# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1m6yA 301 1.67e-46 a.60.13.1 78716 c.66.1.23 78717 1ixkA 315 2.18e-05 unknown_sccs -8099 1sqgA 429 8.19e-05 1l3iA 192 1.20e-03 c.66.1.22 77676 1inlA 296 5.15e-03 c.66.1.17 66220 1jq3A 296 8.92e-03 c.66.1.17 67079 1uwvA 433 1.28e-02 unknown_sccs -3950 unknown_sccs -8107 1d2gA 292 1.48e-02 1xvaA c.66.1.5 34187 6mhtA 327 1.51e-02 6mhtA c.66.1.26 34226 1xvaA 292 1.63e-02 1xvaA c.66.1.5 34183 1ej0A 180 1.70e-02 1ej0A c.66.1.2 34179 1i9gA 280 2.00e-02 c.66.1.13 62090 2admA 421 2.07e-02 2admA c.66.1.27 34238 1uirA 314 2.64e-02 c.66.1.17 -8114 1ufkA 254 2.92e-02 unknown_sccs -8103 1aqjA 421 3.18e-02 2admA c.66.1.27 34242 1g38A 393 3.25e-02 2admA c.66.1.27 60235 8adh 374 3.99e-02 2ohxA b.35.1.2 24690 c.2.1.1 29706 3mhtA 327 4.01e-02 6mhtA c.66.1.26 34234 1hmy 327 4.41e-02 6mhtA c.66.1.26 34229 2ohxA 374 4.46e-02 2ohxA b.35.1.2 24669 c.2.1.1 29685 1hetA 374 4.75e-02 2ohxA b.35.1.2 60975 c.2.1.1 60976 1n8kA 374 4.83e-02 b.35.1.2 80298 c.2.1.1 80299 1fjxA 327 4.95e-02 6mhtA c.66.1.26 34228 1heuA 374 4.96e-02 2ohxA b.35.1.2 60979 c.2.1.1 60980 1ee2A 373 5.09e-02 2ohxA b.35.1.2 24663 c.2.1.1 29679 1qyrA 252 6.47e-02 1khhA 198 7.17e-02 c.66.1.16 68615 1p1cA 199 7.59e-02 c.66.1.16 87669 1nv8A 284 9.41e-02 c.66.1.30 86224 1jvbA 347 9.86e-02 b.35.1.2 77181 c.2.1.1 77182 1ne2A 200 1.14e-01 c.66.1.32 85586 1dl5A 317 1.42e-01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1qamA 244 1.80e-01 2ercA c.66.1.24 34220 1bdb 277 1.93e-01 1bdb c.2.1.2 29874 1o54A 277 2.20e-01 c.66.1.13 -8095 1e9rA 437 2.32e-01 c.37.1.11 64827 1mjfA 281 2.36e-01 c.66.1.17 79198 1dusA 194 3.73e-01 1dusA c.66.1.4 34182 1bhjA 292 4.08e-01 1xvaA c.66.1.5 34189 1h2bA 359 4.09e-01 b.35.1.2 -3679 c.2.1.1 -5703 1clqA 903 4.79e-01 1clqA c.55.3.5 33717 e.8.1.1 43006 1qorA 327 5.13e-01 1qorA b.35.1.2 24766 c.2.1.1 29782 1g6q2 328 6.29e-01 1g6q2 1f8fA 371 6.39e-01 b.35.1.2 83246 c.2.1.1 83247 1ri5A 298 6.78e-01 unknown_sccs -8063 1agnA 373 7.12e-01 2ohxA b.35.1.2 24737 c.2.1.1 29753 2ercA 244 7.15e-01 2ercA c.66.1.24 34224 1jg1A 235 8.36e-01 c.66.1.7 66661 1l1eA 287 9.81e-01 c.66.1.18 73454 1dqnA 230 9.97e-01 1dqnA c.61.1.1 34067 1ih7A 903 1.07e+00 1clqA c.55.3.5 62375 e.8.1.1 62376 1qzzA 374 1.37e+00 a.4.5.29 -277 c.66.1.12 -8045 1g60A 260 1.54e+00 c.66.1.11 70151 1ae1A 273 1.56e+00 1bdb c.2.1.2 29943 1dqpA 230 1.78e+00 1dqnA c.61.1.1 34069 1hxhA 253 1.85e+00 c.2.1.2 76725 1f3lA 321 1.85e+00 1g6q2 c.66.1.6 59630 1db3A 372 2.11e+00 1db3A c.2.1.2 29813 1dctA 324 2.28e+00 6mhtA c.66.1.26 34244 1o4sA 389 2.38e+00 c.67.1.1 86620 1g8sA 230 2.96e+00 c.66.1.3 -8047 1fbnA 230 2.96e+00 1fbnA c.66.1.3 34181 1ionA 243 2.96e+00 c.37.1.10 62633 1i1nA 226 3.03e+00 c.66.1.7 71102 1fp2A 352 3.26e+00 1fpxA a.4.5.29 59941 c.66.1.12 59942 1jsxA 207 3.32e+00 c.66.1.20 71846 1i5rA 327 3.35e+00 c.2.1.2 83668 1fdt 327 3.36e+00 1fds c.2.1.2 29841 2yhx 457 3.52e+00 2yhx i.12.1.1 46024 1sw6A 327 3.53e+00 1sw6A d.211.1.1 19176 1h1dA 221 3.54e+00 c.66.1.1 83452 1ile 821 3.59e+00 1ile a.27.1.1 16924 b.51.1.1 26889 c.26.1.1 31591 1oaoA 674 3.65e+00 e.26.1.2 86744 1bg6 359 3.93e+00 1bg6 a.100.1.5 18810 c.2.1.6 30214 1prxA 224 3.98e+00 1prxA c.47.1.10 33076 1vid 221 4.09e+00 1vid c.66.1.1 34178 1lnsA 763 4.20e+00 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1fpxA 352 4.25e+00 1fpxA a.4.5.29 59950 c.66.1.12 59951 1prxB 224 4.57e+00 1prxA c.47.1.10 33077 1booA 323 4.58e+00 1booA c.66.1.11 34248 1jtvA 327 4.59e+00 c.2.1.2 84230 2hsdA 253 4.64e+00 1e6wA c.2.1.2 29866 1g55A 343 4.66e+00 1g55A c.66.1.26 34247 1kr5A 226 4.69e+00 c.66.1.7 68847 1a27 289 5.00e+00 1fds c.2.1.2 29839 1dw9A 156 5.04e+00 1dw9A a.35.1.4 17065 d.72.1.1 39596 1kpgA 287 5.18e+00 c.66.1.18 68735 1r5jA 337 5.28e+00 unknown_sccs -8471 1kxpD 458 5.30e+00 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 1o9gA 250 5.37e+00 c.66.1.29 86692 1hdcA 253 5.45e+00 1e6wA c.2.1.2 29862 1li4A 432 5.62e+00 c.2.1.4 84616 c.23.12.3 84617 1toh 343 5.65e+00 4pah d.178.1.1 42573 1hyuA 521 5.66e+00 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1auwA 468 5.66e+00 1auwA a.127.1.1 19416 1uor 585 5.95e+00 1bj5 a.126.1.1 19396 a.126.1.1 19397 a.126.1.1 19398 1fpqA 372 5.95e+00 1fpqA a.4.5.29 59947 c.66.1.12 59948 1n5uA 585 6.05e+00 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1pq4A 291 6.12e+00 c.92.2.2 -8633 1yub 245 6.15e+00 2ercA c.66.1.24 34219 1oe4A 247 6.18e+00 c.18.1.3 86895 1nw8A 319 6.28e+00 c.66.1.11 86292 1ao6A 585 6.66e+00 1bj5 a.126.1.1 19354 a.126.1.1 19355 a.126.1.1 19356 1iy8A 267 6.68e+00 c.2.1.2 83774 1hyeA 313 6.75e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1dwkA 156 6.95e+00 1dw9A a.35.1.4 17075 d.72.1.1 39606 1fds 327 7.27e+00 1fds c.2.1.2 29838 1iw7C 1119 7.27e+00 e.29.1.1 71474 1j78A 458 7.35e+00 a.126.1.1 66397 a.126.1.1 66398 a.126.1.1 66399 1kp9B 287 7.60e+00 c.66.1.18 68734 1cbuA 180 8.25e+00 1c9kB c.37.1.11 32360 1b3rA 431 8.46e+00 1b3rA c.2.1.4 30106 c.23.12.3 31366 1j3vA 289 8.51e+00 a.100.1.1 -1303 c.2.1.6 -5947 1c9kB 180 8.63e+00 1c9kB c.37.1.11 32364 1mkmA 249 8.73e+00 a.4.5.33 79242 d.110.2.2 79243 1vzoA 355 8.88e+00 1q7bA 244 8.90e+00 c.2.1.2 -5826 1fsz 372 8.92e+00 1fsz c.32.1.1 31750 d.79.2.1 39802 1fp1D 372 9.88e+00 1fpqA a.4.5.29 59939 c.66.1.12 59940 1bl3A 160 9.90e+00 1b9dA c.55.3.2 33655 1l8qA 324 9.98e+00 a.4.12.2 77809 c.37.1.20 77810 1bj5 585 1.01e+01 1bj5 a.126.1.1 19369 a.126.1.1 19370 a.126.1.1 19371 1yagA 375 1.01e+01 1yagA c.55.1.1 33449 c.55.1.1 33450 1hnnA 282 1.02e+01 c.66.1.15 65895 1p77A 272 1.05e+01 c.2.1.7 -5965 c.58.1.5 -6371 1ha2A 585 1.06e+01 1bj5 a.126.1.1 60866 a.126.1.1 60867 a.126.1.1 60868 1bmtA 246 1.07e+01 1bmtA a.46.1.1 17757 c.23.6.1 31235 1h77A 605 1.12e+01 1k7wA 468 1.13e+01 a.127.1.1 72130 1h5qA 265 1.16e+01 1cydA c.2.1.2 60643 1vfrA 218 1.20e+01 1vfrA d.90.1.1 40247 1sayA 361 1.26e+01 1sayA c.2.1.4 30102 c.23.12.2 31362 1svq 114 1.30e+01 1svy d.109.1.1 40832 1pjcA 361 1.38e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1qv9A 283 1.38e+01 unknown_sccs -6888 1ajsA 412 1.38e+01 1ajsA c.67.1.1 34276 1l6wA 220 1.44e+01 c.1.10.1 73632 1eg2A 319 1.45e+01 1eg2A c.66.1.11 34249 1nw3A 416 1.46e+01 c.66.1.31 86288 1n93X 375 1.51e+01 unknown_sccs -1540 1hy0A 466 1.55e+01 1auwA a.127.1.1 61392 1l2lA 457 1.55e+01 c.72.1.3 77656 1pjbA 361 1.63e+01 1sayA c.2.1.4 30103 c.23.12.2 31363 1h8eD 482 1.74e+01 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1l7vC 249 1.74e+01 c.37.1.12 73674 1cf2O 337 1.76e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1i52A 236 1.81e+01 1i52A c.68.1.13 61767 1h97A 147 1.82e+01 1h97A a.1.1.2 60812 1v54H 85 1.86e+01 a.51.1.1 -979 1mgtA 174 1.90e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1auiB 169 1.91e+01 1auiB a.39.1.5 17325 2ts1 419 1.94e+01 2ts1 c.26.1.1 31564 1dp4A 435 1.99e+01 1dp4A c.93.1.1 35710 1p9qC 256 2.01e+01 1awcB 153 2.02e+01 1bd8 d.211.1.1 19156 2occH 85 2.03e+01 2occH a.51.1.1 17796 4pgaA 337 2.06e+01 4pgaA c.88.1.1 35565 1am2 199 2.06e+01 1am2 b.86.1.2 28381 1hta 69 2.07e+01 1a7w a.22.1.2 16476 1qgvA 142 2.11e+01 1qgvA c.47.1.8 33056 1i4wA 353 2.11e+01 c.66.1.24 66028 1b67A 68 2.13e+01 1a7w a.22.1.2 16474 1k32A 1045 2.18e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1uufA 369 2.25e+01 b.35.1.2 -3706 c.2.1.1 -5730 1sb8A 352 2.27e+01 1b8zA 90 2.28e+01 1huuA a.55.1.1 17902 1guqA 348 2.30e+01 1guqA d.13.1.2 37522 d.13.1.2 37523 1gupA 348 2.31e+01 1guqA d.13.1.2 37534 d.13.1.2 37535 1b5pA 385 2.32e+01 c.67.1.1 -8133 1b89A 449 2.33e+01 1b89A a.118.1.3 19138 1i5gA 144 2.34e+01 1ewxA c.47.1.10 61784 1svr 114 2.35e+01 1svy d.109.1.1 40833 1e7aA 585 2.39e+01 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1jilA 420 2.40e+01 c.26.1.1 66745 1oe8A 211 2.40e+01 a.45.1.1 86905 c.47.1.5 86906 1jqbA 351 2.43e+01 b.35.1.2 77151 c.2.1.1 77152 1eqfA 280 2.45e+01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1em8B 112 2.45e+01 unknown_sccs -6364 1o6jA 150 2.49e+01 c.47.1.10 81089 1gr5A 547 2.52e+01 i.16.1.1 65478 1t95A 240 2.52e+01 1o1fC 147 2.53e+01 i.15.1.1 80997 1tqnA 486 2.54e+01 1dgaA 375 2.54e+01 1yagA 1e79D 482 2.56e+01 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1wdnA 226 2.56e+01 1lst c.94.1.1 35816 1nxqA 251 2.57e+01 c.2.1.2 86388 1k7yA 577 2.59e+01 a.46.1.1 68272 c.23.6.1 68273 d.173.1.1 68274 1v4vA 376 2.64e+01 c.87.1.3 -8583 1allA 160 2.65e+01 1qgwC a.1.1.3 15647 1r1dA 247 2.68e+01 unknown_sccs -8335 1d2fA 390 2.68e+01 1d2fA c.67.1.3 34411 1dcnD 436 2.70e+01 1auwA a.127.1.1 19423 3lck 271 2.79e+01 1fmk d.144.1.7 41686 1pszA 303 2.83e+01 1toaA c.92.2.2 35600 1pedA 351 2.84e+01 1pedA b.35.1.2 24753 c.2.1.1 29769 1d4fA 431 2.84e+01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1d4xA 375 2.94e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1ktpA 162 2.95e+01 a.1.1.3 72990 1dkgB 197 2.97e+01 1dkgA b.73.1.1 27813 h.1.9.1 45627 1pxgA 382 2.99e+01 c.1.20.1 -5616 1gtdA 85 2.99e+01 d.58.45.1 76344 1f0jA 377 2.99e+01 1f0jA a.125.1.1 19346 1jdqA 98 3.02e+01 d.68.3.3 66559 1g3qA 237 3.03e+01 1hyqA c.37.1.10 60237 1ks9A 291 3.06e+01 a.100.1.7 68857 c.2.1.6 68858 1ah2 269 3.07e+01 1gci c.41.1.1 32542 1n6eA 1071 3.09e+01 b.36.1.3 80149 b.68.7.1 80150 b.69.9.1 80151 c.14.1.2 80152 1efvA 315 3.10e+01 1efvA c.26.2.3 31633 c.31.1.2 31728 1svy 114 3.12e+01 1svy d.109.1.1 40831 1k8kB 394 3.15e+01 c.55.1.1 68307 1lnqA 336 3.16e+01 c.2.1.9 74049 f.14.1.1 74050 1a7aA 432 3.17e+01 1b3rA c.2.1.4 30104 c.23.12.3 31364 1derA 547 3.22e+01 1derA 1lopA 164 3.23e+01 2cpl b.62.1.1 27510 2cmd 312 3.25e+01 2cmd c.2.1.5 30135 d.162.1.1 42102 1qpcA 279 3.30e+01 1fgkA d.144.1.7 41685 1khdA 345 3.31e+01 a.46.2.1 77400 c.27.1.1 77401 1jsdB 176 3.33e+01 h.3.1.1 63259 1gw3 46 3.39e+01 1gw4 j.39.1.1 46298 1erw 105 3.44e+01 1erv c.47.1.1 32745 1kyoC 385 3.47e+01 f.32.1.1 75904 f.21.1.2 75905 1dt6A 473 3.52e+01 1dt6A a.104.1.1 18977 1r8hA 87 3.53e+01 d.58.8.1 -10041 1agi 125 3.53e+01 7rsa d.5.1.1 37303 2pec 353 3.54e+01 1air b.80.1.1 28019 1o5iA 249 3.63e+01 c.2.1.2 -5833 1l7aA 318 3.68e+01 c.69.1.25 77772 1cmkE 350 3.72e+01 1cdkA d.144.1.7 41623 1ne9A 335 3.77e+01 d.108.1.4 -10805 d.108.1.4 -10806 1kevA 351 3.79e+01 1pedA b.35.1.2 24749 c.2.1.1 29765 2fvx 138 3.80e+01 5nul c.23.5.1 31200 1cdkA 350 3.84e+01 1cdkA d.144.1.7 41620 1gggB 226 3.84e+01 1lst c.94.1.1 35818 1fa8A 135 3.88e+01 1qipA d.32.1.1 38486 2lbp 346 3.94e+01 2liv c.93.1.1 35709 1bjwA 382 3.96e+01 1bjwA c.67.1.1 34349 2ahjB 212 3.97e+01 2ahjB b.34.4.4 24599 1q8uA 350 3.97e+01 d.144.1.7 -11331