1.1 37002 1h8cA 82 1.08e+01 1h8cA d.15.1.2 37608 1swuA 127 1.10e+01 1swuA b.61.1.1 27230 1jd1A 129 1.10e+01 1qu9A d.79.1.1 62890 1faoA 126 1.10e+01 1faoA b.55.1.1 26974 1dr8B 344 1.25e+01 1cnzA c.77.1.1 35052 1dtvA 67 1.28e+01 1dtvA g.30.1.1 44963 1qbjA 81 1.30e+01 1qbjA a.4.5.19 16155 1idm 343 1.32e+01 1cnzA c.77.1.1 35035 1brmA 367 1.38e+01 1brmA c.2.1.3 30030 d.81.1.1 39945 1f28A 297 1.39e+01 1bkpA d.117.1.1 59608 1bob 320 1.49e+01 1bob d.108.1.1 40816 1iqvA 218 1.52e+01 1rss a.75.1.1 62661 1ipd 345 1.56e+01 1cnzA c.77.1.1 35038 1awcB 153 1.65e+01 1bd8 a.118.2.1 19156 1wdcC 156 1.68e+01 1wdcC a.39.1.5 17317 1jc4A 148 1.81e+01 1jc4A d.32.1.4 62863 1vasA 137 1.87e+01 2end a.18.1.1 16404 1lxa 262 1.95e+01 1lxa b.81.1.1 28052 1fehA 574 1.95e+01 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1bak 119 1.96e+01 1bak b.55.1.1 26973 1qghA 156 1.97e+01 1qghA a.25.1.1 16728 1sriA 121 1.99e+01 1swuA b.61.1.1 27276 1ggwA 140 1.99e+01 1ggwA a.39.1.5 60490 2end 138 2.02e+01 2end a.18.1.1 16400 2izgB 123 2.08e+01 1swuA b.61.1.1 27236 1qmgA 524 2.08e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1yveI 524 2.09e+01 1qmgA a.100.1.2 18789 c.2.1.6 30186 1i60A 278 2.09e+01 2izhB 123 2.10e+01 1swuA b.61.1.1 27234 1korA 400 2.11e+01 1i7qA 519 2.15e+01 1qdlA d.161.1.1 61901 1jj2H 167 2.20e+01 1ffkF d.41.4.1 63093 1e9lA 377 2.24e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 1eudA 311 2.31e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1spbP 78 2.32e+01 1scjB d.58.3.2 39068 1yveJ 524 2.35e+01 1qmgA a.100.1.2 18790 c.2.1.6 30187 1qpaA 345 2.41e+01 1arv a.93.1.1 18585 1qaeA 245 2.42e+01 1qaeA d.4.1.2 37141 1tfr 305 2.45e+01 1tfr a.60.7.1 18081 c.53.1.2 33351 1sek 378 2.47e+01 1sek e.1.1.1 42675 1ck9A 104 2.48e+01 1ck9A d.79.3.1 39806 1eny 268 2.48e+01 1eny c.2.1.2 29910 1aa7A 158 2.50e+01 1aa7A a.95.1.1 18741 1nal1 297 2.51e+01 1nal3 1kkcA 221 2.51e+01 a.2.11.1 68660 d.44.1.1 68661 1itxA 419 2.52e+01 1fdyA 297 2.53e+01 1nal3 c.1.10.1 29071 1clxA 347 2.69e+01 1taxA c.1.8.3 28899 1hdhA 536 2.73e+01 c.76.1.2 65805 1nedA 183 2.77e+01 1nedA d.153.1.4 41974 1scjB 71 2.79e+01 1scjB d.58.3.2 39069 1dr9A 201 2.81e+01 1dr9A b.1.1.1 19762 b.1.1.3 21684 1yna 194 2.96e+01 1axkA b.29.1.11 24335 1cyi 90 2.97e+01 1ctj a.3.1.1 15804 1cyj 90 2.97e+01 1ctj a.3.1.1 15805 1ao0A 459 3.00e+01 1ecfB c.61.1.1 34049 d.153.1.1 41816 1jrjA 39 3.01e+01 j.6.1.1 67135 1pmaA 233 3.03e+01 1pmaA d.153.1.4 41918 1g1eB 89 3.06e+01 1g1eB a.59.1.1 17931 1reqD 637 3.06e+01 1reqB c.1.19.1 29623 c.23.6.1 31250 1nal3 297 3.08e+01 1nal3 1sbp 310 3.10e+01 1sbp c.94.1.1 35760 1dqsA 393 3.14e+01 1dqsA e.22.1.1 43347 1c1yB 77 3.18e+01 1c1yB d.15.1.5 37618 1krhA 338 3.18e+01 1qj8A 148 3.20e+01 1qj8A f.4.1.1 43744 1fgxA 288 3.21e+01 1fgxA c.68.1.2 34508 1jq3A 296 3.23e+01 c.66.1.17 67079 1jjfA 268 3.32e+01 c.69.1.2 66765 1inlA 296 3.33e+01 c.66.1.17 66220 1ej0A 180 3.37e+01 1ej0A c.66.1.2 34179 1dhs 344 3.43e+01 1dhs c.31.1.1 31727 1i1qA 520 3.47e+01 1qdlA d.161.1.1 61543 155c 135 3.47e+01 1ycc a.3.1.1 15900 1pvxA 194 3.49e+01 1axkA b.29.1.11 24341 1i1gA 141 3.54e+01 a.4.5.32 65982 d.58.37.1 65983 3tmkA 216 3.58e+01 3tmkA c.37.1.1 31920 1f1oA 431 3.58e+01 1f1oA a.127.1.1 19433 1dgrW 93 3.61e+01 1caxB 1dgrM 93 3.62e+01 1caxB b.82.1.2 28101 1qgpA 77 3.75e+01 1qbjA a.4.5.19 16158 1knt 58 3.81e+01 1bpi g.8.1.1 44538 1k1aA 241 3.86e+01 a.118.2.1 67992 1d1gA 168 3.87e+01 1d1gA c.71.1.1 34889 1h6oA 204 3.90e+01 a.146.1.1 60689