# List of top-scoring protein chains for T0319.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 1gtvA 214 5.25e-01 c.37.1.1 70537 1v87A 114 1.07e+00 g.44.1.1 108422 2ba1A 179 1.43e+00 1h7vA 60 2.15e+00 g.41.5.1 65713 1dx8A 70 2.37e+00 1rb9 g.41.5.1 45243 1dl6A 58 2.80e+00 1dl6A g.41.3.1 45207 1rlyA 60 2.85e+00 g.41.3.1 104988 1af8 86 4.60e+00 2af8 a.28.1.1 16932 1py4A 100 5.01e+00 b.1.1.2 95323 1x4vA 63 5.44e+00 1aiqA 264 7.40e+00 1bkpA d.117.1.1 40967 1hlaM 97 8.33e+00 1agdB b.1.1.2 20669 1x7qB 99 8.58e+00 1k5nB 100 8.66e+00 b.1.1.2 77268 3fruB 99 8.73e+00 1agdB b.1.1.2 20658 1ao7B 100 8.79e+00 1agdB b.1.1.2 20697 1kjvB 100 8.83e+00 b.1.1.2 77423 1ypzB 102 8.88e+00 1knvA 293 9.20e+00 c.52.1.7 68707 1ce6B 108 9.66e+00 1agdB b.1.1.2 20820 2f53B 100 9.77e+00 1qqdB 99 1.02e+01 1agdB b.1.1.2 20770 1ev8A 264 1.08e+01 1bkpA d.117.1.1 40989 2ftnA 264 1.16e+01 1jssA 224 1.21e+01 d.129.3.2 71844 1orjA 130 1.24e+01 a.24.19.1 93456 1oryA 130 1.27e+01 a.24.19.1 93466 1ev5A 264 1.30e+01 1bkpA d.117.1.1 40935 1kzfA 230 1.35e+01 d.108.1.3 73354 1qzzA 374 1.44e+01 a.4.5.29,c.66.1.12 96719,96720 1kzjA 264 1.45e+01 d.117.1.1 73365 1jg0A 264 1.46e+01 d.117.1.1 66659 1bq2 264 1.48e+01 1bkpA d.117.1.1 40971 1uijA 416 1.48e+01 b.82.1.2,b.82.1.2 107866,107867 1ipkA 416 1.48e+01 b.82.1.2,b.82.1.2 71264,71265 1ipjA 416 1.50e+01 b.82.1.2,b.82.1.2 71258,71259 1u5kA 244 1.52e+01 1evfA 264 1.52e+01 1bkpA d.117.1.1 40932 2ahyA 110 1.56e+01 1vhnA 318 1.59e+01 c.1.4.1 100693 1zprA 264 1.66e+01 1bkpA d.117.1.1 40978 1qqqA 264 1.66e+01 1bkpA d.117.1.1 40931 1jqlB 140 1.72e+01 c.37.1.20 63234 2g8mA 264 1.72e+01 2g8oA 264 1.72e+01 1axwA 265 1.73e+01 1bkpA d.117.1.1 40938 1jjrA 151 1.73e+01 a.140.2.1 66772 1dnaA 264 1.73e+01 1bkpA d.117.1.1 40956 2f8oA 100 1.78e+01 1pft 50 2.11e+01 1pft g.41.3.1 45206 1vg7A 299 2.14e+01 a.128.1.1 108605 1wl1A 299 2.15e+01 1wl2A 299 2.23e+01 1vg6A 299 2.25e+01 a.128.1.1 108604 1tys 265 2.26e+01 1bkpA d.117.1.1 40937 1wkzA 299 2.28e+01 1v4iA 299 2.30e+01 a.128.1.1 100299 1vg4A 299 2.30e+01 a.128.1.1 108602 1wl0A 299 2.31e+01 1v4eA 299 2.31e+01 a.128.1.1 100296 2azlA 299 2.34e+01 1v4hA 299 2.34e+01 a.128.1.1 100298 1vg2A 299 2.34e+01 a.128.1.1 108600 1v4jA 299 2.35e+01 a.128.1.1 100300 1j7xA 302 2.35e+01 c.14.1.2 66425 1j3kC 328 2.35e+01 d.117.1.1 84072 1nceA 264 2.40e+01 d.117.1.1 80401 1v4kA 299 2.40e+01 a.128.1.1 100302 1vg3A 299 2.42e+01 a.128.1.1 108601 1bx2B 191 2.48e+01 1iakB b.1.1.2,d.19.1.1 21610,38184 1ymmB 198 2.50e+01 1bor 56 2.54e+01 1bor g.44.1.1 45324 1wl3A 299 2.56e+01 2tsrA 307 2.58e+01 1bkpA d.117.1.1 41043 2fe7A 166 2.64e+01 1kg0B 188 2.64e+01 b.1.1.2,d.19.1.1 72443,72444 1aqdB 198 2.66e+01 1iakB b.1.1.2,d.19.1.1 21586,38160 1kluB 190 2.67e+01 b.1.1.2,d.19.1.1 72726,72727 1d5mB 192 2.68e+01 1iakB b.1.1.2,d.19.1.1 21618,38192 1d5zB 192 2.68e+01 1iakB b.1.1.2,d.19.1.1 21620,38194 2tscA 264 2.68e+01 1bkpA d.117.1.1 40952 1fytB 192 2.68e+01 1iakB b.1.1.2,d.19.1.1 21596,38170 2fug9 182 2.72e+01 1ddhB 99 2.74e+01 1agdB b.1.1.2 20846 2fikB 99 2.74e+01 1lk2B 99 2.76e+01 b.1.1.2 91058 1qo3B 100 2.81e+01 1agdB b.1.1.2 20842 1rjyB 100 2.82e+01 1a6aB 187 2.99e+01 1iakB b.1.1.2,d.19.1.1 21616,38190 1ycnA 317 3.15e+01 2a8yA 270 3.22e+01 1weoA 93 3.29e+01 1biiB 119 3.30e+01 1agdB b.1.1.2 20844 1zglB 192 3.32e+01 1fv1B 190 3.33e+01 1iakB b.1.1.2,d.19.1.1 21606,38180 1meyC 87 3.37e+01 2gliA k.12.1.1 46430 1wekA 217 3.50e+01 1ldkD 133 3.53e+01 a.157.1.1,d.42.1.1 73855,73856 1bez 310 3.61e+01 1b6g c.69.1.8 34666 1hdeA 310 3.62e+01 1b6g c.69.1.8 34675 1uvqB 198 3.64e+01 b.1.1.2,d.19.1.1 100064,100065 1ede 310 3.64e+01 1b6g c.69.1.8 34662 1b6g 310 3.65e+01 1b6g c.69.1.8 34661 1fs1B 141 3.66e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 2ddhA 661 3.75e+01 1ou0A 207 3.77e+01 c.23.17.1 93536 1fwmA 264 3.90e+01 d.117.1.1 90500 1e1cA 727 3.91e+01 1reqA c.1.19.1,c.23.6.1 29636,31263 1reqA 727 3.91e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1y0gA 191 4.07e+01 1t5jA 313 4.23e+01 a.209.1.1 99125 1bob 320 4.25e+01 1bob d.108.1.1 40816 5reqA 727 4.29e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 1zghA 260 4.32e+01 1z1zA 131 4.42e+01 2f2uA 402 4.43e+01 1yk4A 52 4.44e+01 1li5A 461 4.68e+01 a.27.1.1,c.26.1.1 73912,73913 1f62A 51 4.74e+01 1f62A g.50.1.2 45360 2etlA 228 4.77e+01 1xq5B 146 4.88e+01 1z6nA 167 4.96e+01 1m39A 89 5.14e+01 a.39.1.5 84782 1f7uA 607 5.15e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1jr3D 343 5.18e+01 a.80.1.1,c.37.1.20 63251,63252 1jk8B 190 5.22e+01 1iakB b.1.1.2,d.19.1.1 63147,63148 1mm3A 61 5.39e+01 g.50.1.2 85016 2a4jA 79 5.44e+01 3pvaA 335 5.77e+01 3pvaA d.153.1.3 41854 1elkA 157 5.78e+01 1dvpA a.118.9.2 19217 2pvaA 345 5.78e+01 3pvaA d.153.1.3 41850 1utyA 187 5.91e+01 b.147.1.1 108036 1p7aA 37 5.92e+01 g.37.1.1 94216 1wzvA 155 5.96e+01 1f4dA 264 6.02e+01 1bkpA d.117.1.1 40972 2cf2B 304 6.17e+01 1nm2A 317 6.23e+01 c.19.1.1,d.58.23.1 80654,80655 2cdh4 305 6.26e+01 2bhmA 164 6.50e+01 1ndaA 491 6.51e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30525,30526,40194 1s9vB 198 6.59e+01 b.1.1.2,d.19.1.1 98762,98763 1aogA 485 6.69e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1bzlA 486 6.71e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30521,30522,40192 1o4zA 346 6.72e+01 b.29.1.2 92474 1gxfA 492 6.78e+01 c.3.1.5,c.3.1.5,d.87.1.1 90527,90528,90529 1smmA 54 6.86e+01 g.41.5.1 98923 1ayfA 105 6.96e+01 1ayfA d.15.4.1 37684 1t9pA 54 7.02e+01 1c09A 54 7.25e+01 1rb9 g.41.5.1 45228 1b2jA 54 7.28e+01 1rb9 g.41.5.1 45231 1t9oA 54 7.32e+01 1xjcA 169 7.38e+01 1cjeA 127 7.44e+01 1ayfA d.15.4.1 37686 1l6uA 128 7.45e+01 d.15.4.1 73630 1e6eB 128 7.46e+01 1ayfA d.15.4.1 59300 1bgxT 832 7.49e+01 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18083,33353,33699,42992 1vr5A 547 7.50e+01 1dutA 133 7.52e+01 1dun b.85.4.1 28355 1iro 54 7.53e+01 1rb9 g.41.5.1 45223 1taq 832 7.54e+01 1taq a.60.7.1,c.120.1.2,c.55.3.5,e.8.1.1 18082,33352,33698,42991 1h2bA 359 7.63e+01 b.35.1.2,c.2.1.1 90543,90544 1jcoB 30 7.84e+01 g.1.1.1 66503 1f7dA 136 7.85e+01 1dun b.85.4.1 28353 1ru3A 732 7.85e+01 e.26.1.3 97835 1ewxA 146 8.02e+01 1ewxA c.47.1.10 33062 1qk8A 146 8.03e+01 1ewxA c.47.1.10 33061 1k44A 136 8.20e+01 d.58.6.1 72033 1z5mA 286 8.27e+01 2astA 159 8.31e+01 1h1wA 289 8.35e+01 d.144.1.7 83460 1t9qA 54 8.36e+01 2fwuA 157 8.39e+01 1uu9A 286 8.42e+01 d.144.1.7 100002 1be7 54 8.42e+01 1rb9 g.41.5.1 45232 1b4bA 71 8.49e+01 1b4aA d.74.2.1 39718 1ezkA 153 8.64e+01 1ewxA c.47.1.10 33063 1okdA 154 8.71e+01 c.47.1.10 93249 1x5tA 96 8.72e+01 2biyA 310 8.78e+01 1uu3A 310 8.78e+01 d.144.1.7 99999 1oc9A 152 8.82e+01 c.47.1.10 86797 1rw1A 114 8.84e+01 1rljA 139 8.92e+01 c.23.5.7 104983