# 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 2dpmA 284 7.97e-02 2dpmA c.66.1.28 34246 1i18A 97 2.86e-01 b.43.4.3 61520 1v74A 107 4.83e-01 unknown_sccs -9319 1i8dA 213 5.92e-01 b.43.4.3 61953 b.43.4.3 61954 1jnyA 435 6.64e-01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1f60A 458 8.22e-01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1liuA 528 8.76e-01 b.58.1.1 77970 c.1.12.1 77971 c.49.1.1 77972 1ltlA 279 8.81e-01 b.40.4.11 84701 1oruA 195 1.01e+00 unknown_sccs -4390 1eb0A 147 1.31e+00 b.107.1.1 64890 d.58.38.1 64891 1fjgD 209 1.64e+00 1c05A d.66.1.2 39553 1db3A 372 1.93e+00 1db3A c.2.1.2 29813 1qwlA 505 1.99e+00 e.5.1.1 -11823 1earA 147 2.26e+00 b.107.1.1 64875 d.58.38.1 64876 1mxiA 160 2.28e+00 c.116.1.1 79646 1e6yC 247 2.34e+00 1mroC d.58.31.1 39441 1l7yA 94 2.39e+00 d.15.1.6 73676 1cof 143 2.74e+00 1cof d.109.1.2 40860 1e0tA 470 2.82e+00 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1k0hA 117 3.67e+00 b.106.1.2 71975 1l6oA 95 3.76e+00 b.36.1.1 84534 1eqoA 158 3.76e+00 1hka 1f9yA 158 3.84e+00 d.58.30.1 83249 1cei 94 3.96e+00 1cei a.28.2.1 16939 1nngA 153 4.05e+00 d.38.1.1 -9636 1pzwA 80 4.14e+00 unknown_sccs -12740 1uheA 97 4.18e+00 1ksfX 758 4.19e+00 a.174.1.1 77522 c.37.1.20 77523 c.37.1.20 77524 1iqoA 88 5.02e+00 d.214.1.1 71277 1p9kA 79 5.48e+00 unknown_sccs -10238 1fa4A 105 5.81e+00 1plc b.6.1.1 22867 1hka 158 5.81e+00 1hka d.58.30.1 39433 1o5uA 101 5.98e+00 b.82.1.8 -4845 1unkA 87 6.41e+00 1cei a.28.2.1 16935 1gmwA 143 6.41e+00 b.107.1.1 65347 d.58.38.1 65348 1q16A 1247 6.48e+00 b.52.2.2 -4337 c.81.1.1 -8547 1pmi 440 6.83e+00 1pmi b.82.1.3 28114 1h40A 71 7.14e+00 1uzcA 71 7.16e+00 a.159.2.1 -339 2cbp 96 7.32e+00 2cbp b.6.1.1 22895 1mp4A 292 7.42e+00 c.68.1.6 79376 1b54 257 7.47e+00 1ct5A c.1.6.2 28664 2plc 274 7.85e+00 2plc c.1.18.2 29614 1ct5A 256 7.86e+00 1ct5A c.1.6.2 28663 1cfyA 143 7.99e+00 1cof d.109.1.2 40858 1lcyA 325 8.16e+00 b.36.1.4 73834 b.47.1.1 73835 1kqfA 1015 8.17e+00 b.52.2.2 72871 c.81.1.1 72872 1e4fT 419 8.18e+00 1e4fT c.55.1.1 33453 c.55.1.1 33454 1hh2P 344 8.19e+00 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1h5rA 293 8.42e+00 c.68.1.6 65623 1t82A 155 8.50e+00 2napA 723 8.81e+00 2napA b.52.2.2 26926 c.81.1.1 35334 1mg4A 113 9.09e+00 d.15.11.1 84953 1shg 62 9.34e+00 1ckaA b.34.2.1 24493 1gmuA 143 9.35e+00 b.107.1.1 65335 d.58.38.1 65336 1nw2A 105 9.96e+00 c.47.1.1 -7380 1pwt 61 9.96e+00 1tud b.34.2.1 24490 1e1xA 299 9.97e+00 1hcl d.144.1.7 59157 1r6xA 395 1.14e+01 b.122.1.3 -5125 c.26.1.5 -6620 1semA 58 1.19e+01 1ckaA b.34.2.1 24544 1pk6C 129 1.32e+01 b.22.1.1 -3293 1ky9B 448 1.35e+01 b.36.1.4 73200 b.36.1.4 73201 b.47.1.1 73202 1iz6A 138 1.36e+01 b.34.5.2 76976 b.40.4.5 76977 1dklA 410 1.37e+01 1dklA c.60.1.2 33996 1khiA 176 1.40e+01 b.34.5.2 77408 b.40.4.5 77409 1h0hA 977 1.40e+01 b.52.2.2 76435 c.81.1.1 76436 1pkn 530 1.46e+01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1qorA 327 1.49e+01 1qorA b.35.1.2 24766 c.2.1.1 29782 1udzA 182 1.53e+01 b.51.1.1 -4307 1mdiA 105 1.57e+01 1erv c.47.1.1 32755 1s6bA 119 1.59e+01 a.133.1.2 -1953 1jdbB 1073 1.67e+01 a.92.1.1 18574 c.24.1.1 31503 c.30.1.1 31705 c.30.1.1 31706 d.142.1.2 41550 d.142.1.2 41551 1irk 306 1.68e+01 1fmk d.144.1.7 41703 1rie 129 1.77e+01 1rie b.33.1.1 24427 1nykA 165 1.78e+01 b.33.1.1 86408 1g0rA 293 1.81e+01 1g0rA c.68.1.6 34532 1eg7A 557 1.81e+01 1eg7A c.37.1.10 32241 1qrrA 394 1.82e+01 1qrrA c.2.1.2 29824 2vik 126 1.83e+01 2vil d.109.1.1 40829 1dkqA 410 1.84e+01 1dklA c.60.1.2 33998 1mv3A 213 1.84e+01 b.34.2.1 -3555 1im4A 221 1.85e+01 unknown_sccs 62581 1cs0C 1073 1.85e+01 a.92.1.1 18559 c.24.1.1 31488 c.30.1.1 31675 c.30.1.1 31676 d.142.1.2 41520 d.142.1.2 41521 1mpyA 307 1.87e+01 1mpyA d.32.1.3 38508 d.32.1.3 38509 1keeE 1073 1.91e+01 a.92.1.1 68508 c.24.1.1 68509 c.30.1.1 68510 c.30.1.1 68511 d.142.1.2 68512 d.142.1.2 68513 1hcl 298 1.96e+01 1hcl d.144.1.7 41593 1g2bA 62 1.98e+01 1tud b.34.2.1 24488 1pmaP 211 2.00e+01 1pmaP d.153.1.4 41863 1o9rA 162 2.00e+01 a.25.1.1 86706 1ixlA 131 2.02e+01 d.38.1.5 -9705 1c3oC 1073 2.03e+01 a.92.1.1 18563 c.24.1.1 31492 c.30.1.1 31683 c.30.1.1 31684 d.142.1.2 41528 d.142.1.2 41529 1jvpP 298 2.03e+01 d.144.1.7 67371 7catA 506 2.04e+01 1cf9A e.5.1.1 42781 1eu1A 780 2.05e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1vdeA 454 2.09e+01 1vdeA b.86.1.2 28378 d.95.2.2 40581 d.95.2.2 40582 1fviA 297 2.09e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 1d1nA 99 2.10e+01 1d1nA b.43.3.1 25718 1keeA 1073 2.13e+01 a.92.1.1 68492 c.24.1.1 68493 c.30.1.1 68494 c.30.1.1 68495 d.142.1.2 68496 d.142.1.2 68497 1i24A 404 2.14e+01 c.2.1.2 83663 1gz8A 299 2.17e+01 d.144.1.7 83405 1c3oE 1073 2.19e+01 a.92.1.1 18564 c.24.1.1 31493 c.30.1.1 31685 c.30.1.1 31686 d.142.1.2 41530 d.142.1.2 41531 1n9eA 787 2.20e+01 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1g8fA 511 2.24e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1nt4A 391 2.26e+01 c.60.1.2 -7942 1ir3A 306 2.27e+01 1fmk d.144.1.7 41702 1izcA 339 2.28e+01 c.1.12.5 83838 1tud 62 2.29e+01 1tud b.34.2.1 24489 1c3oA 1073 2.30e+01 1c3oA a.92.1.1 18562 c.24.1.1 31491 c.30.1.1 31681 c.30.1.1 31682 d.142.1.2 41526 d.142.1.2 41527 1np7A 489 2.38e+01 a.99.1.1 80677 c.28.1.1 80678 1a49A 530 2.39e+01 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1ijaA 148 2.40e+01 1ijaA b.100.1.1 62484 1q1gA 276 2.44e+01 c.56.2.1 -7846 1bb9 115 2.46e+01 1bb9 b.34.2.1 24554 1o13A 136 2.47e+01 c.55.5.1 80762 1d2eA 397 2.48e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 2vil 126 2.52e+01 2vil d.109.1.1 40830 1erv 105 2.55e+01 1erv c.47.1.1 32743 1oh0A 131 2.58e+01 d.17.4.3 87004 1sty 150 2.59e+01 1snc b.40.1.1 24812 1jokA 149 2.59e+01 1snc b.40.1.1 63214 1tuc 63 2.63e+01 1tuc b.34.2.1 24492 1aj8A 371 2.63e+01 1aj8A a.103.1.1 18900 1lfjA 119 2.64e+01 1qgtA 149 2.64e+01 1qgtA a.62.1.1 18135 1djxA 624 2.66e+01 1djxB a.39.1.7 17342 b.7.1.1 23159 c.1.18.1 29587 1djxB 624 2.69e+01 1djxB a.39.1.7 17343 b.7.1.1 23160 c.1.18.1 29588 1aiu 105 2.70e+01 1erv c.47.1.1 32746 1kepA 348 2.70e+01 c.2.1.2 68536 1erw 105 2.71e+01 1erv c.47.1.1 32745 1a9xA 1058 2.75e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1lepA 99 2.78e+01 1lepA b.35.1.1 24649 1dk8A 147 2.80e+01 1agrE a.91.1.1 18548 1eceA 358 2.96e+01 1eceA c.1.8.3 28813 1ac5 483 3.04e+01 1ac5 c.69.1.5 34653 1c0dA 358 3.06e+01 1eceA c.1.8.3 28815 1vioA 243 3.08e+01 unknown_sccs -10154 d.66.1.5 -10240 2eifA 136 3.11e+01 1bkb b.34.5.2 24607 b.40.4.5 25339 1e79A 510 3.19e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1q7hA 153 3.35e+01 b.122.1.1 -5124 unknown_sccs -9313 1pqhA 143 3.35e+01 b.52.2.1 -4318 1fjgQ 105 3.36e+01 1fjfQ b.40.4.5 25352 1aw8B 91 3.37e+01 1aw8B 1opy 131 3.37e+01 1opy d.17.4.3 38113 1v5lA 103 3.37e+01 1dmmA 131 3.38e+01 1opy d.17.4.3 38114 1qcoA 423 3.59e+01 1qcnA b.34.8.1 59021 d.177.1.1 59022 1qq2A 199 3.63e+01 1qq2A c.47.1.10 33064 1epwA 1290 3.66e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1v8cA 168 3.68e+01 d.15.3.1 -9175 unknown_sccs -11012 1hyoA 421 3.74e+01 1qcnA b.34.8.1 59001 d.177.1.1 59002 1ewnA 219 3.75e+01 1bnkA b.46.1.2 25762 1ezjA 115 3.76e+01 1ezjA h.1.14.1 45638 2sns 149 3.77e+01 1snc b.40.1.1 24860 1cfr 285 3.79e+01 1cfr c.52.1.7 33312 1eq0A 158 3.83e+01 d.58.30.1 64909 1v2bA 177 3.88e+01 1ak7 174 3.89e+01 1cof d.109.1.2 40864 1bxrA 1073 3.93e+01 a.92.1.1 18570 c.24.1.1 31499 c.30.1.1 31697 c.30.1.1 31698 d.142.1.2 41542 d.142.1.2 41543 1b33N 67 3.95e+01 1b33N d.30.1.1 38459 1qtqA 553 3.96e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 1qtsA 247 3.99e+01 1qtsA b.1.10.1 22313 d.105.1.1 40789 1uwwA 191 4.00e+01 1gtrA 553 4.00e+01 1gtrA b.53.1.2 26939 c.26.1.1 31578