# List of top-scoring protein chains for t04-100-30-str2 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 1f60A 458 1.86e-01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1jnyA 435 2.34e-01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1khiA 176 4.29e-01 b.34.5.2 77408 b.40.4.5 77409 2plc 274 4.88e-01 2plc c.1.18.2 29614 1r53A 382 4.90e-01 unknown_sccs -11177 1o5uA 101 6.11e-01 b.82.1.8 -4845 1i8dA 213 7.77e-01 b.43.4.3 61953 b.43.4.3 61954 1gmmA 133 8.58e-01 b.18.1.10 65314 1e0tA 470 8.87e-01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1qcsA 211 1.03e+00 1qcsA b.52.2.3 26927 d.31.1.1 38461 1uxxX 133 1.03e+00 b.18.1.10 -3107 1oruA 195 1.18e+00 unknown_sccs -4390 1fjgD 209 1.39e+00 1c05A d.66.1.2 39553 1pfzA 380 1.44e+00 1smrA b.50.1.2 26881 1r6xA 395 1.57e+00 b.122.1.3 -5125 c.26.1.5 -6620 1i7dA 659 1.74e+00 1d6mA e.10.1.1 61886 2napA 723 1.80e+00 2napA b.52.2.2 26926 c.81.1.1 35334 1g8fA 511 2.29e+00 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1r13A 148 2.57e+00 d.169.1.1 -11646 h.1.1.1 -12895 1t62A 166 2.83e+00 1izcA 339 3.06e+00 c.1.12.5 83838 1p9kA 79 3.16e+00 unknown_sccs -10238 1ha3A 405 3.16e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 2eifA 136 3.17e+00 1bkb b.34.5.2 24607 b.40.4.5 25339 1bkb 136 3.17e+00 1bkb b.34.5.2 24609 b.40.4.5 25341 1d2eA 397 3.20e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1kzlA 208 3.74e+00 b.43.4.3 77635 b.43.4.3 77636 1eu1A 780 3.75e+00 1dmr b.52.2.2 26903 c.81.1.1 35311 1ltlA 279 3.82e+00 b.40.4.11 84701 2dpmA 284 3.85e+00 2dpmA c.66.1.28 34246 1unkA 87 4.19e+00 1cei a.28.2.1 16935 1a49A 530 4.21e+00 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1t9fA 187 4.68e+00 1nngA 153 5.24e+00 d.38.1.1 -9636 1vj0A 380 5.26e+00 b.35.1.2 -3697 c.2.1.1 -5721 1o9yA 84 5.90e+00 unknown_sccs -4105 1mjc 69 5.97e+00 1mjc b.40.4.5 25319 1mxiA 160 6.09e+00 c.116.1.1 79646 1exmA 405 6.17e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1k47A 337 6.20e+00 d.14.1.5 72040 d.58.26.4 72041 1iz6A 138 6.27e+00 b.34.5.2 76976 b.40.4.5 76977 1enfA 212 6.29e+00 3seb b.40.2.2 25198 d.15.6.1 37787 1gcqC 70 6.51e+00 1gcpA b.34.2.1 60436 1s3iA 310 6.62e+00 b.46.1.1 -4111 c.65.1.1 -8042 1fjgQ 105 6.93e+00 1fjfQ b.40.4.5 25352 1hyoA 421 6.93e+00 1qcnA b.34.8.1 59001 d.177.1.1 59002 1q1gA 276 6.97e+00 c.56.2.1 -7846 1e4fT 419 6.97e+00 1e4fT c.55.1.1 33453 c.55.1.1 33454 1i7pA 274 7.37e+00 b.43.4.2 66048 c.25.1.1 66049 1h0hA 977 7.42e+00 b.52.2.2 76435 c.81.1.1 76436 1o1zA 234 7.71e+00 c.1.18.3 86555 1hh2P 344 8.20e+00 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1vdeA 454 8.29e+00 1vdeA b.86.1.2 28378 d.95.2.2 40581 d.95.2.2 40582 1jj2S 119 8.45e+00 1ffkQ b.34.5.1 63104 1uheA 97 8.46e+00 1s72T 120 8.47e+00 1fviA 297 8.62e+00 1fviA b.40.4.6 25364 d.142.2.1 41578 1tmy 120 8.86e+00 1dbwA c.23.1.1 31083 1geqA 248 9.37e+00 2tysA c.1.2.4 28589 1ejxC 567 9.42e+00 b.92.1.1 83184 c.1.9.2 83185 1ewnA 219 9.62e+00 1bnkA b.46.1.2 25762 1uxzA 131 9.72e+00 b.18.1.10 -3110 1rzhH 260 9.81e+00 b.41.1.1 -3979 f.23.10.1 -12092 1ndh 272 9.83e+00 1ndh b.43.4.2 25662 c.25.1.1 31552 4ubpB 126 9.96e+00 1ubpB b.85.3.1 28345 1gmuA 143 1.02e+01 b.107.1.1 65335 d.58.38.1 65336 1cb0A 283 1.02e+01 1cb0A c.56.2.1 33790 1jb3A 131 1.05e+01 1jc7A b.40.3.2 62833 1gppA 237 1.10e+01 b.86.1.2 76262 1euwA 152 1.12e+01 1dupA b.85.4.1 28349 1qgvA 142 1.20e+01 1qgvA c.47.1.8 33056 1qovH 260 1.22e+01 6prcH b.41.1.1 25464 f.23.10.1 43457 1mw9X 592 1.26e+01 e.10.1.1 -11986 1aw8B 91 1.32e+01 1aw8B 1bb9 115 1.37e+01 1bb9 b.34.2.1 24554 1semA 58 1.42e+01 1ckaA b.34.2.1 24544 1b00A 127 1.43e+01 3chy c.23.1.1 31122 1qorA 327 1.44e+01 1qorA b.35.1.2 24766 c.2.1.1 29782 2cbp 96 1.45e+01 2cbp b.6.1.1 22895 1e9rA 437 1.47e+01 c.37.1.11 64827 1oc2A 348 1.47e+01 c.2.1.2 -5753 1djxB 624 1.48e+01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1db3A 372 1.48e+01 1db3A c.2.1.2 29813 1djxA 624 1.49e+01 1djxB a.39.1.7 17342 b.7.1.1 23159 c.1.18.1 29587 1kqfA 1015 1.55e+01 b.52.2.2 72871 c.81.1.1 72872 1h9sA 140 1.57e+01 1b9mA b.40.6.2 60843 b.40.6.2 60844 1c9oA 66 1.58e+01 1mjc b.40.4.5 25325 1th8A 145 1.63e+01 1hcl 298 1.64e+01 1hcl d.144.1.7 41593 1gz8A 299 1.64e+01 d.144.1.7 83405 1lylA 504 1.65e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1dm9A 133 1.67e+01 1dm9A d.66.1.3 39560 1f56A 91 1.69e+01 2cbp b.6.1.1 22896 1tuc 63 1.69e+01 1tuc b.34.2.1 24492 1v8cA 168 1.73e+01 d.15.3.1 -9175 unknown_sccs -11012 2arcA 164 1.73e+01 2arcA b.82.4.1 28148 1eljA 381 1.74e+01 4mbp c.94.1.1 35791 1s6bA 119 1.76e+01 a.133.1.2 -1953 1o7iA 119 1.81e+01 b.40.4.3 86642 1cz4A 185 1.83e+01 1cz4A b.52.2.3 26934 d.31.1.1 38468 1cei 94 1.86e+01 1cei a.28.2.1 16939 1ars 396 1.89e+01 1ajsA c.67.1.1 34287 1uzcA 71 1.89e+01 a.159.2.1 -339 1rie 129 1.91e+01 1rie b.33.1.1 24427 1pqhA 143 1.93e+01 b.52.2.1 -4318 1iw7C 1119 1.93e+01 e.29.1.1 71474 1kwaA 88 1.96e+01 1kwaA b.36.1.1 24772 1l5wA 796 1.97e+01 c.87.1.4 73605 1aonO 97 1.98e+01 b.35.1.1 24642 1ahxA 396 2.00e+01 1ajsA c.67.1.1 34293 1whi 122 2.01e+01 1whi b.39.1.1 24810 1uwwA 191 2.02e+01 1lcyA 325 2.07e+01 b.36.1.4 73834 b.47.1.1 73835 1earA 147 2.09e+01 b.107.1.1 64875 d.58.38.1 64876 1mw7A 240 2.10e+01 e.39.1.1 79557 1vioA 243 2.10e+01 unknown_sccs -10154 d.66.1.5 -10240 1hk9A 74 2.14e+01 b.38.1.2 83541 1q16A 1247 2.24e+01 b.52.2.2 -4337 c.81.1.1 -8547 1g2bA 62 2.27e+01 1tud b.34.2.1 24488 1qh5A 260 2.27e+01 1qh5A d.157.1.2 42057 1kypA 237 2.31e+01 d.22.1.1 73280 1ckaA 57 2.34e+01 1ckaA b.34.2.1 24459 1htrP 43 2.35e+01 1htrP b.50.1.2 26852 1e1oA 504 2.35e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1d1nA 99 2.36e+01 1d1nA b.43.3.1 25718 1dfuP 94 2.41e+01 1dfuP b.53.1.1 26936 1g6gA 127 2.44e+01 1g6gA b.26.1.2 23916 1n3lA 372 2.50e+01 c.26.1.1 79966 1qh3A 260 2.50e+01 1qh5A d.157.1.2 42059 1kepA 348 2.51e+01 c.2.1.2 68536 1nnxA 109 2.51e+01 unknown_sccs -3899 1jznA 135 2.54e+01 d.169.1.1 84262 1j2rA 199 2.57e+01 unknown_sccs -6799 1nykA 165 2.59e+01 b.33.1.1 86408 1ko7A 314 2.67e+01 c.98.2.1 72797 c.91.1.2 72798 1bjt 793 2.72e+01 1bjt e.11.1.1 43249 4ubpC 570 2.74e+01 1ubpC b.92.1.1 28431 c.1.9.2 29053 1pyaB 228 2.75e+01 1pyaB 1bdo 80 2.78e+01 1bdo b.84.1.1 28214 1qisA 396 2.78e+01 1ajsA c.67.1.1 34284 1e79A 510 2.79e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1se8A 301 2.82e+01 1k0hA 117 2.83e+01 b.106.1.2 71975 1j5yA 187 2.85e+01 a.4.5.1 71592 d.94.2.1 71593 1ek9A 428 2.85e+01 1ek9A f.5.1.1 43809 1qxoA 388 2.86e+01 unknown_sccs -11161 3ullA 132 2.90e+01 3ullA b.40.4.3 25282 1o54A 277 2.95e+01 c.66.1.13 -8095 1chmA 401 2.96e+01 1chmA c.55.2.1 33545 d.127.1.1 41142 1np7A 489 2.99e+01 a.99.1.1 80677 c.28.1.1 80678 1a9xB 379 3.00e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1jv2B 692 3.01e+01 b.1.15.1 67338 c.62.1.1 67339 d.200.1.1 67340 g.3.11.6 67341 g.3.11.6 67342 1bm9A 122 3.02e+01 1bm9A a.4.5.7 16116 1fvgA 199 3.09e+01 1fvaA d.58.28.1 39408 1lfjA 119 3.15e+01 1qauA 112 3.17e+01 1qauA b.36.1.1 24779 1q3oA 109 3.17e+01 b.36.1.1 -3776 1o65A 246 3.17e+01 unknown_sccs -4394 1s6bB 119 3.18e+01 a.133.1.2 -1954 1qwrA 319 3.21e+01 b.82.1.3 -4880 1mdc 133 3.25e+01 1hmt b.60.1.2 27198 1huqA 164 3.25e+01 1byuA c.37.1.8 32020 1aj8A 371 3.25e+01 1aj8A a.103.1.1 18900 1aac 105 3.26e+01 1aac b.6.1.1 22838 1v74A 107 3.34e+01 unknown_sccs -9319 1dkqA 410 3.34e+01 1dklA c.60.1.2 33998 1qwlA 505 3.41e+01 e.5.1.1 -11823 1s9rA 410 3.41e+01 unknown_sccs -10989 1odkA 235 3.46e+01 c.56.2.1 86863 1nhkL 144 3.48e+01 1npk d.58.6.1 39142 1nt4A 391 3.52e+01 c.60.1.2 -7942 1n9eA 787 3.54e+01 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1jflA 228 3.55e+01 c.78.2.1 71656 c.78.2.1 71657 1eqoA 158 3.60e+01 1hka 1lf2A 331 3.65e+01 b.50.1.2 77914 1k2xB 143 3.78e+01 1ireB 228 3.80e+01 b.34.4.4 76770 1edzA 320 3.83e+01 1ee9A c.2.1.7 30287 c.58.1.2 33935 1ccwA 137 3.84e+01 1be1 c.23.6.1 31238 1hw1A 239 3.88e+01 1e2xA a.4.5.6 16111 a.78.1.1 18441 1bxaA 105 3.90e+01 1aac b.6.1.1 22839 1kgyA 181 3.92e+01 b.18.1.4 72449