# 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.soe.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 1pb6A 212 3.55e-30 a.4.1.9 88017 a.121.1.1 88018 2fbqA 235 2.02e-23 a.4.1.9 133256 a.121.1.1 133257 1vi0A 206 4.78e-23 a.4.1.9 100720 a.121.1.1 100721 2ibdA 204 1.67e-22 3bcgA 215 2.40e-22 2fx0A 201 2.86e-22 a.4.1.9 134269 a.121.1.1 134270 2qtqA 213 1.25e-21 2jj7A 186 3.47e-21 2hytA 197 4.16e-21 2id6A 202 1.12e-20 2iekA 200 1.12e-20 1z77A 200 1.12e-20 a.4.1.9 124588 a.121.1.1 124589 1zkgA 212 1.19e-20 a.4.1.9 125194 a.121.1.1 125195 2genA 197 1.90e-20 a.4.1.9 135062 a.121.1.1 135063 2iaiA 230 1.98e-20 2d6yA 202 2.03e-20 a.4.1.9 131313 a.121.1.1 131314 2uxuA 210 5.99e-20 3cdlA 203 6.15e-20 2f07A 197 1.67e-19 3bhqA 211 2.76e-19 2qibA 231 1.42e-18 2eh3A 179 1.44e-18 3c07A 273 1.53e-18 1ui5A 215 3.56e-18 a.4.1.9 107856 a.121.1.1 107857 3ccyA 203 9.94e-18 1rktA 205 1.05e-17 a.4.1.9 97623 a.121.1.1 97624 3bruA 222 1.25e-17 1t33A 224 1.60e-17 a.4.1.9 106295 a.121.1.1 106296 2gfnA 209 2.06e-17 a.4.1.9 135101 a.121.1.1 135102 2g3bA 208 2.11e-17 a.4.1.9 134558 a.121.1.1 134559 2g7sA 194 2.45e-17 a.4.1.9 134737 a.121.1.1 134738 2zcmA 192 4.80e-17 2pz9A 226 6.34e-17 2zcnA 192 6.83e-17 3crjA 199 7.86e-17 2np3A 212 9.24e-17 a.4.1.9 138420 a.121.1.1 138421 2nx4A 194 9.44e-17 2qwtA 196 1.16e-16 2pbxA 203 1.96e-16 1jt6A 188 4.58e-16 a.4.1.9 67247 a.121.1.1 67248 1rkwA 194 4.74e-16 a.4.1.9 104967 a.121.1.1 104968 1qvtA 194 5.29e-16 a.4.1.9 104602 a.121.1.1 104603 2q24A 194 8.36e-16 2qcoA 210 8.60e-16 2i10A 202 1.51e-15 a.4.1.9 136960 a.121.1.1 136961 1sgmA 191 1.62e-15 a.4.1.9 105537 a.121.1.1 105538 2guhA 214 3.20e-15 2fq4A 192 7.65e-15 a.4.1.9 133937 a.121.1.1 133938 2np5A 203 1.37e-14 a.4.1.9 138424 a.121.1.1 138425 2hyjA 200 2.22e-14 2rekA 199 2.32e-14 2rasA 212 4.76e-14 2raeA 207 5.60e-14 3bniA 229 1.30e-13 3cjdA 198 1.37e-13 3c2bA 221 1.43e-13 1t56A 216 1.82e-13 a.4.1.9 106428 a.121.1.1 106429 1u9nA 236 1.84e-13 a.4.1.9 113246 a.121.1.1 113247 3b81A 203 1.94e-13 2dg8A 193 2.11e-13 2of7A 260 4.57e-13 3colA 196 1.04e-12 2fd5A 180 1.54e-12 a.4.1.9 133291 a.121.1.1 133292 3bjbA 207 4.07e-12 2hkuA 215 4.13e-12 2oerA 214 1.70e-11 2dh0A 183 1.83e-11 2yveA 185 1.88e-11 1v7bA 185 1.91e-11 a.4.1.9 119861 a.121.1.1 119862 2yvhA 177 1.98e-11 2oi8A 216 2.37e-11 2hxiA 241 2.80e-11 2id3A 225 7.38e-11 a.4.1.9 137261 a.121.1.1 137262 3bqyA 209 1.10e-10 3cwrA 208 1.69e-10 2zb9A 214 1.88e-10 2qkoA 215 2.35e-10 2o7oA 207 2.74e-10 a.4.1.9 138930 a.121.1.1 138931 2tctA 207 2.82e-10 a.4.1.9 16063 a.121.1.1 19240 2trtA 217 2.98e-10 a.4.1.9 16064 a.121.1.1 19241 1qpiA 203 3.05e-10 2tct a.4.1.9 16072 a.121.1.1 19249 2dg7A 195 3.23e-10 2ns7A 208 4.33e-10 1z0xA 220 8.98e-10 a.4.1.9 124334 a.121.1.1 124335 2vprA 207 1.91e-09 1a6iA 217 2.10e-09 a.4.1.9 16066 a.121.1.1 19243 1zk8A 183 3.13e-09 a.4.1.9 125177 a.121.1.1 125178 2hxoA 237 1.31e-08 2o7tA 199 1.41e-08 2g7lA 243 1.64e-07 a.4.1.9 134734 a.121.1.1 134735 2optA 234 2.19e-06 2g7gA 213 1.49e-05 a.4.1.9 134732 a.121.1.1 134733 2iu5A 195 2.86e-05 1du6A 64 6.99e-01 1akhA a.4.1.1 16002 2o5hA 136 7.35e-01 1pufB 73 8.19e-01 a.4.1.1 95132 3ctpA 330 8.61e-01 1b72B 87 8.78e-01 1akhA a.4.1.1 16001 1kftA 78 1.06e+00 a.60.2.3 77375 2e85A 159 1.09e+00 2i8lA 156 1.11e+00 1b8iB 63 1.15e+00 1akhA a.4.1.1 16011 1lfuP 82 2.06e+00 a.4.1.1 77939 1qruA 553 2.09e+00 1gtrA b.53.1.2 26946 c.26.1.1 31585 1nylA 539 2.15e+00 b.53.1.2 80741 c.26.1.1 80742 1qtqA 553 2.23e+00 1gtrA b.53.1.2 26940 c.26.1.1 31579 1gtrA 553 2.23e+00 1gtrA b.53.1.2 26939 c.26.1.1 31578 1qrsA 553 2.24e+00 1gtrA b.53.1.2 26941 c.26.1.1 31580 1euyA 548 2.24e+00 1gtrA b.53.1.2 26945 c.26.1.1 31584 1o0cA 554 2.24e+00 b.53.1.2 86529 c.26.1.1 86530 2rd2A 556 2.26e+00 1qrtA 553 2.27e+00 1gtrA b.53.1.2 26943 c.26.1.1 31582 1pruA 56 2.80e+00 a.35.1.5 17104 2hgcA 102 4.42e+00 1deqA 390 5.10e+00 i.9.1.1 45987 2jt1A 77 5.65e+00 2yyvA 227 5.83e+00 3fruA 269 5.98e+00 1agdA b.1.1.2 20657 d.19.1.1 38150 1xi6A 262 6.23e+00 e.7.1.1 115347 2j48A 119 6.34e+00 1mhyD 521 7.23e+00 1mhyD a.25.1.2 16780 2pqqA 149 7.53e+00 2bjcA 62 7.90e+00 a.35.1.5 128620 2e60A 101 9.83e+00 2pg4A 95 9.86e+00 2bgsA 344 9.93e+00 1uxcA 65 1.05e+01 a.35.1.5 17119 2hydA 578 1.05e+01 c.37.1.12 136875 f.37.1.1 136876 1gwcA 230 1.19e+01 a.45.1.1 70660 c.47.1.5 70661 1s7oA 113 1.29e+01 a.4.13.3 105354 2fliA 220 1.31e+01 c.1.2.2 133714 1pbgA 468 1.36e+01 1e70M c.1.8.4 28946 1x0uA 522 1.37e+01 2pbgA 468 1.37e+01 c.1.8.4 28948 2ct8A 497 1.39e+01 2bujA 317 1.50e+01 1pveA 72 1.53e+01 a.189.1.1 104322 2douA 376 1.56e+01 1cz4A 185 1.69e+01 1cz4A b.52.2.3 26934 d.31.1.1 38468 3bj6A 152 1.72e+01 1r8dA 109 1.79e+01 a.6.1.3 104841 1kqfB 294 1.99e+01 d.58.1.5 75900 f.23.22.1 75901 3cinA 394 2.09e+01 1oj5A 132 2.13e+01 d.110.3.8 93087 1i0lA 221 2.22e+01 c.61.1.1 71096 1i0iA 221 2.25e+01 c.61.1.1 71094 1b0nA 111 2.28e+01 1b0nA a.34.1.1 17001 a.35.1.3 17064 3d53A 173 2.33e+01 2q4cA 317 2.42e+01 a.65.1.1 139843 1pdnC 128 2.45e+01 6paxA a.4.1.5 16047 1tc2A 221 2.46e+01 1tc1A c.61.1.1 34085 2g2bA 150 2.47e+01 1p18A 221 2.49e+01 c.61.1.1 104053 1tc1A 220 2.53e+01 1tc1A c.61.1.1 34083 1i13A 221 2.55e+01 c.61.1.1 71098 2i2xB 258 2.56e+01 1i14A 221 2.60e+01 c.61.1.1 71100 2qulA 290 2.62e+01 1lccA 51 2.78e+01 1pru a.35.1.5 17110 1o7dA 298 2.87e+01 c.6.2.1 86641 1n2sA 299 2.87e+01 c.2.1.2 79857 2h2wA 312 2.96e+01 1x5dA 133 3.02e+01 2h0qA 261 3.16e+01 1wn4A 28 3.27e+01 j.113.1.1 109426 1wgpA 137 3.30e+01 b.82.3.2 114619 2ikqA 270 3.30e+01 1ei1A 391 3.33e+01 1aj6 d.14.1.3 37570 d.122.1.2 41104 1tljA 213 3.33e+01 d.282.1.1 107126 2bdvA 231 3.39e+01 d.303.1.1 128345 1vc4A 254 3.39e+01 c.1.2.4 100557 1v5vA 401 3.40e+01 b.44.2.1 113539 d.250.1.1 113540 1vr3A 191 3.40e+01 b.82.1.6 120431 1hu3A 260 3.44e+01 1hu3A a.118.1.14 19137 1lqcA 56 3.46e+01 a.35.1.5 17109 2infA 359 3.62e+01 2a6zA 222 3.63e+01 b.29.1.13 126319 1rtwA 220 3.64e+01 a.132.1.3 97823 1gs5A 258 3.71e+01 c.73.1.2 70395 1gsjA 258 3.71e+01 c.73.1.2 70397 2rccA 346 3.88e+01 2i5wA 315 3.98e+01 a.96.1.3 137069 d.129.1.2 137070