# List of top-scoring protein chains for t04-100-30-str2 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 1r6xA 395 1.82e-01 b.122.1.3 -5125 c.26.1.5 -6620 1t2dA 322 1.82e-01 c.2.1.5 -5920 d.162.1.1 -11487 1g8fA 511 2.54e-01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1ldg 316 2.65e-01 1ceqA c.2.1.5 30165 d.162.1.1 42132 1pzgA 331 2.89e-01 c.2.1.5 -5931 d.162.1.1 -11498 1hyeA 313 3.19e-01 2cmd c.2.1.5 61400 d.162.1.1 61401 1o1zA 234 5.74e-01 c.1.18.3 86555 1ur5A 309 7.04e-01 c.2.1.5 -5910 d.162.1.1 -11477 1cl8A 276 1.02e+00 1ckqA c.52.1.1 33230 1czaN 917 1.04e+00 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1kay 381 1.20e+00 1ba1 c.55.1.1 33385 c.55.1.1 33386 1v4sA 455 1.31e+00 c.55.1.3 -7604 c.55.1.3 -7605 1oacA 727 1.45e+00 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1bupA 386 1.52e+00 1ba1 c.55.1.1 33377 c.55.1.1 33378 1j54A 186 1.57e+00 c.55.3.5 77077 2kinA 238 1.62e+00 1bg2 c.37.1.9 32190 1mkmA 249 1.83e+00 a.4.5.33 79242 d.110.2.2 79243 1enfA 212 1.88e+00 3seb b.40.2.2 25198 d.15.6.1 37787 2pvaA 345 2.79e+00 3pvaA d.153.1.3 41850 1ne8A 117 2.83e+00 b.34.6.2 80424 1ln1A 214 3.77e+00 d.129.3.2 74038 3pvaA 335 4.00e+00 3pvaA d.153.1.3 41854 1j57A 143 4.35e+00 d.221.1.1 77079 1fm0D 81 4.38e+00 1fmaD d.15.3.1 37642 1bkcE 256 4.66e+00 1bkcA d.92.1.10 40333 1jhdA 396 4.89e+00 b.122.1.3 66712 c.26.1.5 66713 1g8aA 227 5.30e+00 c.66.1.3 -8049 1a2vA 655 5.95e+00 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1mu5A 471 6.03e+00 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 6ldh 330 6.29e+00 3ldh c.2.1.5 30161 d.162.1.1 42128 1t62A 166 6.35e+00 1nnhA 294 6.38e+00 d.104.1.1 -10772 1o26A 232 6.46e+00 d.207.1.1 86566 1m7sA 484 7.07e+00 e.5.1.1 74574 1o9yA 84 7.25e+00 unknown_sccs -4105 2fokA 579 7.35e+00 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1t4oA 117 7.38e+00 1phk 298 7.88e+00 1cdkA d.144.1.7 41635 1qtsA 247 8.35e+00 1qtsA b.1.10.1 22313 d.105.1.1 40789 1mngA 203 8.55e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1kyfA 247 8.81e+00 b.1.10.1 73220 d.105.1.1 73221 1exmA 405 1.07e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1j1yA 136 1.07e+01 d.38.1.5 -9671 1gesA 450 1.12e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1hyoA 421 1.17e+01 1qcnA b.34.8.1 59001 d.177.1.1 59002 1qmvA 197 1.20e+01 1qq2A c.47.1.10 33066 1jnyA 435 1.24e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1kllA 130 1.25e+01 d.32.1.2 72720 1ha3A 405 1.47e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1obpA 159 1.52e+01 1obpA b.60.1.1 27092 1pvmA 184 1.52e+01 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1r3eA 309 1.54e+01 b.122.1.1 -5118 unknown_sccs -10146 1jc4A 148 1.59e+01 1jc4A d.32.1.4 62863 1s5uA 138 1.60e+01 d.38.1.1 -9626 1dy9A 187 1.68e+01 1jxpA b.47.1.3 26400 1um0A 365 1.68e+01 1faaA 124 1.68e+01 1erv c.47.1.1 32738 1oi2A 366 1.70e+01 c.32.1.2 87039 d.79.2.2 87040 1qwlA 505 1.74e+01 e.5.1.1 -11823 1q8fA 313 1.75e+01 c.70.1.1 -8358 1gweA 503 1.77e+01 e.5.1.1 70667 1mr7A 209 1.80e+01 b.81.1.3 -4798 1bg2 325 1.89e+01 1bg2 c.37.1.9 32189 1jxpA 186 1.93e+01 1jxpA b.47.1.3 26402 1j3wA 163 1.94e+01 unknown_sccs -10870 1rgxA 114 1.95e+01 1f9mA 112 1.97e+01 1erv c.47.1.1 32736 1fnoA 417 2.02e+01 c.56.5.4 75841 d.58.19.1 70145 1hyhA 309 2.04e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1d1nA 99 2.07e+01 1d1nA b.43.3.1 25718 1f89A 291 2.15e+01 d.160.1.1 64988 1qjvA 342 2.17e+01 1qjvA b.80.1.5 28035 1ukkA 142 2.17e+01 d.227.1.1 -11206 1uypA 432 2.17e+01 unknown_sccs -3480 unknown_sccs -4554 1dgfA 497 2.18e+01 1cf9A e.5.1.1 42782 1vhmA 195 2.19e+01 d.110.2.1 -10828 1lzjA 292 2.20e+01 c.68.1.9 74352 1fu1A 203 2.21e+01 1fu1B b.59.1.1 27076 h.1.11.1 45630 1qr0A 228 2.36e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1i7dA 659 2.37e+01 1d6mA e.10.1.1 61886 1rvaA 244 2.38e+01 1rvaA c.52.1.2 33240 1k7jA 206 2.38e+01 d.115.1.1 72103 1ltzA 297 2.42e+01 d.178.1.1 74254 1d2eA 397 2.43e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1ey4A 149 2.48e+01 1snc b.40.1.1 24815 1idk 359 2.52e+01 1qcxA b.80.1.2 28025 3proC 166 2.56e+01 3proC d.52.1.1 38812 d.52.1.1 38813 1guzA 310 2.59e+01 c.2.1.5 65586 d.162.1.1 65587 1j09A 468 2.67e+01 a.97.1.1 77025 c.26.1.1 77026 1hbzA 498 2.72e+01 1cf9A e.5.1.1 60937 1j6wA 175 2.79e+01 1j98A d.185.1.2 62663 1g291 372 2.82e+01 1g291 1s9rA 410 2.82e+01 unknown_sccs -10989 1hruA 188 2.83e+01 1hruA d.115.1.1 40926 1h4pA 408 2.93e+01 c.1.8.3 -5314 1gpeA 587 2.97e+01 1gpeA c.3.1.2 30387 d.16.1.1 37951 1mwpA 96 2.99e+01 1mwpA d.170.2.1 42453 1q6cA 495 3.02e+01 c.1.8.1 -5300 1mroC 247 3.03e+01 1mroC d.58.31.1 39437 1bco 327 3.03e+01 1bco b.48.1.1 26431 c.55.3.3 33676 1fjhA 257 3.03e+01 1fjhB c.2.1.2 29870 1b16A 254 3.08e+01 1b16A c.2.1.2 29875 1od5A 492 3.09e+01 b.82.1.2 86832 b.82.1.2 86833 1e87A 118 3.16e+01 1b6e d.169.1.1 42327 3seb 238 3.20e+01 3seb b.40.2.2 25184 d.15.6.1 37773 1kkhA 317 3.22e+01 d.14.1.5 72645 d.58.26.3 72646 1jc9A 269 3.23e+01 d.171.1.1 66490 1kwmA 402 3.25e+01 c.56.5.1 73079 d.58.3.1 73080 1n8fA 350 3.25e+01 c.1.10.4 85397 1npk 154 3.35e+01 1npk d.58.6.1 39099 1anf 370 3.39e+01 4mbp c.94.1.1 35776 1byb 495 3.42e+01 1byb c.1.8.1 28790 1vh4A 435 3.42e+01 unknown_sccs -4794 1p7gA 222 3.48e+01 a.2.11.1 -108 d.44.1.1 -9742 1nrwA 288 3.50e+01 c.108.1.10 86128 1ihjA 98 3.54e+01 1pdr b.36.1.1 62382 3stdA 165 3.60e+01 3stdA d.17.4.1 38073 1gv3A 248 3.61e+01 a.2.11.1 70585 d.44.1.1 70586 1qy6A 274 3.66e+01 b.47.1.1 -4126 1svy 114 3.66e+01 1svy d.109.1.1 40831 1idpA 172 3.76e+01 d.17.4.1 83685 1nofA 383 3.83e+01 b.71.1.2 -4668 c.1.8.3 -5339 1hbnC 248 3.89e+01 1mroC d.58.31.1 60902