# List of top-scoring protein chains for T0454.t04-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 1vi0A 206 2.10e-23 a.4.1.9,a.121.1.1 100720,100721 1pb6A 212 1.07e-22 a.4.1.9,a.121.1.1 88017,88018 2ibdA 204 2.62e-21 3cdlA 203 5.40e-21 3bcgA 215 7.27e-21 3bhqA 211 6.26e-20 3bruA 222 4.73e-19 2uxuA 210 8.33e-19 3ccyA 203 2.49e-18 2genA 197 2.88e-18 a.4.1.9,a.121.1.1 135062,135063 2iaiA 230 3.70e-18 2f07A 197 4.11e-18 2hytA 197 1.16e-17 2id6A 202 2.40e-17 1zkgA 212 2.41e-17 a.4.1.9,a.121.1.1 125194,125195 2iekA 200 2.43e-17 2fx0A 201 2.49e-17 a.4.1.9,a.121.1.1 134269,134270 2d6yA 202 1.05e-16 a.4.1.9,a.121.1.1 131313,131314 2jj7A 186 1.68e-16 2g7sA 194 2.54e-16 a.4.1.9,a.121.1.1 134737,134738 2pbxA 203 3.35e-16 1rktA 205 1.38e-15 a.4.1.9,a.121.1.1 97623,97624 2eh3A 179 2.43e-15 1qvtA 194 3.85e-15 a.4.1.9,a.121.1.1 104602,104603 1rkwA 194 3.88e-15 a.4.1.9,a.121.1.1 104967,104968 1ui5A 215 3.89e-15 a.4.1.9,a.121.1.1 107856,107857 2nx4A 194 3.96e-15 1jt6A 188 5.07e-15 a.4.1.9,a.121.1.1 67247,67248 2qtqA 213 6.62e-15 2qcoA 210 6.62e-15 2gfnA 209 8.46e-15 a.4.1.9,a.121.1.1 135101,135102 3c07A 273 9.14e-15 2g3bA 208 1.06e-14 a.4.1.9,a.121.1.1 134558,134559 2zcmA 192 1.86e-14 2q24A 194 2.22e-14 2zcnA 192 2.38e-14 2fbqA 235 3.28e-14 a.4.1.9,a.121.1.1 133256,133257 3crjA 199 3.93e-14 2qibA 231 6.29e-14 1sgmA 191 1.00e-13 a.4.1.9,a.121.1.1 105537,105538 2qwtA 196 1.83e-13 2i10A 202 1.93e-13 a.4.1.9,a.121.1.1 136960,136961 2hyjA 200 2.12e-13 2fq4A 192 2.66e-13 a.4.1.9,a.121.1.1 133937,133938 2pz9A 226 2.88e-13 3b81A 203 5.14e-13 2rasA 212 5.41e-13 2of7A 260 7.19e-13 2raeA 207 7.79e-13 2np3A 212 1.67e-12 a.4.1.9,a.121.1.1 138420,138421 1t56A 216 2.06e-12 a.4.1.9,a.121.1.1 106428,106429 1u9nA 236 2.08e-12 a.4.1.9,a.121.1.1 113246,113247 2oerA 214 2.69e-12 3colA 196 5.77e-12 3c2bA 221 6.53e-12 3cwrA 208 1.97e-11 2zb9A 214 3.84e-11 3cjdA 198 4.72e-11 2rekA 199 5.17e-11 3bjbA 207 5.32e-11 2guhA 214 5.81e-11 3bniA 229 7.74e-11 2id3A 225 8.24e-11 a.4.1.9,a.121.1.1 137261,137262 1t33A 224 8.40e-11 a.4.1.9,a.121.1.1 106295,106296 2fd5A 180 1.10e-10 a.4.1.9,a.121.1.1 133291,133292 2np5A 203 1.44e-10 a.4.1.9,a.121.1.1 138424,138425 2dg8A 193 6.23e-10 2dg7A 195 1.12e-09 2hkuA 215 1.85e-09 2dh0A 183 1.87e-09 1v7bA 185 1.97e-09 a.4.1.9,a.121.1.1 119861,119862 2yveA 185 1.99e-09 2yvhA 177 2.04e-09 3bqyA 209 3.13e-09 2oi8A 216 7.19e-09 2o7oA 207 1.05e-08 a.4.1.9,a.121.1.1 138930,138931 2tctA 207 1.08e-08 a.4.1.9,a.121.1.1 16063,19240 2qkoA 215 1.12e-08 1qpiA 203 1.15e-08 2tct a.4.1.9,a.121.1.1 16072,19249 2trtA 217 1.17e-08 a.4.1.9,a.121.1.1 16064,19241 1z0xA 220 1.35e-08 a.4.1.9,a.121.1.1 124334,124335 2hxiA 241 1.71e-08 2ns7A 208 1.96e-08 2vprA 207 6.55e-08 1a6iA 217 7.53e-08 a.4.1.9,a.121.1.1 16066,19243 1zk8A 183 9.32e-08 a.4.1.9,a.121.1.1 125177,125178 2o7tA 199 1.39e-07 2g7lA 243 1.15e-06 a.4.1.9,a.121.1.1 134734,134735 2hxoA 237 1.33e-06 2iu5A 195 1.56e-06 2optA 234 9.35e-06 2g7gA 213 7.61e-05 a.4.1.9,a.121.1.1 134732,134733 2zaiA 497 4.73e-01 2o5hA 136 6.18e-01 2nwuA 155 3.51e+00 1zt2A 330 4.86e+00 d.264.1.1 125624 2e85A 159 4.99e+00 2i8lA 156 5.04e+00 1kftA 78 6.43e+00 a.60.2.3 77375 2pg4A 95 8.01e+00 3sc2B 152 8.56e+00 1whtB 1whsB 153 8.91e+00 1whtB 1bcsB 160 9.40e+00 1whtB 1s1iX 120 1.05e+01 i.1.1.1 105198 2qxlA 658 1.06e+01 3c7nA 668 1.06e+01 2e0zA 345 1.14e+01 2cv4A 250 1.25e+01 c.47.1.10 130837 1t2aA 375 1.61e+01 c.2.1.2 99078 1mhyD 521 1.65e+01 1mhyD a.25.1.2 16780 1hlvA 131 1.75e+01 a.4.1.7,a.4.1.7 65854,65855 1qruA 553 1.76e+01 1gtrA b.53.1.2,c.26.1.1 26946,31585 2fh9A 274 1.78e+01 2eueA 275 1.78e+01 1eswA 500 1.80e+01 1cwyA c.1.8.1 59500 1fp8A 500 1.80e+01 c.1.8.1 90498 2douA 376 1.86e+01 1nylA 539 1.93e+01 b.53.1.2,c.26.1.1 80741,80742 3fruA 269 1.96e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 2zctA 249 1.98e+01 1euyA 548 2.00e+01 1gtrA b.53.1.2,c.26.1.1 26945,31584 1qrsA 553 2.00e+01 1gtrA b.53.1.2,c.26.1.1 26941,31580 1qtqA 553 2.00e+01 1gtrA b.53.1.2,c.26.1.1 26940,31579 1o0cA 554 2.01e+01 b.53.1.2,c.26.1.1 86529,86530 2nvlA 250 2.02e+01 1qrtA 553 2.07e+01 1gtrA b.53.1.2,c.26.1.1 26943,31582 2rd2A 556 2.09e+01 1ud9A 245 2.20e+01 d.131.1.2,d.131.1.2 107768,107769 2rgxA 206 2.33e+01 1s7oA 113 2.45e+01 a.4.13.3 105354 1du6A 64 2.51e+01 1akhA a.4.1.1 16002 2ekcA 262 2.53e+01 1vpeA 398 2.64e+01 c.86.1.1 35453 1ku9A 152 2.73e+01 a.4.5.36 77544 3b40A 417 2.88e+01 1pufB 73 2.91e+01 a.4.1.1 95132 2qsjA 154 2.96e+01 1b72B 87 3.03e+01 1akhA a.4.1.1 16001 1dxeA 256 3.17e+01 1dxeA c.1.12.5 29310 3bj6A 152 3.17e+01 3cjeA 167 3.33e+01 1pruA 56 3.41e+01 a.35.1.5 17104 2a6hF 423 3.42e+01 a.4.13.1,a.4.13.2,a.177.1.1 126267,126268,126269 2q50A 328 3.54e+01 2gcgA 330 3.54e+01 2d9pA 103 3.55e+01 2e60A 101 3.59e+01 1tcfA 159 3.65e+01 a.39.1.5 17250 1gwcA 230 3.67e+01 a.45.1.1,c.47.1.5 70660,70661 1xd3A 230 3.74e+01 d.3.1.6 115145 2g80A 253 4.20e+01 c.108.1.22 134741 2i2xB 258 4.35e+01 1b8iB 63 4.37e+01 1akhA a.4.1.1 16011 1wp9A 494 4.37e+01 c.37.1.19,c.37.1.19 121143,121144 2iswA 323 4.39e+01 1gw6A 610 4.41e+01 a.118.1.7,b.98.1.1,d.92.1.13 83342,83343,83344 1pbgA 468 4.43e+01 1e70M c.1.8.4 28946 3bbdA 205 4.47e+01 2pbgA 468 4.48e+01 c.1.8.4 28948 2uygA 149 4.68e+01 3choA 610 4.74e+01 2vj8A 611 4.74e+01 1k3aA 299 4.74e+01 d.144.1.7 68098 1sqmA 610 4.79e+01 a.118.1.7,b.98.1.1,d.92.1.13 105941,105942,105943 1h19A 611 4.90e+01 a.118.1.7,b.98.1.1,d.92.1.13 70847,70848,70849 2ajfA 597 4.94e+01 d.92.1.5 126882 1r42A 615 4.97e+01 d.92.1.5 96968 1i0aA 466 4.97e+01 1auwA a.127.1.1 61479 1h4wA 224 5.03e+01 b.47.1.2 65622 1uxcA 65 5.36e+01 a.35.1.5 17119 1p4oA 322 5.42e+01 d.144.1.7 87775 2qijA 157 5.45e+01 2oj9A 307 5.46e+01 d.144.1.7 139102 1jqhA 308 5.46e+01 d.144.1.7 71793 1a2xA 159 5.49e+01 1ncx a.39.1.5 17251 1m7nA 322 5.50e+01 d.144.1.7 78738 2pfvA 563 5.77e+01 2b7mA 566 5.78e+01 a.118.17.2 128046 2b1eA 564 5.78e+01 2yyvA 227 5.78e+01 1v5vA 401 5.90e+01 b.44.2.1,d.250.1.1 113539,113540 2zc2A 78 5.91e+01 2r9pA 224 5.95e+01 1gmwD 143 6.11e+01 b.107.1.1,d.58.38.1 65353,65354 1htbA 374 6.29e+01 2ohxA b.35.1.2,c.2.1.1 24715,29731 1ujpA 271 6.45e+01 c.1.2.4 99462 1vr3A 191 6.48e+01 b.82.1.6 120431 1u3uA 374 6.49e+01 b.35.1.2,c.2.1.1 113005,113006 1b3qA 379 6.50e+01 1b3qA a.30.2.1,b.40.7.1,d.122.1.3 16993,25454,41112 1hdzA 374 6.50e+01 2ohxA b.35.1.2,c.2.1.1 24725,29741 1hdyA 374 6.51e+01 2ohxA b.35.1.2,c.2.1.1 24723,29739 2z1gA 155 6.60e+01 1gmuA 143 6.81e+01 b.107.1.1,d.58.38.1 65335,65336 2f3oA 776 6.84e+01 1qasA 622 6.89e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17340,23157,29585 1djxA 624 6.97e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1mtyB 384 7.04e+01 1mtyB a.25.1.2 16740 1xvbC 389 7.07e+01 a.25.1.2 122346 1xmgC 388 7.09e+01 a.25.1.2 122155 3clqA 421 7.12e+01 1f21A 155 7.15e+01 2rn2 c.55.3.1 33550 1jl1A 155 7.22e+01 c.55.3.1 66821 1lfuP 82 7.24e+01 a.4.1.1 77939 2bihA 474 7.33e+01 1o26A 232 7.85e+01 d.207.1.1 86566