# List of top-scoring protein chains for t2k-100-30-n_notor2-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.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 4sli 679 9.85e-01 2sli b.29.1.9,b.68.1.1 24275,27612 1yppA 286 3.21e+00 1wgjA b.40.5.1 25407 1heiA 451 3.74e+00 1heiA c.37.1.14,c.37.1.14 32463,32464 1k8kA 418 4.37e+00 c.55.1.1,c.55.1.1 68305,68306 1gteA 1025 4.71e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 2sil 381 6.21e+00 3sil b.68.1.1 27543 1h7xC 1025 6.48e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15689,28634,30330,30615,39013 2ffcA 353 6.58e+00 1bf2 750 6.71e+00 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1gjuA 637 7.50e+00 b.71.1.1,c.1.8.1 60580,60581 2fdsA 352 8.53e+00 1gpeA 587 8.72e+00 1gpeA c.3.1.2,d.16.1.1 30387,37951 1h7wB 1025 1.07e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15684,28629,30325,30610,39008 2aukA 190 1.07e+01 1epwA 1290 1.08e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1d6aB 262 1.10e+01 1qi7A d.165.1.1 42198 1h7wD 1025 1.11e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15686,28631,30327,30612,39010 1h7wA 1025 1.11e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1dzlA 505 1.16e+01 1dzlA b.121.6.1 23586 1ipcA 217 1.27e+01 d.86.1.1 71257 1ncwL 219 1.30e+01 b.1.1.1,b.1.1.2 85557,85558 1ejrC 567 1.31e+01 1ubpC b.92.1.1,c.1.9.2 28420,29042 1wb9A 800 1.33e+01 1vf8A 377 1.40e+01 2hsdA 253 1.42e+01 1e6wA c.2.1.2 29866 1ykfA 352 1.44e+01 1pedA b.35.1.2,c.2.1.1 24757,29773 1kit 757 1.46e+01 1kit b.29.1.8,b.29.1.8,b.68.1.1 24272,24273,27616 2fug1 438 1.49e+01 1jmxB 349 1.50e+01 b.69.2.2 66906 1a9xA 1058 1.55e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1go7P 462 1.81e+01 b.80.7.1,d.92.1.6 76245,76246 1hkbA 917 1.82e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33479,33480,33481,33482 3pghA 587 1.91e+01 1cqeA a.93.1.2,g.3.11.1 18726,44269 1m9nA 613 2.02e+01 c.24.1.3,c.97.2.1 78870,78871 1q9iA 571 2.18e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1qq2A 199 2.29e+01 1qq2A c.47.1.10 33064 2bwrA 401 2.31e+01 1e3mA 800 2.35e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1g6wA 261 2.37e+01 1hqoA a.45.1.1,c.47.1.5 17751,33045 2napA 723 2.42e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1qfhA 212 2.43e+01 1qfhA b.1.18.10,b.1.18.10 21893,21894 1cs0A 1073 2.55e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 2d0oA 610 2.68e+01 1gteD 1025 2.71e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70455,70456,70457,70458,70459 1cs1C 386 3.01e+01 1ibjA c.67.1.3 34401 1kblA 873 3.06e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1gm9B 557 3.10e+01 1kolA 398 3.13e+01 b.35.1.2,c.2.1.1 77474,77475 1wmxA 205 3.15e+01 b.18.1.24 109418 1hwwA 1015 3.20e+01 a.8.3.1,b.30.5.6,c.6.2.1 83067,83068,83069 1olsA 400 3.27e+01 c.36.1.11 93331 1lehA 364 3.30e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1pedA 351 3.32e+01 1pedA b.35.1.2,c.2.1.1 24753,29769 1htyA 1015 3.37e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1vgvA 384 3.40e+01 c.87.1.3 100608 1gthA 1025 3.40e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70483,70484,70485,70486,70487 2b4gA 317 3.45e+01 1gosA 520 3.46e+01 c.3.1.2,d.16.1.5 65425,65426 1y1nA 291 3.48e+01 1sr4A 206 3.49e+01 b.42.2.1 105948 1wp5A 323 3.49e+01 1ogiA 303 3.49e+01 b.43.4.2,c.25.1.1 92914,92915 1awd 94 3.51e+01 1awd d.15.4.1 37673 1wrvA 308 3.54e+01 2c0hA 353 3.61e+01 1qfcA 306 3.62e+01 1uteA d.159.1.1 42077 1yc5A 246 3.66e+01 1d2kA 392 3.67e+01 1d2kA c.1.8.5,d.26.3.1 29008,38442 1m6iA 493 3.68e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1u9iA 519 3.76e+01 1ax0 239 3.76e+01 1led b.29.1.1 24042 1t5rA 284 3.80e+01 f.6.1.1 106465 3csuA 310 4.11e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1ruxA 951 4.14e+01 1dhx 1h09A 338 4.16e+01 b.109.1.1,c.1.8.8 83420,83421 1gv4A 528 4.23e+01 c.3.1.5,c.3.1.5,d.87.1.1 70589,70590,70591 1btu 240 4.24e+01 5ptp b.47.1.2 26241 1wgjA 286 4.36e+01 1wgjA b.40.5.1 25397 1x8mA 288 4.61e+01 b.82.1.13 109516 1jbkA 195 4.64e+01 c.37.1.20 71631 1gthC 1025 4.66e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70493,70494,70495,70496,70497 1f75A 249 4.72e+01 1f75A c.101.1.1 59662 1fwrA 213 4.82e+01 1fwrA c.1.10.1 29164 1hdhA 536 4.82e+01 c.76.1.2 65805 1ejxC 567 4.84e+01 b.92.1.1,c.1.9.2 83184,83185 1v7pC 200 4.86e+01 c.62.1.1 108408 1yp2A 451 5.03e+01 1zd3A 555 5.14e+01 1q9rA 219 5.16e+01 b.1.1.1,b.1.1.2 96305,96306 2giyA 191 5.34e+01 1bmv2 374 5.47e+01 1bmv2 1j6pA 418 5.56e+01 b.92.1.4,c.1.9.9 77089,77090 1ejhA 190 5.59e+01 1ejhA d.86.1.1 40147 1gxrA 337 5.61e+01 b.69.4.1 70722 1thjA 214 5.62e+01 1qreA b.81.1.5 28072 2fbwB 252 5.63e+01 1qq1A 559 5.66e+01 1tyv b.80.1.6 28041 1a5mC 566 5.70e+01 1ubpC b.92.1.1,c.1.9.2 28423,29045 1sspE 223 5.73e+01 3eugA c.18.1.1 31009 1nffA 260 5.93e+01 c.2.1.2 80457 1bmdA 327 6.11e+01 1bmdA c.2.1.5,d.162.1.1 30139,42106 1gqyA 475 6.19e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1afvL 217 6.23e+01 32c2A b.1.1.1,b.1.1.2 20130,21160 1suuA 312 6.35e+01 b.68.10.1 99006 1b54 257 6.39e+01 1ct5A c.1.6.2 28664 1v5wA 343 6.47e+01 c.37.1.11 108387 1ll7A 392 6.48e+01 c.1.8.5,d.26.3.1 78085,78086 1qa1A 554 6.60e+01 1tyv b.80.1.6 28047 1f3eA 386 6.62e+01 1pud c.1.20.1 29661 1nedA 183 6.65e+01 1nedA d.153.1.4 41974 1alkA 449 6.75e+01 1b8jA c.76.1.1 34994 1apq 53 6.84e+01 1apq g.3.11.1 44324 1xmkA 79 6.84e+01 1zfjA 491 6.86e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1yi8A 351 6.87e+01 1l5wA 796 6.95e+01 c.87.1.4 73605 1m4uA 206 6.99e+01 g.17.1.7 78625 1kxoA 184 7.08e+01 b.60.1.1 84475 1znbA 232 7.13e+01 1a7tA d.157.1.1 42039 1wljA 189 7.20e+01 1i1kA 309 7.21e+01 1daaA e.17.1.1 61533 1k3pA 426 7.24e+01 a.103.1.1 77237 1iqcA 308 7.25e+01 a.3.1.5,a.3.1.5 66266,66267 1bp3A 191 7.31e+01 1huw a.26.1.1 16838 1a3lL 217 7.43e+01 8fabA b.1.1.1,b.1.1.2 20240,21252 1a3gA 308 7.56e+01 1daaA e.17.1.1 43286 1a23 189 7.61e+01 1fvkA c.47.1.13 90319 2f4nA 273 7.88e+01 1ohlA 342 7.96e+01 c.1.10.3 87035 1wdkC 390 8.06e+01 c.95.1.1,c.95.1.1 109258,109259 1wiwA 290 8.08e+01 2ajuL 216 8.21e+01 1h7xB 1025 8.23e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15688,28633,30329,30614,39012 117eA 286 8.23e+01 1wgjA b.40.5.1 25401 2b59B 172 8.37e+01 1h7xA 1025 8.41e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1flcA 432 8.49e+01 1flcA b.19.1.3,c.23.10.2 23837,31337 1klt 226 8.60e+01 5ptp b.47.1.2 26300 1y0pA 571 8.75e+01 1jeqB 565 8.92e+01 1jeqB b.131.1.2,c.62.1.4 90368,90369