# List of top-scoring protein chains for t04-100-30-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 1czaN 917 2.69e-01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1r6xA 395 3.76e-01 b.122.1.3 -5125 c.26.1.5 -6620 1g8fA 511 4.43e-01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1v4sA 455 7.72e-01 c.55.1.3 -7604 c.55.1.3 -7605 1j54A 186 8.21e-01 c.55.3.5 77077 1g8aA 227 1.65e+00 c.66.1.3 -8049 1o1zA 234 1.98e+00 c.1.18.3 86555 1qmvA 197 2.35e+00 1qq2A c.47.1.10 33066 1t2dA 322 2.46e+00 c.2.1.5 -5920 d.162.1.1 -11487 1um0A 365 2.57e+00 1oacA 727 2.69e+00 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1hyeA 313 3.00e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1bkcE 256 3.16e+00 1bkcA d.92.1.10 40333 1ldg 316 3.53e+00 1ceqA c.2.1.5 30165 d.162.1.1 42132 1pzgA 331 3.81e+00 c.2.1.5 -5931 d.162.1.1 -11498 2fokA 579 3.84e+00 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1m7sA 484 4.30e+00 e.5.1.1 74574 1lzjA 292 4.36e+00 c.68.1.9 74352 1mkmA 249 4.84e+00 a.4.5.33 79242 d.110.2.2 79243 3pvaA 335 5.01e+00 3pvaA d.153.1.3 41854 1j1yA 136 5.49e+00 d.38.1.5 -9671 1m6yA 301 5.63e+00 a.60.13.1 78716 c.66.1.23 78717 1ln1A 214 6.27e+00 d.129.3.2 74038 1s72E 178 6.73e+00 2pvaA 345 6.87e+00 3pvaA d.153.1.3 41850 1phk 298 6.91e+00 1cdkA d.144.1.7 41635 1svy 114 7.38e+00 1svy d.109.1.1 40831 1nnhA 294 7.70e+00 d.104.1.1 -10772 1jj2E 177 8.20e+00 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1qwlA 505 8.36e+00 e.5.1.1 -11823 1jhdA 396 8.79e+00 b.122.1.3 66712 c.26.1.5 66713 2gar 212 9.07e+00 2gar c.65.1.1 34161 1fm0D 81 9.17e+00 1fmaD d.15.3.1 37642 1vjnA 220 1.04e+01 unknown_sccs -11458 1qtsA 247 1.07e+01 1qtsA b.1.10.1 22313 d.105.1.1 40789 1q8bA 105 1.09e+01 unknown_sccs -9958 1mr7A 209 1.11e+01 b.81.1.3 -4798 1cjbA 231 1.13e+01 1qk3A c.61.1.1 34079 1kyfA 247 1.17e+01 b.1.10.1 73220 d.105.1.1 73221 1kllA 130 1.24e+01 d.32.1.2 72720 1oi2A 366 1.24e+01 c.32.1.2 87039 d.79.2.2 87040 1ur5A 309 1.29e+01 c.2.1.5 -5910 d.162.1.1 -11477 1gweA 503 1.36e+01 e.5.1.1 70667 1ftrA 296 1.38e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1j6wA 175 1.40e+01 1j98A d.185.1.2 62663 1ptmA 329 1.48e+01 unknown_sccs -8456 1sv6A 269 1.56e+01 1jxpA 186 1.62e+01 1jxpA b.47.1.3 26402 1ig8A 486 1.64e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1o26A 232 1.65e+01 d.207.1.1 86566 1dy9A 187 1.67e+01 1jxpA b.47.1.3 26400 1hbzA 498 1.76e+01 1cf9A e.5.1.1 60937 1ollA 188 1.77e+01 b.1.1.4 -2690 b.1.1.4 -2691 1hyhA 309 1.80e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1rvaA 244 1.80e+01 1rvaA c.52.1.2 33240 1vhmA 195 1.86e+01 d.110.2.1 -10828 1f5mA 180 1.93e+01 1f5mB d.110.2.1 40895 1r31A 428 1.96e+01 d.58.20.1 -10108 d.179.1.1 -11716 1nb9A 147 1.97e+01 b.43.5.1 85515 1j57A 143 2.00e+01 d.221.1.1 77079 1mroC 247 2.01e+01 1mroC d.58.31.1 39437 1fnoA 417 2.01e+01 c.56.5.4 75841 d.58.19.1 70145 1ukkA 142 2.02e+01 d.227.1.1 -11206 1fkx 349 2.03e+01 1a4mA c.1.9.1 29018 1a2vA 655 2.03e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1a4mA 349 2.05e+01 1a4mA c.1.9.1 29014 1e87A 118 2.08e+01 1b6e d.169.1.1 42327 1dgfA 497 2.09e+01 1cf9A e.5.1.1 42782 1o6dA 163 2.11e+01 c.116.1.3 -6689 1hyoA 421 2.14e+01 1qcnA b.34.8.1 59001 d.177.1.1 59002 1mjnA 179 2.14e+01 c.62.1.1 79210 1j3wA 163 2.20e+01 unknown_sccs -10870 1e4fT 419 2.21e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 2tmdA 729 2.26e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1hbnC 248 2.27e+01 1mroC d.58.31.1 60902 1j98A 157 2.34e+01 1j98A d.185.1.2 62755 1nukA 183 2.45e+01 1nukA b.18.1.4 23721 1ma3A 253 2.62e+01 c.31.1.5 78883 1q6cA 495 2.67e+01 c.1.8.1 -5300 1obpA 159 2.69e+01 1obpA b.60.1.1 27092 1bco 327 2.73e+01 1bco b.48.1.1 26431 c.55.3.3 33676 1v3wA 173 2.90e+01 b.81.1.5 -4815 1gesA 450 2.99e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1b0uA 262 3.00e+01 1b0uA c.37.1.12 32370 2kinA 238 3.04e+01 1bg2 c.37.1.9 32190 1epaA 164 3.05e+01 1epaA b.60.1.1 27128 3proC 166 3.07e+01 3proC d.52.1.1 38812 d.52.1.1 38813 1ltzA 297 3.09e+01 d.178.1.1 74254 1kay 381 3.12e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1a0i 348 3.28e+01 1a0i b.40.4.6 25363 d.142.2.1 41577 1c1dA 355 3.29e+01 1bw9A c.2.1.7 30270 c.58.1.1 33918 1byb 495 3.39e+01 1byb c.1.8.1 28790 1pvmA 184 3.41e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1hruA 188 3.41e+01 1hruA d.115.1.1 40926 1nvmB 312 3.42e+01 c.2.1.3 86251 d.81.1.1 86252 1axiB 236 3.43e+01 1axiB b.1.2.1 21997 b.1.2.1 21998 1o7qA 289 3.53e+01 c.68.1.9 -8216 1bupA 386 3.63e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1l3lA 234 3.63e+01 a.4.6.2 73541 d.110.5.1 73542 1kl9A 182 3.63e+01 b.40.4.5 72681 3hhrB 203 3.66e+01 1axiB b.1.2.1 22005 b.1.2.1 22006 1crzA 403 3.73e+01 1crzA b.68.4.1 27629 c.51.2.1 33211 1bpoA 494 3.74e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1t4oA 117 3.90e+01 1fjhA 257 3.97e+01 1fjhB c.2.1.2 29870 1vgyA 393 3.99e+01 c.56.5.4 -7882 d.58.19.1 -10106