# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 1neiA 60 9.94e-02 d.253.1.1 91843 1guqA 348 1.17e+00 1guqA d.13.1.2,d.13.1.2 37522,37523 1gupA 348 1.26e+00 1guqA d.13.1.2,d.13.1.2 37534,37535 1hxpA 348 1.48e+00 1guqA d.13.1.2,d.13.1.2 37530,37531 1vbuA 328 1.53e+00 2awaA 390 1.98e+00 2avtA 378 2.21e+00 1wj7A 104 2.68e+00 2aehA 369 2.74e+00 1jtdB 273 3.04e+00 b.69.5.2 67265 1ehaA 558 3.22e+00 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21859,27786,28773 2al6A 375 3.29e+00 1g99A 408 3.80e+00 1g99A c.55.1.2,c.55.1.2 33457,33458 1ituA 369 4.50e+00 c.1.9.7 71423 2c27A 315 5.20e+00 1rwrA 301 5.62e+00 b.80.1.11 97990 1x3mA 415 5.77e+00 1gbs 185 6.10e+00 153l d.2.1.5 36986 1rlzA 369 6.32e+00 c.31.1.1 104989 2xat 212 6.44e+00 2xat b.81.1.3 28058 1u59A 287 6.71e+00 d.144.1.7 107681 1gz8A 299 6.73e+00 d.144.1.7 83405 1xat 212 6.79e+00 2xat b.81.1.3 28059 1hcl 298 6.86e+00 1hcl d.144.1.7 41593 1e1xA 299 7.15e+00 1hcl d.144.1.7 59157 1jvpP 298 7.91e+00 d.144.1.7 67371 1z96A 40 8.25e+00 1bfeA 119 8.59e+00 1pdr b.36.1.1 24775 1udh 244 9.49e+00 3eugA c.18.1.1 31015 1wdvA 152 9.87e+00 1icwA 72 1.01e+01 1tvxA d.9.1.1 37357 1p0hA 318 1.01e+01 d.108.1.1 93866 1n0qA 93 1.06e+01 k.37.1.1 79754 1hxiA 121 1.18e+01 1hxiA a.118.8.1 61366 1v8gA 329 1.25e+01 a.46.2.1,c.27.1.1 100505,100506 1dhs 344 1.27e+01 1dhs c.31.1.1 31727 1yn8A 59 1.29e+01 1hl9A 449 1.38e+01 b.71.1.3,c.1.8.11 90650,90651 153l 185 1.39e+01 153l d.2.1.5 36984 1i4jA 110 1.39e+01 d.55.1.1 76734 1udg 244 1.42e+01 3eugA c.18.1.1 31016 3il8 72 1.45e+01 1tvxA d.9.1.1 37356 1zk8A 183 1.47e+01 1dvh 79 1.51e+01 1c53 a.3.1.1 15802 1be9A 119 1.53e+01 1pdr b.36.1.1 24774 1cr6B 554 1.56e+01 1cr6B c.69.1.11,c.108.1.2 34688,43338 1il8A 72 1.56e+01 1tvxA d.9.1.1 37365 2cu6A 103 1.58e+01 1jgtA 513 1.61e+01 c.26.2.1,d.153.1.1 66684,66685 1g26A 31 1.64e+01 1g26A g.3.16.1 44381 1xhbA 472 1.65e+01 1wyuB 474 1.66e+01 1hl8A 449 1.69e+01 b.71.1.3,c.1.8.11 90646,90647 1m1zA 513 1.69e+01 c.26.2.1,d.153.1.1 78457,78458 1vquA 374 1.73e+01 1pgl2 370 1.77e+01 2ajrA 331 1.83e+01 1aty 79 1.85e+01 1aty j.35.1.1 46259 1gw5A 621 1.86e+01 a.118.1.10 70629 1vg5A 73 1.91e+01 1bxeA 113 1.93e+01 1bxeA d.55.1.1 38898 2dvh 79 2.08e+01 1c53 a.3.1.1 15803 1w97L 246 2.13e+01 2c9aA 259 2.18e+01 1pdr 99 2.23e+01 1pdr b.36.1.1 24771 1k1vA 41 2.25e+01 a.37.1.1 71999 1uteA 313 2.25e+01 1uteA d.159.1.1 42078 1el6A 219 2.26e+01 1el6B d.182.1.1 42606 1eu1A 780 2.27e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1agrE 205 2.27e+01 1agrE a.91.1.1 18538 1el6B 219 2.34e+01 1el6B d.182.1.1 42607 1xbbA 291 2.37e+01 1a12A 413 2.43e+01 1a12A b.69.5.1 27663 2azpA 318 2.51e+01 1v9nA 360 2.61e+01 1cm7A 363 2.73e+01 1cnzA c.77.1.1 35063 1mmiA 366 2.77e+01 d.131.1.1,d.131.1.1,d.131.1.1 91309,91310,91311 1h6kX 97 2.81e+01 d.58.7.1 60684 1k1gA 131 2.94e+01 d.51.1.1 68015 1nh9A 87 2.97e+01 d.68.6.1 91878 2gwgA 350 3.11e+01 2c2nA 339 3.13e+01 1ek1A 554 3.13e+01 1cr6B c.69.1.11,c.108.1.2 34685,43335 1sjdA 368 3.15e+01 c.1.11.2,d.54.1.1 105632,105633 1uwdA 103 3.19e+01 1s7zA 117 3.20e+01 a.159.3.1 98715 1h6kZ 98 3.29e+01 d.58.7.1 60686 1tuc 63 3.30e+01 1tuc b.34.2.1 24492 1u04A 771 3.34e+01 b.34.14.1,c.55.3.10 107539,107540 1l0qA 391 3.38e+01 b.1.3.1,b.69.2.3 77644,77645 1cqzA 554 3.39e+01 1cr6B c.69.1.11,c.108.1.2 34689,43339 1eh9A 558 3.45e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21858,27785,28772 1tie 172 3.49e+01 1wba b.42.4.1 25592 1xreA 217 3.53e+01 1w2lA 99 3.58e+01 1pp7U 131 3.59e+01 a.4.5.44 94973 1m3qA 317 3.60e+01 a.96.1.3,d.129.1.2 91184,91185 1xjdA 345 3.61e+01 1oo4A 111 3.68e+01 d.93.1.1 87185 1pujA 282 3.68e+01 c.37.1.8 88294 1sazA 381 3.69e+01 1yixA 265 3.73e+01 1bmv2 374 3.75e+01 1bmv2 1np7A 489 3.76e+01 a.99.1.1,c.28.1.1 80677,80678 1sro 76 3.77e+01 1sro b.40.4.5 25327 2bzpA 226 3.83e+01 1ok7A 366 3.90e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 2ac3A 316 3.91e+01 1wp1A 474 3.91e+01 1agp 166 3.91e+01 1ctqA c.37.1.8 31985 1ko9A 345 3.94e+01 a.96.1.3,d.129.1.2 68717,68718 9pap 212 4.00e+01 1cs8A d.3.1.1 37006 2itg 163 4.01e+01 1b9dA c.55.3.2 33669 2bv2A 83 4.01e+01 2cioA 212 4.06e+01 1khqA 212 4.08e+01 d.3.1.1 90964 1vhxA 150 4.10e+01 c.55.3.8 100712 1r9kA 172 4.10e+01 a.168.1.1 104869 1shg 62 4.14e+01 1ckaA b.34.2.1 24493 2bjdA 101 4.14e+01 1ppn 212 4.15e+01 1cs8A d.3.1.1 37004 1th1C 179 4.17e+01 1xnpA 202 4.19e+01 1dnpA 471 4.22e+01 1qnf a.99.1.1,c.28.1.1 18775,31630 2fdbM 164 4.25e+01 2polA 366 4.25e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 1i2tA 61 4.27e+01 1i2tA a.144.1.1 61582 2au5A 139 4.40e+01 2ac5A 316 4.45e+01 1pwt 61 4.48e+01 1tud b.34.2.1 24490 1vzoA 355 4.49e+01 d.144.1.7 108971 1l2uA 245 4.51e+01 c.1.2.3 73516 1dmmA 131 4.52e+01 1opy d.17.4.3 38114 1lnsA 763 4.52e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 2ak3A 226 4.53e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1zirA 173 4.60e+01 5p21 166 4.60e+01 1ctqA c.37.1.8 31966 1q15A 503 4.67e+01 c.26.2.1,d.153.1.1 95538,95539 1wqjB 80 4.68e+01 1akz 223 4.83e+01 3eugA c.18.1.1 31007 1ea2A 131 4.83e+01 d.17.4.3 64860 1zkkA 167 4.87e+01 3nodB 423 4.92e+01 1nseA d.174.1.1 42513 1qahA 136 4.92e+01 d.79.1.1 96338 1ztuA 341 4.94e+01 1kx5B 102 4.94e+01 a.22.1.1 77594 1tp5A 119 4.95e+01 1s7iA 124 4.97e+01 d.58.4.9 105353 1lwyA 324 5.07e+01 a.96.1.3,d.129.1.2 78285,78286 1v30A 124 5.22e+01 1dd3C 32 5.28e+01 1dd3C a.108.1.1 19033 1bw0A 416 5.35e+01 1bw0A c.67.1.1 34385 1opy 131 5.36e+01 1opy d.17.4.3 38113 1x65A 89 5.44e+01 1jfmA 174 5.46e+01 d.19.1.1 66640 1a5dA 173 5.48e+01 1amm b.11.1.1,b.11.1.1 23614,23615 1gngX 39 5.53e+01 1hkvA 453 5.59e+01 b.49.2.3,c.1.6.1 83559,83560 2a19B 284 5.60e+01 1a7hA 86 5.62e+01 1amm b.11.1.1 23600 1axn 323 5.65e+01 1avc a.65.1.1 18149 2sniI 83 5.69e+01 2sniI d.40.1.1 38573 1ciqA 40 5.77e+01 2sniI d.40.1.1 38576 2fe5A 94 5.81e+01 1irk 306 5.91e+01 1fmk d.144.1.7 41703 1pinA 163 5.95e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 2bkyA 97 6.06e+01 1tufA 434 6.13e+01 b.49.2.3,c.1.6.1 107335,107336 1h0xA 100 6.20e+01 d.68.6.1 76451 1griA 217 6.30e+01 1griA b.34.2.1,b.34.2.1,d.93.1.1 24531,24532,40473 1r6dA 337 6.32e+01 c.2.1.2 97148 1ebmA 317 6.36e+01 1ebmA a.96.1.3,d.129.1.2 18751,41300 2aa4A 289 6.47e+01 1uj0A 62 6.52e+01 b.34.2.1 99449 1woyA 500 6.54e+01 1h2vZ 156 6.58e+01 d.58.7.1 76595 1mnmC 87 6.61e+01 1akhB a.4.1.1 15983 821p 166 6.61e+01 1ctqA c.37.1.8 31969 2axwA 134 6.69e+01 4eugA 229 6.70e+01 3eugA c.18.1.1 31019 1xd3A 230 6.73e+01 1h4aX 173 6.76e+01 b.11.1.1,b.11.1.1 83479,83480 3eugA 229 6.78e+01 3eugA c.18.1.1 31018 1aii 323 6.80e+01 1avc a.65.1.1 18150 1fc6A 388 6.80e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 4gcr 174 6.83e+01 1amm b.11.1.1,b.11.1.1 23589,23590 1y43A 39 6.85e+01 1amm 174 6.89e+01 1amm b.11.1.1,b.11.1.1 23587,23588 1coaI 64 6.89e+01 2sniI d.40.1.1 38574 2b1xA 470 6.90e+01 1v3vA 333 6.91e+01 b.35.1.2,c.2.1.1 108345,108346 1e3pA 757 7.00e+01 1e3hA a.4.9.1,b.40.4.5,d.14.1.4,d.14.1.4,d.52.3.1,d.101.1.1,d.101.1.1 16258,25328,37574,37575,38811,40697,40698 1u2eA 289 7.02e+01 1khoA 370 7.03e+01 a.124.1.1,b.12.1.3 72489,72490 2evwX 166 7.03e+01 1vajA 214 7.05e+01 1eugA 229 7.07e+01 3eugA c.18.1.1 31021 1pvyA 227 7.14e+01 d.115.1.2 95195 2f2gA 221 7.25e+01 1b2tA 77 7.28e+01 1dokA d.9.1.1 37440 1buuA 168 7.29e+01 1rtm1 d.169.1.1,h.1.1.1 42366,45388 1cnzA 363 7.30e+01 1cnzA c.77.1.1 35061 1q4mA 221 7.34e+01 a.132.1.3 95805 1v54G 85 7.35e+01 f.23.2.1 100328 1qbiA 454 7.39e+01 1c9uA b.68.2.1 27619 1yhvA 297 7.46e+01 1euiA 228 7.49e+01 3eugA c.18.1.1 31028 1r6wA 322 7.51e+01 c.1.11.2,d.54.1.1 97165,97166 2bhvA 246 7.54e+01 2bh1A 250 7.65e+01 1yoaA 159 7.85e+01 1xhhA 91 7.87e+01 1sxvA 172 7.88e+01 1isaA 192 7.90e+01 1avmA a.2.11.1,d.44.1.1 15731,38724 1xpjA 126 7.95e+01 1ryjA 70 8.00e+01 d.15.3.2 98104 1ivnA 190 8.00e+01 c.23.10.5 83719 1sspE 223 8.11e+01 3eugA c.18.1.1 31009 1n9bA 265 8.29e+01 e.3.1.1 85463 1ir3A 306 8.31e+01 1fmk d.144.1.7 41702 1xm9A 457 8.33e+01 1lw6I 64 8.45e+01 d.40.1.1 74294 1ctqA 166 8.45e+01 1ctqA c.37.1.8 31965 2b4gA 317 8.49e+01 1m5yA 408 8.51e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1sg4A 260 8.53e+01 1iscA 192 8.55e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1dd3A 128 8.59e+01 1dd3C a.108.1.1,d.45.1.1 19031,38760 1awcA 110 8.68e+01 1awcA a.4.5.21 16167 1twiA 434 8.89e+01 b.49.2.3,c.1.6.1 107399,107400 2fqmA 75 8.92e+01 1a91 79 8.94e+01 1a91 f.17.1.1 43635