# List of top-scoring protein chains for t04-100-30-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 1e4fT 419 2.31e-01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1i8dA 213 9.13e-01 b.43.4.3 61953 b.43.4.3 61954 2plc 274 1.10e+00 2plc c.1.18.2 29614 1k47A 337 1.10e+00 d.14.1.5 72040 d.58.26.4 72041 1p9kA 79 1.46e+00 unknown_sccs -10238 1f60A 458 1.48e+00 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1e6yC 247 1.85e+00 1mroC d.58.31.1 39441 1jnyA 435 2.01e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1gmmA 133 2.04e+00 b.18.1.10 65314 1oruA 195 2.15e+00 unknown_sccs -4390 1uxxX 133 2.20e+00 b.18.1.10 -3107 1earA 147 2.37e+00 b.107.1.1 64875 d.58.38.1 64876 1fjgD 209 2.82e+00 1c05A d.66.1.2 39553 1mw7A 240 3.07e+00 e.39.1.1 79557 1qwlA 505 3.37e+00 e.5.1.1 -11823 1cei 94 3.63e+00 1cei a.28.2.1 16939 1mxiA 160 4.44e+00 c.116.1.1 79646 1o5uA 101 4.72e+00 b.82.1.8 -4845 1mp4A 292 5.17e+00 c.68.1.6 79376 1unkA 87 5.45e+00 1cei a.28.2.1 16935 1r53A 382 5.84e+00 unknown_sccs -11177 1l6oA 95 5.96e+00 b.36.1.1 84534 1pk6C 129 6.98e+00 b.22.1.1 -3293 1nngA 153 7.26e+00 d.38.1.1 -9636 1vdeA 454 7.87e+00 1vdeA b.86.1.2 28378 d.95.2.2 40581 d.95.2.2 40582 1k0hA 117 8.56e+00 b.106.1.2 71975 1gmuA 143 9.48e+00 b.107.1.1 65335 d.58.38.1 65336 1uheA 97 9.87e+00 1mdc 133 1.02e+01 1hmt b.60.1.2 27198 2dpmA 284 1.11e+01 2dpmA c.66.1.28 34246 1gcqC 70 1.16e+01 1gcpA b.34.2.1 60436 1t62A 166 1.17e+01 1s6bA 119 1.25e+01 a.133.1.2 -1953 2cbp 96 1.28e+01 2cbp b.6.1.1 22895 1dkqA 410 1.28e+01 1dklA c.60.1.2 33998 1d2eA 397 1.29e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1db3A 372 1.33e+01 1db3A c.2.1.2 29813 1eemA 241 1.33e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 1ltlA 279 1.33e+01 b.40.4.11 84701 1kepA 348 1.35e+01 c.2.1.2 68536 1khiA 176 1.36e+01 b.34.5.2 77408 b.40.4.5 77409 1d1nA 99 1.41e+01 1d1nA b.43.3.1 25718 1t9fA 187 1.49e+01 1e0tA 470 1.51e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 2napA 723 1.51e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1qcsA 211 1.56e+01 1qcsA b.52.2.3 26927 d.31.1.1 38461 1semA 58 1.57e+01 1ckaA b.34.2.1 24544 1v74A 107 1.60e+01 unknown_sccs -9319 4ubpB 126 1.61e+01 1ubpB b.85.3.1 28345 1pfzA 380 1.64e+01 1smrA b.50.1.2 26881 1uzcA 71 1.69e+01 a.159.2.1 -339 1nykA 165 1.77e+01 b.33.1.1 86408 1r6xA 395 1.84e+01 b.122.1.3 -5125 c.26.1.5 -6620 1ac5 483 1.85e+01 1ac5 c.69.1.5 34653 1j2rA 199 1.86e+01 unknown_sccs -6799 1aj8A 371 1.87e+01 1aj8A a.103.1.1 18900 1aiu 105 1.87e+01 1erv c.47.1.1 32746 1izcA 339 1.97e+01 c.1.12.5 83838 1ewnA 219 1.98e+01 1bnkA b.46.1.2 25762 1g8fA 511 2.03e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1mv3A 213 2.05e+01 b.34.2.1 -3555 1nw2A 105 2.09e+01 c.47.1.1 -7380 1iz6A 138 2.10e+01 b.34.5.2 76976 b.40.4.5 76977 1fjgQ 105 2.11e+01 1fjfQ b.40.4.5 25352 1uxzA 131 2.13e+01 b.18.1.10 -3110 1lfjA 119 2.14e+01 1f56A 91 2.15e+01 2cbp b.6.1.1 22896 1okcA 297 2.18e+01 unknown_sccs -12339 1vioA 243 2.36e+01 unknown_sccs -10154 d.66.1.5 -10240 1eqcA 394 2.37e+01 1cz1A c.1.8.3 28811 1erv 105 2.43e+01 1erv c.47.1.1 32743 1nt4A 391 2.43e+01 c.60.1.2 -7942 1eqoA 158 2.43e+01 1hka 1l7yA 94 2.44e+01 d.15.1.6 73676 1f9yA 158 2.50e+01 d.58.30.1 83249 1qgvA 142 2.55e+01 1qgvA c.47.1.8 33056 1gtmA 419 2.74e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1fviA 297 2.74e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 1h0hA 977 2.77e+01 b.52.2.2 76435 c.81.1.1 76436 1lcyA 325 2.81e+01 b.36.1.4 73834 b.47.1.1 73835 1a0fA 201 2.83e+01 1a0fA a.45.1.1 17737 c.47.1.5 33031 1np7A 489 2.84e+01 a.99.1.1 80677 c.28.1.1 80678 1hyoA 421 2.86e+01 1qcnA b.34.8.1 59001 d.177.1.1 59002 1qovH 260 2.86e+01 6prcH b.41.1.1 25464 f.23.10.1 43457 1n2aA 201 2.86e+01 a.45.1.1 -938 c.47.1.5 -7463 1rzhH 260 2.87e+01 b.41.1.1 -3979 f.23.10.1 -12092 1ecrA 309 2.89e+01 1ecrA e.2.1.1 42678 1euwA 152 2.90e+01 1dupA b.85.4.1 28349 1o5zA 442 2.93e+01 c.59.1.2 -7939 c.72.2.2 -8418 1oc2A 348 2.96e+01 c.2.1.2 -5753 1th8A 145 2.96e+01 1bb9 115 2.97e+01 1bb9 b.34.2.1 24554 1oh0A 131 3.01e+01 d.17.4.3 87004 1q7hA 153 3.04e+01 b.122.1.1 -5124 unknown_sccs -9313 1hh2P 344 3.13e+01 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1ixlA 131 3.15e+01 d.38.1.5 -9705 1fxoA 293 3.16e+01 1g0rA c.68.1.6 34524 1pmi 440 3.18e+01 1pmi b.82.1.3 28114 1enfA 212 3.19e+01 3seb b.40.2.2 25198 d.15.6.1 37787 1g2bA 62 3.32e+01 1tud b.34.2.1 24488 1uq5A 263 3.48e+01 d.165.1.1 -11555 1m93A 55 3.49e+01 e.1.1.1 -11751 1e2tA 284 3.55e+01 1e2tA d.3.1.5 37121 1ckaA 57 3.65e+01 1ckaA b.34.2.1 24459 1qorA 327 3.68e+01 1qorA b.35.1.2 24766 c.2.1.1 29782 1nzyA 269 3.69e+01 1nzyA c.14.1.3 30903 1ift 263 3.69e+01 1mrj d.165.1.1 42211 1v5lA 103 3.75e+01 1rec 201 3.89e+01 1rec a.39.1.5 17326