# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1lfpA 249 2.33e-48 1konA 249 1.18e-44 1b4aA 149 2.17e-01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1pytA 94 4.30e-01 1pytA d.58.3.1 39064 6pfkA 319 4.95e-01 3pfk c.89.1.1 35583 3pfk 319 5.56e-01 3pfk c.89.1.1 35581 1hf2A 210 5.76e-01 1hf2A b.80.3.1 60992 c.102.1.1 60993 4pfk 319 7.05e-01 3pfk c.89.1.1 35582 2dpg 485 8.06e-01 1dpgA c.2.1.3 30076 d.81.1.5 39991 1dqeA 137 1.15e+00 1dqeA a.39.2.1 17388 1ad3A 452 1.30e+00 1ad3A c.82.1.1 35335 1hw6A 278 1.37e+00 1frb c.1.7.1 61296 1ejdA 419 1.46e+00 1uae d.68.2.2 39576 1bmtA 246 1.53e+00 1bmtA a.46.1.1 17757 c.23.6.1 31235 4uagA 437 1.55e+00 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1uag 437 1.60e+00 4uagA c.5.1.1 30653 c.59.1.1 33954 c.72.2.1 34957 3uagA 437 1.62e+00 4uagA c.5.1.1 30652 c.59.1.1 33953 c.72.2.1 34956 1cp2A 269 1.78e+00 1cp2A c.37.1.10 32269 1l1eA 287 1.85e+00 1qc9A 276 2.01e+00 1ckqA c.52.1.1 33235 1reqA 727 2.86e+00 1reqA c.1.19.1 29620 c.23.6.1 31247 1d1rA 116 2.89e+00 1d1rA d.64.1.1 39548 2gbp 309 3.06e+00 1gca c.93.1.1 35657 1cl8A 276 3.15e+00 1ckqA c.52.1.1 33230 1ckqA 276 3.15e+00 1ckqA c.52.1.1 33229 1fp6A 289 3.41e+00 1cp2A c.37.1.10 32243 1eriA 276 3.49e+00 1ckqA c.52.1.1 33231 1geqA 248 3.76e+00 2tysA c.1.2.4 28589 2ng1 293 3.78e+00 1ng1 a.24.13.1 16962 c.37.1.10 32273 1dpgA 485 4.38e+00 1dpgA c.2.1.3 30074 d.81.1.5 39989 1jpnA 296 4.47e+00 a.24.13.1 67039 c.37.1.10 67040 1jcjA 260 4.50e+00 c.1.10.1 66499 1jclA 260 4.59e+00 c.1.10.1 66501 1g3qA 237 5.01e+00 1hyqA c.37.1.10 60237 1l7mA 211 5.02e+00 1kwmA 402 5.14e+00 1fecA 490 5.28e+00 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1uae 419 5.57e+00 1uae d.68.2.2 39574 1kkhA 317 5.60e+00 1f1eA 154 5.62e+00 a.22.1.2 64927 1qpsA 261 5.64e+00 1ckqA c.52.1.1 33234 1j5eK 129 5.75e+00 1erzA 303 6.13e+00 1erzA d.160.1.2 59498 1dywA 173 6.27e+00 2cpl b.62.1.1 27505 1a2zA 220 6.32e+00 1a2zA c.56.4.1 33794 1abrA 251 6.46e+00 1mrj d.165.1.1 42196 2pii 112 6.88e+00 2pii d.58.5.1 39071 1jcfA 344 6.94e+00 c.55.1.1 62878 c.55.1.1 62879 1f5sA 211 7.34e+00 1f5sA c.108.1.4 59656 1j97A 211 7.34e+00 1f5sA c.108.1.4 62753 1el5A 389 7.46e+00 1b3mA c.3.1.2 30369 d.16.1.3 37937 1l9fA 389 7.51e+00 1qk3A 233 8.00e+00 1qk3A c.61.1.1 34031 1j8mF 297 8.13e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 1aogA 485 8.13e+00 3grs c.3.1.5 30517 c.3.1.5 30518 d.87.1.1 40190 1kmnD 424 8.19e+00 1adjA c.51.1.1 33185 d.104.1.1 40734 1oneA 436 8.35e+00 4enl c.1.11.1 29200 d.54.1.1 38844 1qlmA 316 8.55e+00 1qlmA d.147.1.1 41765 1iciA 256 8.65e+00 1iciA c.31.1.5 62266 1e0tA 470 8.97e+00 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1gca 309 9.24e+00 1gca c.93.1.1 35659 1t7pA 698 9.31e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 1kskA 234 9.81e+00 1a58 177 1.02e+01 2cpl b.62.1.1 27495 1pea 385 1.03e+01 1pea c.93.1.1 35662 1nipA 289 1.05e+01 1cp2A c.37.1.10 32263 1ctqA 166 1.07e+01 1ctqA c.37.1.8 31965 1afi 72 1.08e+01 1aw0 d.58.17.1 39339 1rpjA 288 1.10e+01 2dri c.93.1.1 35656 1a80 277 1.13e+01 1frb c.1.7.1 28700 1fg7A 356 1.16e+01 1gewA c.67.1.1 59819 1edoA 244 1.18e+01 1ybvA c.2.1.2 29896 1bg7 176 1.19e+01 2fha a.25.1.1 16686 1ng1 294 1.20e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1eu8A 409 1.25e+01 1eu8A c.94.1.1 59502 1dkrA 317 1.27e+01 1dkuA c.61.1.2 34114 c.61.1.2 34115 1a8p 258 1.28e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1gh8A 89 1.28e+01 1gh8A d.58.12.1 39309 1ppa 121 1.29e+01 1poa a.133.1.2 19550 1ihgA 370 1.36e+01 2cpl a.118.8.1 62380 b.62.1.1 62381 1e4iA 447 1.37e+01 1e70M c.1.8.4 59225 1phnB 172 1.39e+01 1qgwC a.1.1.3 15642 1efuB 282 1.40e+01 1efuB a.5.2.2 58975 d.43.1.1 58976 d.43.1.1 38677 1fjgT 106 1.40e+01 1fjfT a.7.6.1 16338 2hqi 72 1.45e+01 1aw0 d.58.17.1 39340 1kzyC 259 1.47e+01 2cpl 165 1.51e+01 2cpl b.62.1.1 27420 1fjgK 129 1.51e+01 1fjfK c.55.4.1 33733 1b1a 137 1.51e+01 1be1 c.23.6.1 31242 1orc 71 1.52e+01 1orc a.35.1.2 17054 1ihrA 76 1.52e+01 1ihrA d.191.1.1 62392 1onrA 316 1.54e+01 1onrA c.1.10.1 29169 1e3oC 160 1.55e+01 1au7A a.4.1.1 59197 a.35.1.1 59198 1copD 66 1.55e+01 1orc a.35.1.2 17058 1bncB 449 1.57e+01 1bncA b.84.2.1 28237 c.30.1.1 31644 d.142.1.2 41489 1b33N 67 1.59e+01 1b33N d.30.1.1 38459 1gnlA 544 1.61e+01 1tr1A 447 1.61e+01 1e70M c.1.8.4 28957 2aat 396 1.61e+01 1ajsA c.67.1.1 34348 1cfzA 162 1.62e+01 1cfzA c.56.1.1 33754 1k8cA 322 1.62e+01 1fsz 372 1.64e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1hnnA 282 1.66e+01 c.66.1.15 65895 1g8jA 825 1.69e+01 1g8jA b.52.2.2 26924 c.81.1.1 35332 1i9zA 347 1.76e+01 1i9yA d.151.1.2 62102 1awqA 164 1.77e+01 2cpl b.62.1.1 27461 1awsA 164 1.78e+01 2cpl b.62.1.1 27431 1di6A 195 1.81e+01 1di6A c.57.1.1 33863 1dv1A 449 1.84e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1a8q 274 1.84e+01 1brt c.69.1.12 34702 1i9yA 347 1.84e+01 1i9yA d.151.1.2 62101 1a6q 382 1.87e+01 1a6q d.158.1.1 42063 1a5r 103 1.87e+01 1a5r d.15.1.1 37597 1cwoA 165 1.95e+01 2cpl b.62.1.1 27445 1bncA 449 2.01e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1pba 81 2.09e+01 1pytA d.58.3.1 39067 1dkuA 317 2.12e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1gp4A 356 2.17e+01 b.82.2.1 65439 1jceA 344 2.19e+01 c.55.1.1 62876 c.55.1.1 62877 1qoxN 449 2.22e+01 1qoxN c.1.8.4 28978 1ash 150 2.27e+01 1ash a.1.1.2 15622 2oneA 436 2.32e+01 4enl c.1.11.1 29203 d.54.1.1 38847 1cz1A 394 2.37e+01 1cz1A c.1.8.3 28839 1fcdA 401 2.39e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1im8A 244 2.40e+01 c.66.1.14 66212 1fgkA 310 2.43e+01 1fgkA d.144.1.2 41693 1i1gA 141 2.43e+01 a.4.5.32 65982 d.58.37.1 65983 2acr 315 2.49e+01 1frb c.1.7.1 28674 2occF 98 2.55e+01 2occF g.41.5.3 45256 1bvyF 191 2.56e+01 1bvyF c.23.5.1 31207 1pil 112 2.62e+01 2pii d.58.5.1 39072 1lfo 128 2.64e+01 1hmt b.60.1.2 27223 1ktzB 122 2.69e+01 g.7.1.3 68868 1vokA 200 2.70e+01 1ytbA d.129.1.1 41242 d.129.1.1 41243 1earA 147 2.72e+01 b.107.1.1 64875 d.58.38.1 64876 1jy8A 159 2.73e+01 d.79.5.1 67452 1ckiA 317 2.83e+01 1csn d.144.1.1 41660 1hqkA 154 2.88e+01 c.16.1.1 65902 1qciA 262 2.88e+01 1qi7A d.165.1.1 42201 1d6aB 262 2.90e+01 1qi7A d.165.1.1 42198 1grj 158 2.91e+01 1grj a.2.1.1 15691 d.26.1.2 38433 2fcr 173 2.91e+01 1rcf c.23.5.1 31151 1eqcA 394 2.91e+01 1cz1A c.1.8.3 28811 2cae 484 2.93e+01 1cf9A e.5.1.1 42810 1ifqA 138 2.96e+01 1ifqA d.110.4.1 62350 1gcoA 261 2.98e+01 1ybvA c.2.1.2 29884 1uxy 340 3.01e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 2mbr 340 3.02e+01 2mbr d.145.1.2 41749 d.146.1.1 41762 1frb 315 3.04e+01 1frb c.1.7.1 28665 1b65A 375 3.06e+01 1b65A d.154.1.1 42020 1eljA 381 3.08e+01 4mbp c.94.1.1 35791 1a8y 367 3.09e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1i1dA 161 3.10e+01 1i21A d.108.1.1 61526 1cgo 127 3.11e+01 1cpq a.24.3.2 16550 1edg 380 3.11e+01 1edg c.1.8.3 28807 1f9fA 83 3.23e+01 1f9fA d.58.8.1 39224 1gx3A 284 3.23e+01 1qh3A 260 3.26e+01 1qh5A d.157.1.2 42059 4enl 436 3.27e+01 4enl c.1.11.1 29202 d.54.1.1 38846 1qu9A 128 3.27e+01 1qu9A d.79.1.1 39755 1qu9C 128 3.27e+01 1qu9A d.79.1.1 39757 1hh2P 344 3.30e+01 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1qnaA 200 3.34e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1hqz1 141 3.36e+01 1dvjC 246 3.37e+01 1dvjA c.1.2.3 28548 1zfjA 491 3.40e+01 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1dkiA 371 3.41e+01 1dkiA d.3.1.1 37090 1ofgA 381 3.42e+01 1ofgA c.2.1.3 30064 d.81.1.5 39979 1be1 137 3.50e+01 1be1 c.23.6.1 31237 1fpxA 352 3.50e+01 1fpxA a.4.5.29 59950 c.66.1.12 59951 1e85A 127 3.60e+01 1bbhA a.24.3.2 16549 1aoxA 203 3.61e+01 1aoxA c.62.1.1 34151 1qorA 327 3.62e+01 1qorA b.35.1.2 24766 c.2.1.1 29782 1t1dA 100 3.63e+01 1t1dA d.42.1.2 38637 1gx1A 160 3.67e+01 1j75A 67 3.72e+01 a.4.5.19 62673 1ads 315 3.73e+01 1frb c.1.7.1 28671 1dhpA 292 3.77e+01 1dhpA c.1.10.1 29097 2napA 723 3.79e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1hqz9 141 3.80e+01 1gpjA 404 3.80e+01 a.151.1.1 65451 c.2.1.10 65452 d.58.39.1 65453 1fiuA 286 3.84e+01 1fiuA c.52.1.10 33317 1psdA 409 3.86e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1nstA 325 3.87e+01 1nstA c.37.1.5 31951 1qguB 519 3.89e+01 1qguB c.92.2.3 35626 1hh1A 143 3.89e+01 1gefA c.52.1.18 61036 1omp 370 3.90e+01 4mbp c.94.1.1 35778 1a6jA 163 3.91e+01 1a6jA d.112.1.1 40915 1ktpB 172 3.92e+01 1g7rA 594 3.93e+01 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149