# 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 1t62A 166 6.44e-05 1khiA 176 6.18e-02 b.34.5.2 77408 b.40.4.5 77409 1f60A 458 1.58e-01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1ov3A 138 1.61e-01 b.34.2.1 87451 b.34.2.1 87452 1r6xA 395 2.07e-01 b.122.1.3 -5125 c.26.1.5 -6620 1jnyA 435 2.25e-01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1g8fA 511 2.61e-01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1oruA 195 4.31e-01 unknown_sccs -4390 1nt4A 391 6.62e-01 c.60.1.2 -7942 1fjgQ 105 7.20e-01 1fjfQ b.40.4.5 25352 1o26A 232 9.29e-01 d.207.1.1 86566 1o0xA 262 9.54e-01 d.127.1.1 80755 1e0tA 470 9.75e-01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1ltlA 279 1.09e+00 b.40.4.11 84701 1i1kA 309 1.16e+00 1daaA e.17.1.1 61533 1dkqA 410 1.16e+00 1dklA c.60.1.2 33998 1f20A 435 1.17e+00 b.43.4.1 64932 c.25.1.4 64933 1kzfA 230 1.18e+00 d.108.1.3 73354 1a9xB 379 1.21e+00 1c3oB c.8.3.1 30732 c.23.16.1 31409 1xgsA 295 1.42e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 1iyeA 309 1.45e+00 e.17.1.1 83786 1ng2A 193 1.78e+00 b.34.2.1 85660 b.34.2.1 85661 1mdc 133 1.86e+00 1hmt b.60.1.2 27198 1semA 58 2.09e+00 1ckaA b.34.2.1 24544 1ckaA 57 2.21e+00 1ckaA b.34.2.1 24459 1a49A 530 2.35e+00 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1o9yA 84 2.55e+00 unknown_sccs -4105 1rie 129 2.72e+00 1rie b.33.1.1 24427 1ewnA 219 2.73e+00 1bnkA b.46.1.2 25762 1vie 62 3.44e+00 1vie b.34.4.1 24592 1e3pA 757 3.58e+00 1e3hA a.4.9.1 16258 b.40.4.5 25328 d.14.1.4 37574 d.14.1.4 37575 d.52.3.1 38811 d.101.1.1 40697 d.101.1.1 40698 1fs0G 230 3.65e+00 1fs0G c.49.2.1 59999 1bco 327 3.98e+00 1bco b.48.1.1 26431 c.55.3.3 33676 1gmmA 133 4.01e+00 b.18.1.10 65314 1r0pA 312 4.35e+00 d.144.1.7 -11377 1aohA 147 4.36e+00 1aohA b.2.2.2 22401 1nnxA 109 4.40e+00 unknown_sccs -3899 1v5lA 103 4.55e+00 1g2bA 62 4.61e+00 1tud b.34.2.1 24488 1tuc 63 4.69e+00 1tuc b.34.2.1 24492 1rsy 152 4.75e+00 1rsy b.7.1.2 23192 1qd6C 240 4.78e+00 1qd5A 1ihrA 76 4.87e+00 1ihrA d.212.1.2 62392 1su4A 994 4.91e+00 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 2eifA 136 4.95e+00 1bkb b.34.5.2 24607 b.40.4.5 25339 1iz6A 138 5.31e+00 b.34.5.2 76976 b.40.4.5 76977 1bbzA 58 5.48e+00 1bbzA b.34.2.1 24477 1aboA 62 5.76e+00 1bbzA b.34.2.1 24474 1o54A 277 5.79e+00 c.66.1.13 -8095 1whi 122 5.86e+00 1whi b.39.1.1 24810 1qmeA 702 6.11e+00 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1blxA 326 6.14e+00 1hcl d.144.1.7 41596 1pueE 89 6.25e+00 1awcA a.4.5.21 16165 1qxyA 252 6.26e+00 d.127.1.1 -10993 1bb9 115 6.31e+00 1bb9 b.34.2.1 24554 1l6oA 95 6.39e+00 b.36.1.1 84534 1i7oA 429 6.56e+00 1i7oA d.177.1.1 61893 d.177.1.1 61894 1rpyA 114 6.57e+00 d.93.1.1 -10636 1qcsA 211 6.91e+00 1qcsA b.52.2.3 26927 d.31.1.1 38461 1k47A 337 7.05e+00 d.14.1.5 72040 d.58.26.4 72041 1gttA 429 7.17e+00 d.177.1.1 70529 d.177.1.1 70530 1v7wA 807 7.37e+00 1o7iA 119 7.60e+00 b.40.4.3 86642 1i8dA 213 7.79e+00 b.43.4.3 61953 b.43.4.3 61954 1aw8B 91 7.88e+00 1aw8B 1g6oA 330 7.90e+00 1g6oA c.37.1.11 32430 1uxxX 133 7.94e+00 b.18.1.10 -3107 1dm9A 133 8.46e+00 1dm9A d.66.1.3 39560 1mfgA 95 8.68e+00 b.36.1.1 79043 1g5cA 170 8.76e+00 1g5cA c.53.2.1 60264 1pv9A 348 9.30e+00 c.55.2.1 -7610 d.127.1.1 -11000 1o65A 246 9.40e+00 unknown_sccs -4394 1hnjA 317 9.41e+00 1hn9A c.95.1.1 35969 c.95.1.1 35970 1bqyA 234 9.47e+00 5ptp b.47.1.2 26332 1q6hA 224 9.91e+00 d.26.1.1 -9487 1m1hA 248 1.01e+01 b.114.1.1 78415 d.58.42.1 78416 1f56A 91 1.02e+01 2cbp b.6.1.1 22896 1pl8A 356 1.06e+01 b.35.1.2 -3716 c.2.1.1 -5740 1gmuA 143 1.07e+01 b.107.1.1 65335 d.58.38.1 65336 1e8uA 454 1.18e+01 1e8tA b.68.1.1 59389 1usrA 454 1.19e+01 b.68.1.1 -4569 1vj0A 380 1.22e+01 b.35.1.2 -3697 c.2.1.1 -5721 1qwzA 235 1.27e+01 b.100.1.1 -4543 1khcA 147 1.28e+01 b.34.9.2 68608 1vg0A 650 1.29e+01 1uwwA 191 1.31e+01 1c24A 263 1.42e+01 1c24A d.127.1.1 41148 1sesA 421 1.43e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1p9kA 79 1.45e+01 unknown_sccs -10238 1dvoA 152 1.50e+01 1dvoA a.136.1.1 19623 1nscA 390 1.54e+01 2qwc b.68.1.1 27591 1aiw 62 1.57e+01 1aiw b.72.2.1 27808 1gcqA 61 1.58e+01 1ckaA b.34.2.1 60434 1uj0A 62 1.60e+01 b.34.2.1 -3570 1jvbA 347 1.60e+01 b.35.1.2 77181 c.2.1.1 77182 1cr5A 189 1.67e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1m4zA 238 1.68e+01 b.34.12.1 78630 1vi4A 174 1.70e+01 c.8.7.1 -6073 1q3eA 207 1.76e+01 b.82.3.2 -4922 1chmA 401 1.77e+01 1chmA c.55.2.1 33545 d.127.1.1 41142 1v2bA 177 1.77e+01 1fjgD 209 1.78e+01 1c05A d.66.1.2 39553 1q3oA 109 1.85e+01 b.36.1.1 -3776 1eu1A 780 1.85e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1pqhA 143 1.88e+01 b.52.2.1 -4318 1jo8A 58 1.92e+01 b.34.2.1 71774 1ucyH 150 1.94e+01 1ucyH 1pyaB 228 1.96e+01 1pyaB 1iujA 106 1.98e+01 unknown_sccs -9953 1mjnA 179 1.98e+01 c.62.1.1 79210 1ow1A 195 2.15e+01 unknown_sccs -4422 1vpi 122 2.21e+01 1poa a.133.1.2 19559 1mv3A 213 2.23e+01 b.34.2.1 -3555 1utiA 58 2.26e+01 b.34.2.1 -3552 1qtqA 553 2.26e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 1nhkL 144 2.28e+01 1npk d.58.6.1 39142 1oebA 62 2.29e+01 b.34.2.1 86909 1e0gA 48 2.32e+01 1e01A d.7.1.1 37325 1lfaA 187 2.38e+01 1ido c.62.1.1 34122 1s3iA 310 2.38e+01 b.46.1.1 -4111 c.65.1.1 -8042 1py5A 326 2.41e+01 1l4iA 206 2.42e+01 b.1.11.1 73564 b.7.2.1 73565 1iz0A 302 2.43e+01 b.35.1.2 83821 c.2.1.1 83822 1jsmA 325 2.49e+01 b.19.1.2 63264 1lylA 504 2.49e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 3erk 364 2.53e+01 1hcl d.144.1.7 41654 1r3eA 309 2.63e+01 b.122.1.1 -5118 unknown_sccs -10146 1ekfA 365 2.64e+01 1ekfA e.17.1.1 59445 1ia8A 289 2.65e+01 1ia8A d.144.1.7 62112 1ib8A 164 2.65e+01 b.38.2.1 71168 d.52.4.1 71169 1kliH 254 2.71e+01 b.47.1.2 77435 1m2rA 327 2.71e+01 d.144.1.7 84760 1h2kA 349 2.74e+01 b.82.2.6 76572 1nngA 153 2.75e+01 d.38.1.1 -9636 8acn 754 2.76e+01 1amj c.8.2.1 30724 c.83.1.1 35400 2napA 723 2.76e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1f21A 155 2.80e+01 2rn2 c.55.3.1 33550 1uheA 97 2.82e+01 1uisA 231 2.82e+01 d.22.1.1 -9450 1it2A 146 2.86e+01 a.1.1.2 66365 1csn 298 2.86e+01 1csn d.144.1.7 41664 1gqeA 365 2.92e+01 e.38.1.1 70351 1bdo 80 2.95e+01 1bdo b.84.1.1 28214 1rtfB 252 2.96e+01 5ptp 2cbp 96 3.01e+01 2cbp b.6.1.1 22895 1hpcA 131 3.04e+01 1htp b.84.1.1 28221 1qauA 112 3.08e+01 1qauA b.36.1.1 24779 1pbjA 125 3.14e+01 d.37.1.1 -9608 d.37.1.1 -9609 1jxpA 186 3.17e+01 1jxpA b.47.1.3 26402 1tmy 120 3.19e+01 1dbwA c.23.1.1 31083 1j7nA 776 3.20e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1ktaA 365 3.21e+01 e.17.1.1 77533 2cpgA 45 3.24e+01 2cpgA unknown_sccs 17455 1ng4A 390 3.30e+01 c.3.1.2 85666 d.16.1.3 85667 1fl1A 230 3.36e+01 1at3A b.57.1.1 27023 1pk6C 129 3.37e+01 b.22.1.1 -3293 3seb 238 3.40e+01 3seb b.40.2.2 25184 d.15.6.1 37773 4ubpB 126 3.43e+01 1ubpB b.85.3.1 28345 1ey4A 149 3.43e+01 1snc b.40.1.1 24815 1ofgA 381 3.47e+01 1ofgA c.2.1.3 30064 d.81.1.5 39979 1t82A 155 3.51e+01 1a0i 348 3.52e+01 1a0i b.40.4.6 25363 d.142.2.1 41577 1fvrA 327 3.53e+01 d.144.1.7 60047 1qq5A 253 3.53e+01 1qq5A c.108.1.1 43327 1danH 254 3.58e+01 5ptp b.47.1.2 26292 1c96A 753 3.58e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1qq7A 253 3.67e+01 1qq5A c.108.1.1 43329 1pfo 500 3.69e+01 1pfo f.9.1.1 43826 1jltA 122 3.70e+01 a.133.1.2 66867 1o6aA 96 3.71e+01 unknown_sccs -4101 1c7gA 456 3.72e+01 c.67.1.2 -8153 1jl1A 155 3.74e+01 c.55.3.1 66821 1hstA 90 3.75e+01 1hstA a.4.5.13 16140 1ixlA 131 3.75e+01 d.38.1.5 -9705 1gg6C 97 3.75e+01 5ptp 1hyoA 421 3.79e+01 1qcnA b.34.8.1 59001 d.177.1.1 59002 1i1qB 192 3.81e+01 1qdlB c.23.16.1 61544 1jhdA 396 3.84e+01 b.122.1.3 66712 c.26.1.5 66713 1mctA 223 3.85e+01 5ptp b.47.1.2 25961 1db3A 372 3.85e+01 1db3A c.2.1.2 29813 1qs1A 462 3.86e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1pht 85 3.86e+01 1ckaA b.34.2.1 24483 1se8A 301 3.87e+01 1a6o 332 3.88e+01 1a6o 1qnjA 240 3.90e+01 5ptp b.47.1.2 26238 1v74A 107 3.90e+01 unknown_sccs -9319 1kyqA 274 3.91e+01 c.2.1.11 73281 e.37.1.1 73282 1kg1A 60 3.92e+01 unknown_sccs -12597 1k8kD 300 3.97e+01 d.198.2.1 68309 d.198.2.1 68310