# 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 1ihrA 76 2.09e-14 1ihrA d.212.1.2 62392 1lr0A 129 6.91e-06 d.212.1.1 74213 1obpA 159 2.16e-02 1obpA b.60.1.1 27092 1hn2A 159 2.37e-02 b.60.1.1 65890 1gt1A 159 2.38e-02 b.60.1.1 -4436 1a99A 344 1.28e-01 1pot c.94.1.1 35812 1f5mA 180 1.04e+00 1f5mB d.110.2.1 40895 1f5mB 180 1.37e+00 1f5mB d.110.2.1 40896 1pmmA 466 3.41e+00 c.67.1.6 -8159 1iow 306 3.69e+00 1iow c.30.1.2 31713 d.142.1.1 41481 1b6sA 355 4.21e+00 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1b6rA 355 4.22e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1aisA 182 4.30e+00 1ytbA d.129.1.1 41288 d.129.1.1 41289 1e2wA 251 4.67e+00 1hcz b.2.6.1 22466 b.84.2.2 28252 1vk8A 106 5.56e+00 1js3A 486 5.84e+00 c.67.1.6 67215 1orc 71 6.08e+00 1orc a.35.1.2 17054 1ri6A 343 6.11e+00 unknown_sccs -4621 1lci 550 6.67e+00 1lci e.23.1.1 43349 1dkxA 219 6.70e+00 1dkzA unknown_sccs -446 unknown_sccs -3061 1hqz9 141 6.82e+00 1dkzA 219 6.93e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1h7zA 194 7.32e+00 1qhvA b.21.1.1 60733 1h3iA 293 7.96e+00 b.76.2.1 76635 b.85.7.1 76636 1rtqA 299 8.26e+00 c.56.5.4 -7864 1h8uA 117 8.69e+00 1h8uA d.169.1.1 60793 1lrzA 426 8.74e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1h77A 605 9.07e+00 2dln 306 9.13e+00 1iow c.30.1.2 31715 d.142.1.1 41483 1qftA 175 9.36e+00 1qftA b.60.1.1 27151 1udsA 255 1.06e+01 d.14.1.4 -9055 d.101.1.1 -10745 1mogA 67 1.06e+01 d.230.2.1 85034 1jx2B 315 1.06e+01 c.37.1.8 67404 1ffkI 194 1.08e+01 1ffkI d.12.1.2 37494 1n6zA 105 1.10e+01 unknown_sccs 85369 1a78A 134 1.16e+01 1c1lA b.29.1.3 24212 1iwgA 1053 1.18e+01 d.58.44.1 76874 d.58.44.1 76875 d.58.44.1 76876 d.58.44.1 76877 d.225.1.1 76878 d.225.1.1 76879 f.35.1.1 76880 f.35.1.1 76881 1cpzA 68 1.18e+01 1aw0 d.58.17.1 39351 1bpr 191 1.26e+01 1dkzA unknown_sccs 43319 1m1hA 248 1.27e+01 b.114.1.1 78415 d.58.42.1 78416 1o0uA 429 1.31e+01 c.118.1.1 80743 1jj2L 194 1.34e+01 1ffkI d.12.1.2 63097 1mp9A 198 1.38e+01 a.74.1.2 -1127 a.74.1.2 -1128 119l 164 1.49e+01 1l92 d.2.1.3 36622 1v2yA 105 1.51e+01 d.15.1.1 -9148 1l92 164 1.51e+01 1l92 d.2.1.3 36629 1k28A 584 1.53e+01 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1hqz1 141 1.54e+01 1oygA 447 1.58e+01 unknown_sccs -4549 1gmuA 143 1.59e+01 b.107.1.1 65335 d.58.38.1 65336 1p4kA 295 1.63e+01 d.153.1.5 87772 1n6aA 259 1.66e+01 b.76.2.1 80121 b.85.7.1 80122 1dar 691 1.68e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 2bc2A 227 1.71e+01 1a7tA d.157.1.1 42031 1fnmA 691 1.71e+01 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303 1i9zA 347 1.72e+01 1i9yA d.151.1.2 62102 1i9yA 347 1.78e+01 1i9yA d.151.1.2 62101 1l58 164 1.79e+01 1l92 d.2.1.3 36635 2bc2B 227 1.82e+01 1a7tA d.157.1.1 42032 1p36A 164 1.85e+01 d.2.1.3 -8840 1lw9A 164 1.86e+01 d.2.1.3 84727 1l8rA 101 1.90e+01 a.6.1.4 73700 1di0A 158 1.96e+01 1di0A c.16.1.1 30957 1ospO 257 1.99e+01 1ospO b.76.1.1 27971 1dgsA 667 1.99e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1mt6A 280 2.03e+01 b.76.2.1 79446 b.85.7.1 79447 1k5jA 124 2.04e+01 b.121.3.1 68201 1qmvA 197 2.14e+01 1qq2A c.47.1.10 33066 2orc 71 2.14e+01 1orc a.35.1.2 17060 1h91A 180 2.19e+01 b.60.1.1 60805 1fvgA 199 2.19e+01 1fvaA d.58.28.1 39408 1fbnA 230 2.21e+01 1fbnA c.66.1.3 34181 1kt8A 365 2.22e+01 e.17.1.1 77531 1cnuA 137 2.24e+01 1cof d.109.1.2 40862 1g8sA 230 2.26e+01 c.66.1.3 -8047 1qklA 127 2.29e+01 1qklA d.78.1.2 39754 1lqbC 162 2.30e+01 b.3.3.1 74186 1fjgJ 105 2.33e+01 1fjfJ d.58.15.1 39330 1a3h 300 2.35e+01 7a3hA c.1.8.3 28819 1gr8A 412 2.49e+01 1ockA 412 2.49e+01 c.117.1.1 86802 1vjtA 483 2.49e+01 c.2.1.5 -5941 d.162.1.2 -11508 1gsoA 431 2.51e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1o1zA 234 2.55e+01 c.1.18.3 86555 1o0xA 262 2.55e+01 d.127.1.1 80755 7a3hA 303 2.57e+01 7a3hA c.1.8.3 28817 1vcbC 160 2.59e+01 1vcbC b.3.3.1 22535 2fgf 146 2.60e+01 1bfg b.42.1.1 25487 1gmwA 143 2.63e+01 b.107.1.1 65347 d.58.38.1 65348 1ih7A 903 2.64e+01 1clqA c.55.3.5 62375 e.8.1.1 62376 1h5vA 304 2.65e+01 c.1.8.3 70898 1qb5D 99 2.68e+01 b.40.2.1 88357 1ktaA 365 2.71e+01 e.17.1.1 77533 1k07A 263 2.75e+01 d.157.1.1 77218 1pkhA 204 2.77e+01 b.85.4.1 -5053 1i4uA 181 2.77e+01 b.60.1.1 61732 1kq4A 232 2.78e+01 d.207.1.1 68791 1coy 507 2.80e+01 1b8sA c.3.1.2 30333 d.16.1.1 37864 3cox 507 2.81e+01 1b8sA c.3.1.2 30332 d.16.1.1 37863 1l9fA 389 2.81e+01 c.3.1.2 73716 d.16.1.3 73717 1cm5A 759 2.81e+01 1cm5A c.7.1.1 30671 1gu7A 364 2.82e+01 b.35.1.2 83321 c.2.1.1 83322 1rvgA 305 2.84e+01 c.1.10.2 -5500 1m7gA 211 2.85e+01 c.37.1.4 78724 1dmhA 311 2.88e+01 1dmhA b.3.6.1 22633 1h16A 759 2.97e+01 c.7.1.1 76462 1amp 291 3.02e+01 1amp c.56.5.4 33837 1lokA 291 3.02e+01 c.56.5.4 78122 1lm8V 160 3.04e+01 b.3.3.1 74035 1tuhA 156 3.05e+01 3pflA 759 3.22e+01 1cm5A c.7.1.1 30673 1pylA 97 3.31e+01 1tiiD 99 3.31e+01 1tiiD b.40.2.1 24965 1gpeA 587 3.34e+01 1gpeA c.3.1.2 30387 d.16.1.1 37951 1kk1A 410 3.38e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1dgjA 907 3.39e+01 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 1mg4A 113 3.41e+01 d.15.11.1 84953 4fgf 146 3.45e+01 1bfg b.42.1.1 25486 1cx4A 305 3.50e+01 b.82.3.2 59099 b.82.3.2 59100 1bla 155 3.51e+01 1bfg b.42.1.1 25502 1agqD 135 3.55e+01 1agqA g.17.1.2 44792 1quqB 121 3.57e+01 1quqB b.40.4.3 25305 1a3yA 149 3.57e+01 1obpA b.60.1.1 27110 1ghhA 81 3.63e+01 1ghhA d.57.1.1 38940 1mqoA 227 3.65e+01 1eqnA 321 3.65e+01 1dd9A e.13.1.1 43256 1dd9A 338 3.65e+01 1dd9A e.13.1.1 43254 1jofA 365 3.67e+01 b.69.10.1 71775 1kf6A 602 3.69e+01 a.7.3.1 72394 c.3.1.4 72395 d.168.1.1 72396 1el5A 389 3.77e+01 1b3mA c.3.1.2 30369 d.16.1.3 37937 1oghA 204 3.77e+01 b.85.4.1 86994 1q48A 134 3.80e+01 unknown_sccs -9776 5croA 66 3.83e+01 1orc a.35.1.2 17044 1ddzA 496 3.91e+01 1ddzA c.53.2.1 33372 c.53.2.1 33373 1bh9B 89 3.92e+01 1bh9B a.22.1.3 16485 1jwyB 315 3.94e+01 c.37.1.8 67401 8abp 306 3.94e+01 8abp c.93.1.1 35647 1oyeA 1049 3.96e+01 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594