# 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 1ucsA 64 1.76e-03 b.85.1.1 88466 1msi 70 5.49e-03 1msi b.85.1.1 28281 1hg7A 66 7.83e-03 1msi b.85.1.1 28280 1c89A 134 1.10e-02 1msi b.85.1.1 28314 b.85.1.1 28315 1dgqA 188 4.61e-01 1ido c.62.1.1 34131 1bo4B 168 5.70e-01 1bo4A d.108.1.1 40799 1lfaA 187 5.88e-01 1ido c.62.1.1 34122 1trrA 107 1.04e+00 1jhgA a.4.12.1 19017 1mjnA 179 1.05e+00 c.62.1.1 79210 2wrpR 107 1.13e+00 1jhgA a.4.12.1 19010 1rcsA 105 1.17e+00 1jhgA a.4.12.1 19025 1r1uA 106 1.22e+00 1jhgA 101 1.59e+00 1jhgA a.4.12.1 19009 2sas 185 1.94e+00 2sas a.39.1.5 17258 1jsxA 207 2.09e+00 c.66.1.20 71846 1c0pA 363 2.49e+00 1an9A c.4.1.2 30647 d.16.1.3 37934 1jbaA 204 2.87e+00 1rec a.39.1.5 17330 1klqA 197 3.18e+00 d.135.1.1 68689 1ml9A 302 3.21e+00 b.85.7.1 79282 1dujA 187 3.40e+00 1dujA d.135.1.1 41449 1bo4A 168 3.72e+00 1bo4A d.108.1.1 40798 1js8A 394 3.88e+00 a.86.1.1 67219 b.112.1.1 67220 1tfaA 329 4.22e+00 1nnt c.94.1.2 35880 1nftA 329 4.47e+00 1nnt c.94.1.2 35881 1pcfA 66 4.65e+00 1pcfA d.18.1.1 38142 1oapA 109 6.10e+00 unknown_sccs -10428 1n7kA 234 6.54e+00 c.1.10.1 85374 1plr 258 6.57e+00 1plq d.131.1.2 41390 d.131.1.2 41391 1jqlB 140 6.71e+00 c.37.1.20 63234 1eriA 276 6.75e+00 1ckqA c.52.1.1 33231 1ido 192 7.10e+00 1ido c.62.1.1 34139 1lg2A 365 7.40e+00 c.1.8.5 77950 d.26.3.1 77951 1go4A 205 7.42e+00 d.135.1.1 70292 1hkkA 364 7.44e+00 c.1.8.5 -5384 d.26.3.1 -9506 1jlm 192 7.74e+00 1ido c.62.1.1 34140 1mf7A 194 7.76e+00 c.62.1.1 84937 1amx 180 7.99e+00 1amx b.2.3.1 22410 1oaoA 674 8.19e+00 e.26.1.2 86744 1vjeA 166 8.29e+00 d.185.1.2 -10261 1innA 166 8.31e+00 1j98A d.185.1.2 62608 1cl8A 276 8.33e+00 1ckqA c.52.1.1 33230 1ckqA 276 8.35e+00 1ckqA c.52.1.1 33229 1rqlA 267 8.78e+00 c.108.1.3 -6814 1v6sA 390 9.09e+00 c.86.1.1 -8567 1cnpA 90 1.00e+01 4icb a.39.1.2 17161 1ffkL 115 1.12e+01 1ffkL c.12.1.1 30881 1bxiB 134 1.16e+01 1bxiB d.4.1.1 37136 1fezA 256 1.24e+01 1fezA c.108.1.3 43343 1o6uA 403 1.25e+01 a.5.3.1 -366 unknown_sccs -3048 c.13.1.1 -6221 1ntcA 91 1.25e+01 1ntcA unknown_sccs 19004 1o5oA 221 1.29e+01 c.61.1.1 -7954 1eb7A 323 1.32e+01 1eb7A a.3.1.5 59404 a.3.1.5 59405 1mpgA 282 1.37e+01 1mpgA a.96.1.3 18747 d.129.1.2 41296 9ldtA 332 1.38e+01 3ldh c.2.1.5 30154 d.162.1.1 42121 2btfA 375 1.41e+01 1yagA c.55.1.1 33429 c.55.1.1 33430 1rv3A 483 1.42e+01 1tk1A 260 1.48e+01 1rh5B 74 1.63e+01 unknown_sccs -12198 1ji0A 240 1.65e+01 c.37.1.12 71665 4rhv3 236 1.66e+01 1aym3 1f4qA 165 1.67e+01 1alvA a.39.1.8 17360 1nq7A 244 1.67e+01 a.123.1.1 -1682 1lj5A 379 1.71e+01 e.1.1.1 73928 1s72O 116 1.72e+01 1n83A 270 1.72e+01 a.123.1.1 80276 1v5xA 203 1.76e+01 c.1.2.4 -5169 1k4wA 252 1.77e+01 a.123.1.1 72068 1jj2N 115 1.83e+01 1ffkL c.12.1.1 63099 1lizA 136 1.84e+01 1jmeA 455 1.85e+01 a.104.1.1 66885 1ozjA 144 1.86e+01 d.164.1.1 -11537 1nnt 328 1.90e+01 1nnt c.94.1.2 35884 1emvB 134 1.94e+01 1bxiB d.4.1.1 37135 1nu4A 97 2.00e+01 d.58.7.1 80731 1fr2B 134 2.03e+01 d.4.1.1 83257 1a7cA 379 2.05e+01 1sek e.1.1.1 42660 1jfkA 134 2.06e+01 a.39.1.5 66639 1rhi3 236 2.10e+01 1aym3 1lfb 99 2.11e+01 1lfb a.4.1.1 15989 1ea1A 455 2.15e+01 1ea1A a.104.1.1 18970 1jndA 420 2.15e+01 c.1.8.5 71757 d.26.3.1 71758 1iejA 332 2.15e+01 1nnt c.94.1.2 62328 1j9bA 141 2.21e+01 c.47.1.12 66459 1qpsA 261 2.23e+01 1ckqA c.52.1.1 33234 1e9xA 455 2.23e+01 1ea1A a.104.1.1 18969 1o0xA 262 2.24e+01 d.127.1.1 80755 1h5zA 455 2.24e+01 a.104.1.1 -1456 1qhbA 596 2.26e+01 1qhbA a.111.1.2 19055 1itzA 675 2.32e+01 c.36.1.6 76798 c.36.1.10 76797 c.48.1.1 76799 1iysA 262 2.36e+01 e.3.1.1 -11760 1i7gA 287 2.36e+01 a.123.1.1 71121 1u13A 455 2.37e+01 1n9lA 109 2.37e+01 d.110.3.6 85468 1kliL 69 2.40e+01 g.3.11.1 77436 1g19A 350 2.41e+01 2reb c.37.1.11 32284 d.48.1.1 38770 1giqA 413 2.45e+01 d.166.1.1 76224 d.166.1.1 76225 1jfvA 131 2.47e+01 c.44.1.1 66654 1r0wA 286 2.52e+01 c.37.1.12 -7158 1nw3A 416 2.54e+01 c.66.1.31 86288 1iw7C 1119 2.60e+01 e.29.1.1 71474 1ao0A 459 2.62e+01 1ecfB c.61.1.1 34049 d.153.1.1 41816 1bu7A 455 2.62e+01 1bu7A a.104.1.1 18937 1a3aC 148 2.66e+01 1a3aA d.112.1.1 40919 1d4xA 375 2.69e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1o1fC 147 2.74e+01 i.15.1.1 80997 1jbuL 63 2.75e+01 1hcgB g.3.11.1 62857 1io2A 213 2.79e+01 1ekeA c.55.3.1 62612 1qwiA 143 2.82e+01 d.227.1.1 -11183 1h8eG 272 2.84e+01 1e79G c.49.2.1 60756 4pgaA 337 2.90e+01 4pgaA c.88.1.1 35565 1ivnA 190 2.90e+01 c.23.10.5 83719 1cvwL 55 2.92e+01 1hcgB g.3.11.1 44211 2bmhA 455 2.94e+01 1bu7A a.104.1.1 18941 1p5dX 463 3.03e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1k2yX 463 3.04e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1bza 262 3.04e+01 1btl e.3.1.1 42701 1ryt 190 3.06e+01 1ryt a.25.1.1 16646 g.41.5.1 45245 1dvbA 191 3.07e+01 1ryt a.25.1.1 16645 g.41.5.1 45244 1ex1A 605 3.12e+01 1ex1A c.1.8.7 29013 c.23.11.1 31347 2lfb 100 3.14e+01 1lfb a.4.1.1 15990 2mysB 166 3.17e+01 1wdcB a.39.1.5 17308 1plq 258 3.22e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1qu1A 155 3.23e+01 1qu1A h.3.1.1 45670 1mhdA 132 3.26e+01 1mhdA d.164.1.1 42175 1dik 874 3.30e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1k94A 165 3.31e+01 a.39.1.8 68333 1s6cA 183 3.32e+01 a.39.1.5 -858 1aym3 238 3.36e+01 1aym3 1iexA 605 3.44e+01 c.1.8.7 66127 c.23.11.1 66128 1gp1A 198 3.46e+01 1gp1A c.47.1.10 33059 1iyoA 262 3.47e+01 e.3.1.1 76970 1nzoA 363 3.59e+01 b.105.1.1 -2933 e.3.1.1 -11784 1ew6A 137 3.60e+01 1ewaA a.1.1.2 15637 1ewaA 137 3.60e+01 1ewaA a.1.1.2 15639 1qz5A 375 3.67e+01 c.55.1.1 -7590 c.55.1.1 -7591 1fslA 143 3.70e+01 2gdm a.1.1.2 15229 1gg3A 279 3.74e+01 1ef1A a.11.2.1 16372 b.55.1.5 27007 d.15.1.4 37615 1a3aA 148 3.84e+01 1a3aA d.112.1.1 40917 3ullA 132 3.86e+01 3ullA b.40.4.3 25282 1jzuA 157 3.98e+01 b.60.1.1 84271