# List of top-scoring protein chains for t04-100-30-bys-scores 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 1pvdA 537 3.21e-01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1dfoA 417 3.81e-01 1bj4A c.67.1.4 34480 3fc7A 125 4.98e-01 2vk8A 563 5.19e-01 2ko6A 89 5.29e-01 3gbxA 420 5.78e-01 2dtxA 264 1.24e+00 3fncA 163 1.26e+00 2boyA 254 1.33e+00 1m70A 190 1.71e+00 a.3.1.4,a.3.1.4 91200,91201 2z7eA 157 1.95e+00 2o4cA 380 2.07e+00 3lfkA 129 2.07e+00 3huiA 126 2.13e+00 3dm8A 143 2.21e+00 d.17.4.20 157804 3f8mA 248 2.22e+00 3bhwA 209 2.40e+00 1fc4A 401 2.45e+00 1bs0A c.67.1.4 59760 1qwtA 255 2.87e+00 b.26.1.3 96501 2wnpF 217 3.76e+00 3fmsA 209 3.78e+00 1l8rA 101 4.13e+00 a.6.1.4 73700 1fzdA 201 5.13e+00 3fib d.171.1.1 42484 2jhmF 218 5.18e+00 3kraB 274 5.27e+00 3c1qA 123 5.68e+00 2v9dA 343 6.31e+00 3e0jB 144 6.79e+00 1gxmA 332 7.02e+00 a.102.5.1 76371 3ch3X 265 7.48e+00 2d39A 237 7.99e+00 1tfe 145 8.71e+00 1tfe 1tfeA 145 8.71e+00 d.43.1.1 38680 1rhs 296 8.94e+00 1rhs 1rhsA 296 8.94e+00 c.46.1.2,c.46.1.2 32703,32704 2peqA 134 9.54e+00 a.280.1.1 149443 3kzqA 208 1.02e+01 3e4rA 324 1.02e+01 3cg1A 296 1.10e+01 1v9sA 208 1.11e+01 c.61.1.1 119894 2i4lA 458 1.18e+01 1zghA 260 1.19e+01 b.46.1.1,c.65.1.1 125028,125029 3c7mA 195 1.21e+01 2cvkA 110 1.24e+01 1pjaA 302 1.26e+01 c.69.1.13 94758 1p3dA 475 1.27e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 2j41A 207 1.29e+01 2j5zA 221 1.33e+01 3e38A 343 1.41e+01 3d5lA 221 1.54e+01 1itwA 741 1.55e+01 c.77.1.2 76793 3l6dA 306 1.57e+01 1j7nA 776 1.58e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1b4fA 82 1.59e+01 1b4fA a.60.1.2 17934 2wbfX 265 1.62e+01 1uddA 226 1.62e+01 a.132.1.3 107776 2yzuA 109 1.69e+01 2c5rA 67 1.72e+01 a.251.1.1 129944 1sq9A 397 1.72e+01 b.69.4.1 105889 2ot4A 525 1.75e+01 3h40A 389 1.76e+01 2qzqA 152 1.76e+01 3gv5B 420 1.77e+01 1zetA 388 1.78e+01 d.240.1.1,e.8.1.7 124997,124998 3fo3A 525 1.96e+01 2fjuB 799 1.97e+01 a.39.1.7,b.7.1.1,b.55.1.1,c.1.18.1 145170,145171,145172,145173 1fr2B 134 1.98e+01 d.4.1.1 83257 3g6xA 420 1.99e+01 3l9uA 201 1.99e+01 3fseA 365 2.04e+01 3dwcA 505 2.06e+01 3ctdA 213 2.07e+01 a.80.1.2 156981 1whtB 153 2.09e+01 1whtB 1wyjA 125 2.16e+01 1txdA 385 2.19e+01 a.87.1.1,b.55.1.1 107422,107423 2gykB 134 2.22e+01 d.4.1.1 135857 1whsB 153 2.22e+01 1whtB 1rm6C 161 2.24e+01 a.56.1.1,d.15.4.2 111876,111877 2axtZ 62 2.25e+01 f.17.5.1 144941 2gf4A 100 2.26e+01 a.8.10.1 135074 1f8yA 157 2.28e+01 1f8xA c.23.14.1 31395 2qsfX 171 2.32e+01 3dxqA 301 2.33e+01 3cg3A 320 2.39e+01 3hinA 275 2.40e+01 3bz1Z 62 2.47e+01 2ga8A 359 2.51e+01 3ctlA 231 2.53e+01 1yqyA 523 2.54e+01 d.92.1.14,d.166.1.1 123903,123904 2zkmX 799 2.54e+01 a.39.1.7,b.7.1.1,b.55.1.1,c.1.18.1 154587,154588,154589,154590 2hi2A 158 2.54e+01 3icxA 255 2.56e+01 2ogrA 229 2.56e+01 3h4dA 390 2.59e+01 1zin 217 2.62e+01 1zin 1zinA 217 2.62e+01 c.37.1.1,g.41.2.1 31915,45178 3loyA 633 2.64e+01 1rv3A 483 2.66e+01 c.67.1.4 105101 2dpiA 420 2.66e+01 d.240.1.1,e.8.1.7 131612,131613 1zcjA 463 2.67e+01 1ru3A 732 2.69e+01 e.26.1.3 97835 3jv1A 182 2.70e+01 2x04A 80 2.73e+01 2duyA 75 2.74e+01 a.60.2.7 146589 2a2fX 325 2.80e+01 3kdqA 154 2.82e+01 3emvA 253 2.83e+01 1so2A 420 2.84e+01 a.211.1.2 98936 3h35A 185 2.85e+01 3ct7A 231 2.86e+01 2wkbA 125 2.91e+01 1f0yA 302 2.93e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 2glwA 92 2.93e+01 3k2yA 109 2.95e+01 3kusA 88 3.02e+01 2vyoA 254 3.08e+01 2zeqA 78 3.14e+01 d.15.1.1 154405 2jexA 209 3.20e+01 3k8pD 709 3.23e+01 2bjoA 136 3.26e+01 3f9sA 146 3.28e+01 2d74B 148 3.48e+01 1r5mA 425 3.49e+01 1kcqA 104 3.51e+01 d.109.1.1 68449 1ehwA 162 3.61e+01 1npk d.58.6.1 39088 3gl5A 239 3.66e+01 1gtfA 74 3.68e+01 b.82.5.1 70460 2g5xA 234 3.70e+01 2bjqA 345 3.75e+01 b.169.1.1,b.169.1.1 128626,128627 1db3A 372 3.77e+01 1db3A c.2.1.2 29813 2alzA 390 3.79e+01 d.240.1.1,e.8.1.7 126994,126995 1akyA 220 3.79e+01 c.37.1.1,g.41.2.1 31896,45197 2o37A 92 3.81e+01 1pjcA 361 3.85e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 3id5A 388 3.85e+01 2vlqB 134 3.87e+01 1oaoA 674 3.89e+01 e.26.1.2 86744 2depA 356 3.90e+01 1yaiA 151 3.92e+01 1yaiA b.1.8.1 22289 1emvB 134 3.95e+01 1bxiB d.4.1.1 37135 1u6mA 199 3.96e+01 d.108.1.1 113069 3hadA 308 3.97e+01 2hdhA a.100.1.3,c.2.1.6 18799,30203 1awcB 153 4.01e+01 1bd8 d.211.1.1 19156 1s4uX 407 4.03e+01 b.69.4.1 112027 2extA 77 4.11e+01 b.82.5.1 132563 1vliA 385 4.17e+01 b.85.1.1,c.1.10.6 108830,108831 2hurA 142 4.20e+01 1jcfA 344 4.21e+01 c.55.1.1,c.55.1.1 62878,62879 1v5dA 386 4.29e+01 a.102.1.2 113537 1xo5A 183 4.30e+01 a.39.1.5 115680 1w0mA 226 4.34e+01 c.1.1.1 109027 1qwlA 505 4.36e+01 e.5.1.1 96483 2hd1A 326 4.39e+01 a.211.1.2 136338 1bj4A 470 4.47e+01 1bj4A c.67.1.4 34479 2e0cA 409 4.47e+01 3lnoA 108 4.47e+01 3dynA 329 4.50e+01 a.211.1.2 157942 3dc8A 490 4.58e+01 3hhyA 280 4.61e+01 1esc 306 4.71e+01 1esc 1escA 306 4.71e+01 c.23.10.1 31334 2ekpA 239 4.72e+01 3c6fA 153 4.74e+01 1s1fA 406 4.91e+01 a.104.1.1 112008 1vyxA 60 4.98e+01 g.44.1.3 114033 2nn6B 249 5.03e+01 d.14.1.4,d.101.1.1 148297,148298 2d4gA 171 5.06e+01 3dcmX 192 5.09e+01 1irzA 64 5.09e+01 a.4.1.11 76772 2dkjA 407 5.12e+01 1zm8A 259 5.17e+01 1rhxA 87 5.18e+01 c.114.1.2 111805 1to4A 156 5.18e+01 b.1.8.1 107162 2gm2A 132 5.20e+01 1rzsA 61 5.20e+01 a.35.1.2 105139 3i04A 673 5.28e+01 1ta8A 332 5.29e+01 d.142.2.2 112375 1uehA 253 5.33e+01 c.101.1.1 99259 3g3lA 327 5.34e+01 1kpeA 126 5.44e+01 1kpf d.13.1.1 37508 2vhfA 374 5.53e+01 3bblA 287 5.54e+01 3e0dA 1220 5.57e+01 3icvA 316 5.64e+01 3hhtB 229 5.69e+01 1cnzA 363 5.70e+01 1cnzA c.77.1.1 35061 2rfrA 155 5.86e+01 d.17.4.28 152000 2g5dA 422 5.95e+01 b.52.1.4 147083 3c25A 383 5.98e+01 1t3qA 168 6.01e+01 a.56.1.1,d.15.4.2 106367,106368 2o9pA 454 6.02e+01 1ugjA 141 6.05e+01 b.41.1.3 107826 3dl1A 267 6.14e+01 3k26A 366 6.20e+01 1ed7A 45 6.21e+01 1ed7A b.72.2.1 27809 1peqA 714 6.24e+01 a.98.1.1,c.7.1.2 104131,104132 2pil 159 6.24e+01 2pil 1x1eA 239 6.27e+01 3i3qA 211 6.28e+01 2d0eA 407 6.29e+01 1f6yA 262 6.30e+01 1f6yA c.1.21.2 29673 2gmnA 274 6.34e+01 d.157.1.1 147132 2hzlA 365 6.40e+01 2d09A 407 6.41e+01 2r44A 331 6.45e+01 1nbuC 119 6.50e+01 d.96.1.3 91769 2bolA 314 6.53e+01 2qruA 274 6.55e+01 1t64A 377 6.56e+01 c.42.1.2 106543 1nbuA 119 6.58e+01 d.96.1.3 91767 2ghaA 382 6.62e+01 1nbuB 119 6.63e+01 d.96.1.3 91768 2zfoC 147 6.75e+01 1tjoA 182 6.76e+01 a.25.1.1 112461 1b87A 181 6.78e+01 1b87A d.108.1.1 40797 1f00I 282 6.79e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 2pnfA 248 6.82e+01 1kalA 29 6.86e+01 g.3.3.1 44077 2bjrA 368 6.86e+01 b.169.1.1,b.169.1.1 128628,128629 1n62A 166 6.88e+01 a.56.1.1,d.15.4.2 80090,80091 1rqjA 299 6.90e+01 a.128.1.1 97744 1bgf 124 6.96e+01 1bgf 1bgfA 124 6.96e+01 a.90.1.1 18537 3a0yA 152 7.03e+01 1keaA 221 7.03e+01 a.96.1.2 68491 3l12A 313 7.10e+01 1uhnA 189 7.11e+01 a.39.1.5 99399 3fm5A 150 7.15e+01 3hrdD 160 7.19e+01 1vjeA 166 7.23e+01 d.185.1.2 100807 3bx6A 192 7.23e+01 3bkzA 201 7.24e+01 3g2mA 299 7.25e+01 3ch0A 272 7.26e+01 1o26A 232 7.28e+01 d.207.1.1 86566 2vifA 141 7.31e+01 2regA 298 7.31e+01 2pvpA 367 7.37e+01 1vrbA 342 7.41e+01 b.82.2.11 120450 3gnhA 403 7.50e+01 2nsaA 170 7.52e+01 3e9hA 493 7.53e+01 2cyaA 364 7.53e+01 1sy7A 715 7.61e+01 c.23.16.3 112161 1jq5A 370 7.65e+01 e.22.1.2 67084 2jovA 85 7.76e+01 d.349.1.1 148162 3cqcB 227 7.78e+01 1sqlA 146 7.82e+01 d.96.1.3 105925 3md3A 166 7.83e+01 1pgjA 478 7.90e+01 2pgd a.100.1.1,c.2.1.6 18783,30195